Aamar, E., and Dawid, I.B. (2010) Sox17 and chordin are required for formation of Kupffer's vesicle and left-right asymmetry determination in zebrafish. Developmental Dynamics : an official publication of the American Association of Anatomists. 239(11):2980-2988

Ackerman, S.D., Garcia, C., Piao, X., Gutmann, D.H., Monk, K.R. (2015) The adhesion GPCR Gpr56 regulates oligodendrocyte development via interactions with Gα12/13 and RhoA. Nature communications. 6:6122

Affaticati, P., Yamamoto, K., Rizzi, B., Bureau, C., Peyriéras, N., Pasqualini, C., Demarque, M., Vernier, P. (2015) Identification of the optic recess region as a morphogenetic entity in the zebrafish forebrain. Scientific Reports. 5:8738

Ahn, D.-G., Kourakis, M.J., Rohde, L.A., Silver, L.M., and Ho, R.K. (2002) T-box gene tbx5 is essential for formation of the pectoral limb bud. Nature. 417(6890):754-758

Akimenko, M.A. and Ekker, M. (1995) Anterior duplication of the Sonic hedgehog expression pattern in the pectoral fin buds of zebrafish treated with retinoic acid. Developmental Biology. 170:243-247

Albert, S., Müller, F., Fischer, N., Biellmann, D., Neumann, C., Blader, P., and Strähle, U. (2003) Cyclops-independent floor plate differentiation in zebrafish embryos. Developmental Dynamics : an official publication of the American Association of Anatomists. 226(1):59-66

Alexa, K., Choe, S.K., Hirsch, N., Etheridge, L., Laver, E., and Sagerström, C.G. (2009) Maternal and zygotic aldh1a2 activity is required for pancreas development in zebrafish. PLoS One. 4(12):e8261

Algama, M., Tasker, E., Williams, C., Parslow, A.C., Bryson-Richardson, R.J., Keith, J.M. (2017) Genome-wide identification of conserved intronic non-coding sequences using a Bayesian segmentation approach. BMC Genomics. 18:259

Amacher, S.L., Draper, B.W., Summers, B.R., and Kimmel, C.B. (2002) The zebrafish T-box genes no tail and spadetail are required for development of trunk and tail mesoderm and medial floor plate. Development (Cambridge, England). 129(14):3311-3323

Aman, A.J., Fulbright, A.N., Parichy, D.M. (2018) Wnt/β-catenin regulates an ancient signaling network during zebrafish scale development. eLIFE. 7:

Appel, B., Fritz, A., Westerfield, M., Grunwald, D.J., Eisen, J.S., and Riley, B.B. (1999) Delta-mediated specification of midline cell fates in zebrafish embryos. Current biology : CB. 9:247-256

Araya, C., Tawk, M., Girdler, G.C., Costa, M., Carmona-Fontaine, C., and Clarke, J.D. (2014) Mesoderm is required for coordinated cell movements within zebrafish neural plate in vivo. Neural Development. 9(1):9

Arnold, C.R., Lamont, R.E., Walker, J.T., Spice, P.J., Chan, C.K., Ho, C.Y., Childs, S.J. (2015) Comparative analysis of genes regulated by Dzip1/iguana and Hedgehog in zebrafish. Developmental Dynamics : an official publication of the American Association of Anatomists. 244(2):211-23

Ata, H., Ekstrom, T.L., Martínez-Gálvez, G., Mann, C.M., Dvornikov, A.V., Schaefbauer, K.J., Ma, A.C., Dobbs, D., Clark, K.J., Ekker, S.C. (2018) Robust Activation of Microhomology-mediated End Joining for Precision Gene Editing Applications. PLoS Genetics. 14:e1007652

Azevedo, A.S., Sousa, S., Jacinto, A., and Saude, L. (2012) An amputation resets positional information to a proximal identity in the regenerating zebrafish caudal fin. BMC Developmental Biology. 12(1):24

Azuma, M., Toyama, R., Laver, E., and Dawid, I.B. (2006) Perturbation of rRNA synthesis in the bap28 mutation leads to apoptosis mediated by p53 in the zebrafish central nervous system. The Journal of biological chemistry. 281(19):13309-13316

Balczerski, B., Matsutani, M., Castillo, P., Osborne, N., Stainier, D.Y., and Crump, J.G. (2012) Analysis of Sphingosine-1-phosphate signaling mutants reveals endodermal requirements for the growth but not dorsoventral patterning of jaw skeletal precursors. Developmental Biology. 361(2):230-241

Banerji, R., Skibbens, R.V., Iovine, M.K. (2017) Cohesin mediates Esco2-dependent transcriptional regulation in zebrafish regenerating fin model of Roberts syndrome. Biology Open. 6(12):1802-1813

Barresi, M.J., Hutson, L.D., Chien, C.B., and Karlstrom, R.O. (2005) Hedgehog regulated Slit expression determines commissure and glial cell position in the zebrafish forebrain. Development (Cambridge, England). 132(16):3643-3656

Barske, L., Fabian, P., Hirschberger, C., Jandzik, D., Square, T., Xu, P., Nelson, N., Yu, H.V., Medeiros, D.M., Gillis, J.A., Crump, J.G. (2020) Evolution of vertebrate gill covers via shifts in an ancient Pou3f3 enhancer. Proceedings of the National Academy of Sciences of the United States of America. 117(40):24876-24884

Barth, K.A., Kishimoto, Y., Rohr, K.B., Seydler, C., Schulte-Merker, S., and Wilson, S.W. (1999) Bmp activity establishes a gradient of positional information throughout the entire neural plate. Development (Cambridge, England). 126(22):4977-4987

Beasley, A., Graham, C., Otter, R., and Elrod-Erickson, M. (2014) A molecular method for assessing the effects of potential contaminants on the rate of zebrafish (Danio rerio) development. Environmental toxicology and chemistry. 33(1):238-42

Begemann, G. and Ingham, P.W. (2000) Developmental regulation of Tbx5 in zebrafish embryogenesis. Mechanisms of Development. 90(2):299-304

Benato, F., Skobo, T., Gioacchini, G., Moro, I., Ciccosanti, F., Piacentini, M., Fimia, G.M., Carnevali, O., and Dalla Valle, L. (2013) Ambra1 knockdown in zebrafish leads to incomplete development due to severe defects in organogenesis. Autophagy. 9(4):476-495

Bergeron, S.A., Milla, L.A., Villegas, R., Shen, M.C., Burgess, S.M., Allende, M.L., Karlstrom, R.O., and Palma, V. (2008) Expression profiling identifies novel Hh/Gli-regulated genes in developing zebrafish embryos. Genomics. 91(2):165-177

Bertrand, C., Chatonnet, A., Takke, C., Yan, Y.-L., Postlethwait, J., Toutant, J.P., and Cousin, X. (2001) Zebrafish Acetylcholinesterase Is Encoded by a Single Gene Localized on Linkage Group 7: Gene structure and polymorphism; molecular forms and expression pattern during development. The Journal of biological chemistry. 276(1):464-474

Bhattacharya, P., Yan, Y.L., Postlethwait, J., and Rubin, D. (2011) Evolution of the vertebrate pth2 (tip39) gene family and the regulation of PTH type 2 receptor (pth2r) and its endogenous ligand pth2 by hedgehog signaling in zebrafish development. The Journal of endocrinology. 211(2):187-200

Bingham, S., Nasevicius, A., Ekker, S.C., and Chandrasekhar, A. (2001) Sonic hedgehog and tiggy-winkle hedgehog cooperatively induce zebrafish branchiomotor neurons. Genesis (New York, N.Y. : 2000). 30(3):170-174

Bink, R.J., Habuchi, H., Lele, Z., Dolk, E., Joore, J., Rauch, G.J., Geisler, R., Wilson, S.W., den Hertog, J., Kimata, K., and Zivkovic, D. (2003) Heparan sulfate 6-O-sulfotransferase is essential for muscle development in zebrafish. The Journal of biological chemistry. 278(33):31118-31127

Bisgrove, B.W., Essner, J.J., Yost, H.J. (2000) Multiple pathways in the midline regulate concordant brain, heart and gut left-right asymmetry. Development (Cambridge, England). 127(16):3567-3579

Blagden, C.S., P.D. Currie, P.W. Ingham, and S.M. Hughes (1997) Notochord induction of zebrafish slow muscle mediated by Sonic hedgehog. Genes & Development. 11(17):2163-2175

Boa-Amponsem, O., Zhang, C., Burton, D., Williams, K.P., Cole, G.J. (2020) Ethanol and cannabinoids regulate zebrafish GABAergic neuron development and behavior in a sonic hedgehog and fibroblast growth factor dependent mechanism. Alcoholism, clinical and experimental research. 44(7):1366-1377

Boggetti, B., Jasik, J., Takamiya, M., Strähle, U., Reugels, A.M., and Campos-Ortega, J.A. (2012) NBP, a zebrafish homolog of human Kank3, is a novel Numb interactor essential for epidermal integrity and neurulation. Developmental Biology. 365(1):164-174

Bontems, F., Fish, R.J., Borlat, I., Lembo, F., Chocu, S., Chalmel, F., Borg, J.P., Pineau, C., Neerman-Arbez, M., Bairoch, A., and Lane, L. (2014) C2orf62 and TTC17 Are Involved in Actin Organization and Ciliogenesis in Zebrafish and Human. PLoS One. 9(1):e86476

Braasch, I., Gehrke, A.R., Smith, J.J., Kawasaki, K., Manousaki, T., Pasquier, J., Amores, A., Desvignes, T., Batzel, P., Catchen, J., Berlin, A.M., Campbell, M.S., Barrell, D., Martin, K.J., Mulley, J.F., Ravi, V., Lee, A.P., Nakamura, T., Chalopin, D., Fan, S., Wcisel, D., Cañestro, C., Sydes, J., Beaudry, F.E., Sun, Y., Hertel, J., Beam, M.J., Fasold, M., Ishiyama, M., Johnson, J., Kehr, S., Lara, M., Letaw, J.H., Litman, G.W., Litman, R.T., Mikami, M., Ota, T., Saha, N.R., Williams, L., Stadler, P.F., Wang, H., Taylor, J.S., Fontenot, Q., Ferrara, A., Searle, S.M., Aken, B., Yandell, M., Schneider, I., Yoder, J.A., Volff, J.N., Meyer, A., Amemiya, C.T., Venkatesh, B., Holland, P.W., Guiguen, Y., Bobe, J., Shubin, N.H., Di Palma, F., Alföldi, J., Lindblad-Toh, K., Postlethwait, J.H. (2016) The spotted gar genome illuminates vertebrate evolution and facilitates human-teleost comparisons. Nature Genetics. 48(4):427-37

Brand, M., Heisenberg, C.P., Warga, R.M., Pelegri, F., Karlstrom, R.O., Beuchle, D., Picker, A., Jiang, Y.J., Furutani-Seiki, M., van Eeden, F.J., Granato, M., Haffter, P., Hammerschmidt, M., Kane, D.A., Kelsh, R.N., Mullins, M.C., Odenthal, J., and Nüsslein-Volhard, C. (1996) Mutations affecting development of the midline and general body shape during zebrafish embryogenesis. Development (Cambridge, England). 123:129-142

Brożko, N., Baggio, S., Lipiec, M.A., Jankowska, M., Szewczyk, Ł.M., Gabriel, M.O., Chakraborty, C., Ferran, J.L., Wiśniewska, M.B. (2022) Genoarchitecture of the Early Postmitotic Pretectum and the Role of Wnt Signaling in Shaping Pretectal Neurochemical Anatomy in Zebrafish. Frontiers in Neuroanatomy. 16:838567

Brusegan, C., Pistocchi, A., Frassine, A., Della Noce, I., Schepis, F., and Cotelli, F. (2012) ccdc80-l1 Is Involved in Axon Pathfinding of Zebrafish Motoneurons. PLoS One. 7(2):e31851

Burcklé, C., Gaudé, H.M., Vesque, C., Silbermann, F., Salomon, R., Jeanpierre, C., Antignac, C., Saunier, S., and Schneider-Maunoury, S. (2011) Control of the Wnt pathways by nephrocystin-4 is required for morphogenesis of the zebrafish pronephros. Human molecular genetics. 20(13):2611-27

Burton, D., Zhang, C., Boa-Amponsem, O., Mackinnon, S., Cole, G.J. (2017) Long-term behavioral change as a result of acute ethanol exposure in zebrafish: Evidence for a role for sonic hedgehog but not retinoic acid signaling. Neurotoxicology and teratology. 61:66-73

Cadwalader, E.L., Condic, M.L., and Yost, H.J. (2012) 2-O-sulfotransferase regulates Wnt signaling, cell adhesion and cell cycle during zebrafish epiboly. Development (Cambridge, England). 139(7):1296-1305

Camarata, T., Snyder, D., Schwend, T., Klosowiak, J., Holtrup, B., and Simon, H.G. (2010) Pdlim7 is required for maintenance of the mesenchymal/epidermal Fgf signaling feedback loop during zebrafish pectoral fin development. BMC Developmental Biology. 10:104

Cantu, J.A., Flowers, G.P., and Topczewski, J. (2013) Notum homolog plays a novel role in primary motor innervation. The Journal of neuroscience : the official journal of the Society for Neuroscience. 33(5):2177-2187

Cardozo, M.J., Sánchez-Arrones, L., Sandonis, A., Sánchez-Camacho, C., Gestri, G., Wilson, S.W., Guerrero, I., Bovolenta, P. (2014) Cdon acts as a Hedgehog decoy receptor during proximal-distal patterning of the optic vesicle. Nature communications. 5:4272

Carrillo-Rosas, S., Weber, C., Fievet, L., Messaddeq, N., Karam, A., Trottier, Y. (2018) Loss of zebrafish Ataxin-7, a SAGA subunit responsible for SCA7 retinopathy, causes ocular coloboma and malformation of photoreceptors. Human molecular genetics. 28(6):912-927

Chakraborty, A., Uechi, T., Higa, S., Torihara, H., and Kenmochi, N. (2009) Loss of ribosomal protein L11 affects zebrafish embryonic development through a p53-dependent apoptotic response. PLoS One. 4(1):e4152

Chandrasekar, G., Arner, A., Kitambi, S.S., Dahlman-Wright, K., and Lendahl, M.A. (2011) Developmental toxicity of the environmental pollutant 4-nonylphenol in zebrafish. Neurotoxicology and teratology. 33(6):752-64

Chandrasekhar, A., Schauerte, H.E., Haffter, P., and Kuwada, J.Y. (1999) The zebrafish detour gene is essential for cranial but not spinal motor neuron induction. Development (Cambridge, England). 126(12):2727-2737

Chang, B.E., Blader, P., Fischer, N., Ingham, P.W., and Strähle, U. (1997) Axial (HNF3b) and retinoic acid receptors are regulators of the zebrafish sonic hedgehog promoter. The EMBO journal. 16(13):3955-3964

Chang, L.L., and Kessler, D.S. (2010) Foxd3 is an Essential Nodal-Dependent Regulator of Zebrafish Dorsal Mesoderm Development. Developmental Biology. 342(1):39-50

Chatterjee, M., Guo, Q., Weber, S., Scholpp, S., and Li, J.Y. (2014) Pax6 regulates the formation of the habenular nuclei by controlling the temporospatial expression of Shh in the diencephalon in vertebrates. BMC Biology. 12(1):13

Cheesman, S.E., and Eisen, J.S. (2004) gsh1 demarcates hypothalamus and intermediate spinal cord in zebrafish. Gene expression patterns : GEP. 5(1):107-112

Chen, C.H., Merriman, A.F., Savage, J., Willer, J., Wahlig, T., Katsanis, N., Yin, V.P., Poss, K.D. (2015) Transient laminin beta 1a Induction Defines the Wound Epidermis during Zebrafish Fin Regeneration. PLoS Genetics. 11:e1005437

Chen, J., Huang, C., Truong, L., La Du, J., Tilton, S.C., Waters, K.M., Lin, K., Tanguay, R.L., and Dong, Q. (2012) Early life stage trimethyltin exposure induces ADP-ribosylation factor expression and perturbs the vascular system in zebrafish. Toxicology. 302(2-3):129-139

Chen, J.-N., van Eeden, F.J.M., Warren, K.S., Chin, A., Nüsslein-Volhard, C., Haffter, P., and Fishman, M.C. (1997) Left-right pattern of cardiac BMP4 may drive asymmetry of the heart in zebrafish. Development (Cambridge, England). 124(21):4373-4382

Chen, J.W., Niu, X., King, M.J., Noedl, M.T., Tabin, C.J., Galloway, J.L. (2020) The mevalonate pathway is a critical regulator of tendon cell specification. Development (Cambridge, England). 147(12):

Chen, X., Guo, W., Lei, L., Guo, Y., Yang, L., Han, J., Zhou, B. (2020) Bioconcentration and developmental neurotoxicity of novel brominated flame retardants, hexabromobenzene and pentabromobenzene in zebrafish. Environmental pollution (Barking, Essex : 1987). 268:115895

Chen, Y.H., Wang, Y.H., Yu, T.H., Wu, H.J., and Pai, C.W. (2009) Transgenic zebrafish line with over-expression of Hedgehog on the skin: a useful tool to screen Hedgehog-inhibiting compounds. Transgenic Research. 18(6):855-864

Cheng, C.W., Yan, C.H., Choy, S.W., Hui, M.N., Hui, C.C., and Cheng, S.H. (2007) Zebrafish homologue irx1a is required for the differentiation of serotonergic neurons. Developmental Dynamics : an official publication of the American Association of Anatomists. 236(9):2661-2667

Cheng, R., Jia, Y., Dai, L., Liu, C., Wang, J., Li, G., Yu, L. (2017) Tris(1,3-dichloro-2-propyl) phosphate disrupts axonal growth, cholinergic system and motor behavior in early life zebrafish. Aquatic toxicology (Amsterdam, Netherlands). 192:7-15

Chow, E.S., Hui, M.N., Cheng, C.W., and Cheng, S.H. (2009) Cadmium affects retinogenesis during zebrafish embryonic development. Toxicology and applied pharmacology. 235(1):68-76

Chuang, J.-C. and Raymond, P.A. (2001) Zebrafish genes rx1 and rx2 help define the region of forebrain that gives rise to retina. Developmental Biology. 231:13-30

Chung, A.Y., Kim, S., Kim, E., Kim, D., Jeong, I., Cha, Y.R., Bae, Y.K., Park, S.W., Lee, J., and Park, H.C. (2013) Indian hedgehog B function is required for the specification of oligodendrocyte progenitor cells in the zebrafish CNS. The Journal of neuroscience : the official journal of the Society for Neuroscience. 33(4):1728-1733

Clements, W.K., and Kimelman, D. (2005) LZIC regulates neuronal survival during zebrafish development. Developmental Biology. 283(2):322-334

Clements, W.K., Ong, K.G., and Traver, D. (2009) Zebrafish wnt3 is expressed in developing neural tissue. Developmental Dynamics : an official publication of the American Association of Anatomists. 238(7):1788-1795

Concordet, J.P., Lewis, K.E., Moore, J.W., Goodrich, L.V., Johnson, R.L., Scott, M.P., and Ingham, P.W. (1996) Spatial regulation of a zebrafish patched homologue reflects the roles of sonic hedgehog and protein kinase A in neural tube and somite patterning. Development (Cambridge, England). 122(9):2835-2846

Corbit, K.C., Aanstad, P., Singla, V., Norman, A.R., Stainier, D.Y., and Reiter, J.F. (2005) Vertebrate Smoothened functions at the primary cilium. Nature. 437(7061):1018-1021

Cotellessa, L., Marelli, F., Duminuco, P., Adamo, M., Papadakis, G.E., Bartoloni, L., Sato, N., Lang-Muritano, M., Troendle, A., Dhillo, W.S., Morelli, A., Guarnieri, G., Pitteloud, N., Persani, L., Bonomi, M., Giacobini, P., Vezzoli, V. (2023) Defective Jagged1 signaling impacts GnRH development and contributes to congenital hypogonadotropic hypogonadism. JCI insight. 8(5):

Coutinho, P., Parsons, M.J., Thomas, K.A., Hirst, E.M., Saude, L., Campos, I., Williams, P.H., Stemple, D.L. (2004) Differential Requirements for COPI Transport during Vertebrate Early Development. Developmental Cell. 7(4):547-558

Cui, Z., Clark, K.J., Kaufman, C.D., and Hackett, P.B. (2001) Inhibition of skiA and skiB gene expression ventralizes zebrafish embryos. Genesis (New York, N.Y. : 2000). 30(3):149-153

Cunliffe, V.T. (2004) Histone deacetylase 1 is required to repress Notch target gene expression during zebrafish neurogenesis and to maintain the production of motoneurones in response to hedgehog signalling. Development (Cambridge, England). 131(12):2983-2995

Curtin, E., Hickey, G., Kamel, G., Davidson, A.J., and Liao, E.C. (2011) Zebrafish wnt9a is expressed in pharyngeal ectoderm and is required for palate and lower jaw development. Mechanisms of Development. 128(1-2):104-115

Dancevic, C.M., Gibert, Y., Berger, J., Smith, A.D., Liongue, C., Stupka, N., Ward, A.C., McCulloch, D.R. (2018) The ADAMTS5 Metzincin Regulates Zebrafish Somite Differentiation. International Journal of Molecular Sciences. 19(3)

Danesin, C., Peres, J.N., Johansson, M., Snowden, V., Cording, A., Papalopulu, N., and Houart, C. (2009) Integration of telencephalic Wnt and hedgehog signaling center activities by Foxg1. Developmental Cell. 16(4):576-587

Dash, S.N., Hakonen, E., Ustinov, J., Otonkoski, T., Andersson, O., Lehtonen, S. (2016) sept7b is required for the differentiation of pancreatic endocrine progenitors. Scientific Reports. 6:24992

de Campos-Baptista, M.I., Holtzman, N.G., Yelon, D., and Schier, A.F. (2008) Nodal signaling promotes the speed and directional movement of cardiomyocytes in zebrafish. Developmental Dynamics : an official publication of the American Association of Anatomists. 237(12):3624-3633

Dean, B.J., Erdogan, B., Gamse, J.T., Wu, S.Y. (2014) Dbx1b defines the dorsal habenular progenitor domain in the zebrafish epithalamus. Neural Development. 9:20

Del Giacco, L., Sordino, P., Pistocchi, A., Andreakis, N., Tarallo, R., Di Benedetto, B., and Cotelli, F. (2006) Differential regulation of the zebrafish orthopedia1 gene during fate determination of diencephalic neurons. BMC Developmental Biology. 6:50

Dente, L., Gestri, G., Tsang, M., Kudoh, T., Wilson, S.W., Dawid, I.B., and Andreazzoli, M. (2011) Cloning and developmental expression of zebrafish pdzrn3. The International journal of developmental biology. 55(10-12):989-993

Diaz-Tellez, A., Zampedri, C., Ramos-Balderas, J.L., García-Hernández, F., Maldonado, E. (2016) The Zebrafish scarb2a Insertional Mutant Reveals a Novel Function for the Scarb2/Limp2 Receptor in Notochord Development. Developmental Dynamics : an official publication of the American Association of Anatomists. 245(4):508-19

diIorio, P., Alexa, K., Choe, S.K., Etheridge, L., and Sagerström, C.G. (2007) TALE-Family homeodomain proteins regulate endodermal sonic hedgehog expression and pattern the anterior endoderm. Developmental Biology. 304(1):221-231

Dixon Fox, M., and Bruce, A.E. (2009) Short- and long-range functions of Goosecoid in zebrafish axis formation are independent of Chordin, Noggin 1 and Follistatin-like 1b. Development (Cambridge, England). 136(10):1675-1685

Du, S.J. and Dienhart, M. (2001) Gli2 mediation of Hedgehog signals in slow muscle induction in zebrafish. Differentiation; research in biological diversity. 67(3):84-91

Dutta, S., Dietrich, J.E., Aspock, G., Burdine, R.D., Schier, A., Westerfield, M., and Varga, Z.M. (2005) pitx3 defines an equivalence domain for lens and anterior pituitary placode. Development (Cambridge, England). 132(7):1579-1590

Dworkin, S., Heath, J.K., Dejong-Curtain, T.A., Hogan, B.M., Lieschke, G.J., Malaterre, J., Ramsay, R.G., and Mantamadiotis, T. (2007) CREB activity modulates neural cell proliferation, midbrain-hindbrain organization and patterning in zebrafish. Developmental Biology. 307(1):127-141

Eaton, J.L., and Glasgow, E. (2006) The zebrafish bHLH PAS transcriptional regulator, single-minded 1 (sim1), is required for isotocin cell development. Developmental Dynamics : an official publication of the American Association of Anatomists. 235(8):2071-2082

Eberhart, J.K., He, X., Swartz, M.E., Yan, Y.L., Song, H., Boling, T.C., Kunerth, A.K., Walker, M.B., Kimmel, C.B., and Postlethwait, J.H. (2008) MicroRNA Mirn140 modulates Pdgf signaling during palatogenesis. Nature Genetics. 40(3):290-298

Edeling, M.A., Sanker, S., Shima, T., Umasankar, P.K., Höning, S., Kim, H.Y., Davidson, L.A., Watkins, S.C., Tsang, M., Owen, D.J., and Traub, L.M. (2009) Structural requirements for PACSIN/Syndapin operation during zebrafish embryonic notochord development. PLoS One. 4(12):e8150

Ekker, S.C., and Larson, J.D. (2001) Morphant Technology in Model Developmental Systems. Genesis (New York, N.Y. : 2000). 30:89-93

Elsen, G.E., Choi, L.Y., Millen, K.J., Grinblat, Y., and Prince, V.E. (2008) Zic1 and Zic4 regulate zebrafish roof plate specification and hindbrain ventricle morphogenesis. Developmental Biology. 314(2):376-392

Emerson, S.E., Stergas, H.R., Bupp-Chickering, S.O., Ebert, A.M. (2020) Shootin-1 Is Required for Nervous System Development in Zebrafish. Developmental Dynamics : an official publication of the American Association of Anatomists. 249(10):1285-1295

Ertzer, R., Muller, F., Hadzhiev, Y., Rathnam, S., Fischer, N., Rastegar, S., and Strähle, U. (2007) Cooperation of sonic hedgehog enhancers in midline expression. Developmental Biology. 301(2):578-589

Esterberg, R., Delalande, J.M., and Fritz, A. (2008) Tailbud-derived Bmp4 drives proliferation and inhibits maturation of zebrafish chordamesoderm. Development (Cambridge, England). 135(23):3891-3901

Ettl, A.K., Holzschuh, J., and Driever, W. (2006) The zebrafish mutation m865 affects formation of dopaminergic neurons and neuronal survival, and maps to a genetic interval containing the sepiapterin reductase locus. Anatomy and embryology. 211(7):73-86

Evron, T., Philipp, M., Lu, J., Meloni, A.R., Burkhalter, M., Chen, W., and Caron, M.G. (2011) Growth arrest Specific 8 (Gas8) and GPCR kinase 2 (GRK2) cooperate in the control of smoothened signaling. The Journal of biological chemistry. 286(31):27676-86

Fan, X., Yang, H., Hu, L., Wang, D., Wang, R., Hao, A., Chen, X. (2021) Propofol impairs specification of retinal cell types in zebrafish by inhibiting Zisp-mediated Noggin-1 palmitoylation and trafficking. Stem Cell Research & Therapy. 12:195

Farooq, M., Lindbæk, L., Krogh, N., Doganli, C., Keller, C., Mönnich, M., Gonçalves, A.B., Sakthivel, S., Mang, Y., Fatima, A., Andersen, V.S., Hussain, M.S., Eiberg, H., Hansen, L., Kjaer, K.W., Gopalakrishnan, J., Pedersen, L.B., Møllgård, K., Nielsen, H., Baig, S.M., Tommerup, N., Christensen, S.T., Larsen, L.A. (2020) RRP7A links primary microcephaly to dysfunction of ribosome biogenesis, resorption of primary cilia, and neurogenesis. Nature communications. 11:5816

Fauny, J.D., Thisse, B., and Thisse, C. (2009) The entire zebrafish blastula-gastrula margin acts as an organizer dependent on the ratio of Nodal to BMP activity. Development (Cambridge, England). 136(22):3811-3819

Feijoo, C.G., Saldias, M.P., De la Paz, J.F., Gómez-Skarmeta, J.L., and Allende, M.L. (2009) Formation of posterior cranial placode derivatives requires the Iroquois transcription factor irx4a. Molecular and cellular neurosciences. 40(3):328-337

Felix, L.M., Serafim, C., Valentim, A.M., Antunes, L.M., Campos, S., Matos, M., Coimbra, A.M. (2016) Embryonic stage-dependent teratogenicity of ketamine in zebrafish (Danio rerio). Chemical Research in Toxicology. 29(8):1298-309

Fischer, S., Draper, B.W., and Neumann, C.J. (2003) The zebrafish fgf24 mutant identifies an additional level of Fgf signaling involved in vertebrate forelimb initiation. Development (Cambridge, England). 130(15):3515-3524

Fischer, S., Prykhozhij, S., Rau, M.J., and Neumann, C.J. (2007) Mutation of Zebrafish caf-1b Results in S Phase Arrest, Defective Differentiation, and p53-Mediated Apoptosis During Organogenesis. Cell cycle (Georgetown, Tex.). 6(23):2962-2969

Flinn, L.J., Keatinge, M., Bretaud, S., Mortiboys, H., Matsui, H., De Felice, E., Woodroof, H.I., Brown, L., McTighe, A., Soellner, R., Allen, C.E., Heath, P.R., Milo, M., Muqit, M.M., Reichert, A.S., Köster, R.W., Ingham, P.W., and Bandmann, O. (2013) TigarB causes mitochondrial dysfunction and neuronal loss in PINK1 deficiency. Annals of neurology. 74(6):837-47

Fontaine, R., Affaticati, P., Bureau, C., Colin, I., Demarque, M., Dufour, S., Vernier, P., Yamamoto, K., Pasqualini, C. (2015) The Dopaminergic Neurons Controlling Anterior Pituitary Functions: Anatomy and Ontogenesis in Zebrafish. Endocrinology. 156(8):2934-48

Formstone, C.J., and Mason, I. (2005) Combinatorial activity of Flamingo proteins directs convergence and extension within the early zebrafish embryo via the planar cell polarity pathway. Developmental Biology. 282(2):320-335

Freitas, R., Gómez-Marín, C., Wilson, J.M., Casares, F., and Gómez-Skarmeta, J.L. (2012) Hoxd13 contribution to the evolution of vertebrate appendages. Developmental Cell. 23(6):1219-1229

Frisca, F., Colquhoun, D., Goldshmit, Y., Änkö, M.L., Pébay, A., Kaslin, J. (2016) Role of ectonucleotide pyrophosphatase/phosphodiesterase 2 in the midline axis formation of zebrafish. Scientific Reports. 6:37678

Fushimi, S., Wada, N., Nohno, T., Tomita, M., Saijoh, K., Sunami, S., and Katsuyama, H. (2009) 17beta-Estradiol inhibits chondrogenesis in the skull development of zebrafish embryos. Aquatic toxicology (Amsterdam, Netherlands). 95(4):292-298

Félix, L.M., Luzio, A., Antunes, L., Coimbra, A.M., Valentim, A. (2020) Malformations and mortality in zebrafish early stages associated with elevated caspase activity after 24 h exposure to MS-222. Toxicology and applied pharmacology. 412:115385

Fürthauer, M., Reifers, F., Brand, M., Thisse, B., and Thisse, C. (2001) sprouty4 acts in vivo as a feedback-induced antagonist of FGF signaling in zebrafish. Development (Cambridge, England). 128(12):2175-2186

Fürthauer, M., Van Celst, J., Thisse, C., and Thisse, B. (2004) Fgf signalling controls the dorsoventral patterning of the zebrafish embryo. Development (Cambridge, England). 131(12):2853-2864

Garnaas, M.K., Cutting, C.C., Meyers, A., Kelsey, P.B., Harris, J.M., North, T.E., and Goessling, W. (2012) Rargb regulates organ laterality in a zebrafish model of right atrial isomerism. Developmental Biology. 372(2):178-189

Gates, K.P., Mentzer, L., Karlstrom, R.O., and Sirotkin, H.I. (2010) The transcriptional repressor REST/NRSF modulates hedgehog signaling. Developmental Biology. 340(2):293-305

Gaudin, A., Hofmeister, W., and Key, B. (2012) Chemoattractant axon guidance cues regulate de novo axon trajectories in the embryonic forebrain of zebrafish. Developmental Biology. 367(2):126-139

Gehrig, J., Reischl, M., Kalmar, E., Ferg, M., Hadzhiev, Y., Zaucker, A., Song, C., Schindler, S., Liebel, U., and Muller, F. (2009) Automated high-throughput mapping of promoter-enhancer interactions in zebrafish embryos. Nature Methods. 6(12):911-916

George, A., Lee, J., Liu, J., Kim, S., Brooks, B.P. (2022) Zebrafish model of RERE syndrome recapitulates key ophthalmic defects that are rescued by small molecule inhibitor of shh signaling. Developmental Dynamics : an official publication of the American Association of Anatomists. 252(4):495-509

Ghiselli, G., and Farber, S.A. (2005) D-glucuronyl C5-epimerase acts in dorso-ventral axis formation in zebrafish. BMC Developmental Biology. 5:19

Giraldez, A.J., Cinalli, R.M., Glasner, M.E., Enright, A.J., Thomson, M.J., Baskerville, S., Hammond, S.M., Bartel, D.P., and Schier, A.F. (2005) MicroRNAs Regulate Brain Morphogenesis in Zebrafish. Science (New York, N.Y.). 308(5723):833-838

Gongal, P.A., and Waskiewicz, A.J. (2008) Zebrafish model of Holoprosencephaly demonstrates a key role for TGIF in regulating retinoic acid metabolism. Human molecular genetics. 17(4):525-538

Gonsar, N., Coughlin, A., Clay-Wright, J.A., Borg, B.R., Kindt, L.M., Liang, J.O. (2016) Temporal and spatial requirements for Nodal-induced anterior mesendoderm and mesoderm in anterior neurulation. Genesis (New York, N.Y. : 2000). 54(1):3-18

Gonzalez-Nunez, V., Nocco, V., and Budd, A. (2010) Characterization of drCol 15a1b: A Novel Component of the Stem Cell Niche in the Zebrafish Retina. Stem cells (Dayton, Ohio). 28(8):1399-1411

Gordon, K., Schulte, D., Brice, G., Simpson, M.A., Roukens, M.G., van Impel, A.W., Connell, F., Kalidas, K., Jeffery, S., Mortimer, P.S., Mansour, S., Schulte-Merker, S., and Ostergaard, P. (2013) Mutation in Vascular Endothelial Growth Factor-C, a Ligand for Vascular Endothelial Growth Factor Receptor-3, Is Associated With Autosomal Dominant Milroy-Like Primary Lymphedema. Circulation research. 112(6):956-60

Gosse, N.J., and Baier, H. (2009) An essential role for Radar (Gdf6a) in inducing dorsal fate in the zebrafish retina. Proceedings of the National Academy of Sciences of the United States of America. 106(7):2236-2241

Goutel, C., Kishimoto, Y., Schulte-Merker, S., and Rosa, F. (2000) The ventralizing activity of Radar, a maternally expressed bone morphogenetic protein, reveals complex bone morphogenetic protein interactions controlling dorso-ventral patterning in zebrafish. Mechanisms of Development. 99(1-2):15-27

Granato, M., van Eeden, F.J., Schach, U., Trowe, T., Brand, M., Furutani-Seiki, M., Haffter, P., Hammerschmidt, M., Heisenberg, C.P., Jiang, Y.J., Kane, D.A., Kelsh, R.N., Mullins, M.C., Odenthal, J., and Nüsslein-Volhard, C. (1996) Genes controlling and mediating locomotion behavior of the zebrafish embryo and larva. Development (Cambridge, England). 123:399-413

Gregg, R.G., Willer, G.B., Fadool, J.M., Dowling, J.E., and Link, B.A. (2003) Positional cloning of the young mutation identifies an essential role for the Brahma chromatin remodeling complex in mediating retinal cell differentiation. Proceedings of the National Academy of Sciences of the United States of America. 100(11):6535-6540

Grotek, B., Wehner, D., and Weidinger, G. (2013) Notch signaling coordinates cellular proliferation with differentiation during zebrafish fin regeneration. Development (Cambridge, England). 140(7):1412-1423

Gu, Q., Yang, X., He, X., Li, Q., and Cui, Z. (2013) Generation and characterization of a transgenic zebrafish expressing the reverse tetracycline transactivator. Journal of genetics and genomics = Yi chuan xue bao. 40(10):523-531

Gu, W., Monteiro, R., Zuo, J., Simões, F.C., Martella, A., Andrieu-Soler, C., Grosveld, F., Sauka-Spengler, T., Patient, R. (2015) A Novel TGFβ Modulator that Uncouples R-Smad/I-Smad-Mediated Negative Feedback from R-Smad/Ligand-Driven Positive Feedback. PLoS Biology. 13:e1002051

Guner, B., Ozacar, A.T., Thomas, J.E., and Karlstrom, R.O. (2008) Graded hedgehog and fibroblast growth factor signaling independently regulate pituitary cell fates and help establish the pars distalis and pars intermedia of the zebrafish adenohypophysis. Endocrinology. 149(9):4435-4451

Hadzhiev, Y., Lele, Z., Schindler, S., Wilson, S.W., Ahlberg, P., Straehle, U., and Mueller, F. (2007) Hedgehog signaling patterns the outgrowth of unpaired skeletal appendages in zebrafish. BMC Developmental Biology. 7(1):75

Haga, Y., Dominique, V.J. 3rd, and Du, S.J. (2009) Analyzing notochord segmentation and intervertebral disc formation using the twhh:gfp transgenic zebrafish model. Transgenic Research. 18(5):669-683

Halpern, M.E., Hatta, K., Amacher, S.L., Talbot, W.S., Yan, Y.-L., Thisse, B., Thisse, C., Postlethwait, J.H., and Kimmel, C.B. (1997) Genetic interactions in zebrafish midline development. Developmental Biology. 187(2):154-170

Hammerschmidt, M., Bitgood, M.J., and McMahon, A.P. (1996) Protein kinase A is a common negative regulator of Hedgehog signaling in the vertebrate embryo. Genes & Development. 10:647-658

Hammerschmidt, M., Pelegri, F., Mullins, M.C., Kane, D.A., van Eeden, F.J., Granato, M., Brand, M., Furutani-Seiki, M., Haffter, P., Heisenberg, C.P., Jiang, Y.J., Kelsh, R.N., Odenthal, J., Warga, R.M., and Nüsslein-Volhard, C. (1996) dino and mercedes, two genes regulating dorsal development in the zebrafish embryo. Development (Cambridge, England). 123:95-102

Hammond, K.L., Loynes, H.E., Folarin, A.A., Smith, J., and Whitfield, T.T. (2003) Hedgehog signalling is required for correct anteroposterior patterning of the zebrafish otic vesicle. Development (Cambridge, England). 130(7):1403-1417

Harris, M.P., Rohner, N., Schwarz, H., Perathoner, S., Konstantinidis, P., and Nüsslein-Volhard, C. (2008) Zebrafish eda and edar mutants reveal conserved and ancestral roles of ectodysplasin signaling in vertebrates. PLoS Genetics. 4(10):e1000206

Hashiguchi, M., Shinya, M., Tokumoto, M., and Sakai, N. (2008) Nodal/Bozozok-independent induction of the dorsal organizer by zebrafish cell lines. Developmental Biology. 321(2):387-396

Hauptmann, G. and Gerster, T. (1996) Complex expression of the zp-50 pou gene in the embryonic zebrafish brain is altered by overexpression of sonic hedgehog. Development (Cambridge, England). 122(6):1769-1780

Hauptmann, G., Lauter, G., Söll, I. (2016) Detection and signal amplification in Zebrafish RNA FISH. Methods (San Diego, Calif.). 98:50-9

Hawkins, T.A., Cavodeassi, F., Erdelyi, F., Szabo, G., and Lele, Z. (2008) The small molecule Mek1/2 inhibitor U0126 disrupts the chordamesoderm to notochord transition in zebrafish. BMC Developmental Biology. 8(1):42

Heisenberg, C.P., Brand, M., Jiang, Y.J., Warga, R.M., Beuchle, D., van Eeden, F.J., Furutani-Seiki, M., Granato, M., Haffter, P., Hammerschmidt, M., Kane, D.A., Kelsh, R.N., Mullins, M.C., Odenthal, J., and Nüsslein-Volhard, C. (1996) Genes involved in forebrain development in the zebrafish, Danio rerio. Development (Cambridge, England). 123:191-203

Helker, C.S., Schuermann, A., Pollmann, C., Chng, S.C., Kiefer, F., Reversade, B., Herzog, W. (2015) The hormonal peptide Elabela guides angioblasts to the midline during vasculogenesis. eLIFE. 4

Heng, J., Lv, P., Zhang, Y., Cheng, X., Wang, L., Ma, D., Liu, F. (2020) Rab5c-mediated endocytic trafficking regulates hematopoietic stem and progenitor cell development via Notch and AKT signaling. PLoS Biology. 18:e3000696

Hentig, J., Cloghessy, K., Lahne, M., Jung, Y.J., Petersen, R.A., Morris, A.C., Hyde, D.R. (2021) Zebrafish Blunt-Force TBI Induces Heterogenous Injury Pathologies That Mimic Human TBI and Responds with Sonic Hedgehog-Dependent Cell Proliferation across the Neuroaxis. Biomedicines. 9(8):

Hernández-Bejarano, M., Gestri, G., Spawls, L., Nieto-López, F., Picker, A., Tada, M., Brand, M., Bovolenta, P., Wilson, S.W., Cavodeassi, F. (2015) Opposing Shh and Fgf signals initiate nasotemporal patterning of the retina. Development (Cambridge, England). 142(22):3933-42

Herzog, W., Zeng, X., Lele, Z., Sonntag, C., Ting, J.W., Chang, C.Y., and Hammerschmidt, M. (2003) Adenohypophysis formation in the zebrafish and its dependence on sonic hedgehog. Developmental Biology. 254(1):36-49

Hinits, Y., Osborn, D.P., Carvajal, J.J., Rigby, P.W., and Hughes, S.M. (2007) Mrf4 (myf6) is dynamically expressed in differentiated zebrafish skeletal muscle. Gene expression patterns : GEP. 7(7):738-745

Ho, D.M., Chan, J., Bayliss, P., and Whitman, M. (2006) Inhibitor-resistant type I receptors reveal specific requirements for TGF-beta signaling in vivo. Developmental Biology. 295(2):730-742

Hoffman, L., Miles, J., Avaron, F., Laforest, L., and Akimenko, M.-A. (2002) Exogenous retinoic acid induces a stage-specific, transient and progressive extension of Sonic hedgehog expression across the pectoral fin bud of zebrafish. The International journal of developmental biology. 46(7):949-956

Hollister, B.M., Oonk, K.A., Weiser, D.C., Walsh, S. (2016) Characterization of the three zebrafish orthologs of the mitochondrial GTPase Miro/Rhot. Comparative biochemistry and physiology. Part B, Biochemistry & molecular biology. 191:126-34

Holzschuh, J., Hauptmann, G., and Driever, W. (2003) Genetic analysis of the roles of Hh, FGF8, and nodal signaling during catecholaminergic system development in the zebrafish brain. The Journal of neuroscience : the official journal of the Society for Neuroscience. 23(13):5507-5519

Hong, S.K., and Dawid, I.B. (2009) FGF-dependent left-right asymmetry patterning in zebrafish is mediated by Ier2 and Fibp1. Proceedings of the National Academy of Sciences of the United States of America. 106(7):2230-2235

Hsu, H.-J., Lin, G., and Chung, B.-C. (2003) Parallel early development of zebrafish interrenal glands and pronephros: differential control by wt1 and ff1b. Development (Cambridge, England). 130(10):2107-2116

Hsu, L.S., Liang, C.J., Tseng, C.Y., Yeh, C.W., and Tsai, J.N. (2011) Zebrafish Cyclin-Dependent Protein Kinase-Like 1 (zcdkl1): Identification and Functional Characterization. International Journal of Molecular Sciences. 12(6):3606-3617

Hu, Z., Chen, B., Zhao, Q. (2019) Hedgehog signaling regulates osteoblast differentiation in zebrafish larvae through modulation of autophagy. Biology Open. 8(5):

Huang, P., Xiong, F., Megason, S.G., and Schier, A.F. (2012) Attenuation of notch and hedgehog signaling is required for fate specification in the spinal cord. PLoS Genetics. 8(6):e1002762

Hui, S.P., Sheng, D.Z., Sugimoto, K., Gonzalez-Rajal, A., Nakagawa, S., Hesselson, D., Kikuchi, K. (2017) Zebrafish Regulatory T Cells Mediate Organ-Specific Regenerative Programs. Developmental Cell. 43:659-672.e5

Hulsey, C.D., Fraser, G.J., Meyer, A. (2016) Biting into the Genome to Phenome Map: Developmental Genetic Modularity of Cichlid Fish Dentitions. Integrative and Comparative Biology. 56(3):373-88

Ingham, P.W., and Kim, H.R. (2005) Hedgehog signalling and the specification of muscle cell identity in the Zebrafish embryo. Experimental cell research. 306(2):336-342

Irimia, M., Royo, J.L., Burguera, D., Maeso, I., Gómez-Skarmeta, J.L., and Garcia-Fernandez, J. (2012) Comparative genomics of the Hedgehog loci in chordates and the origins of Shh regulatory novelties. Scientific Reports. 2:433

Isken, A., Holzschuh, J., Lampert, J.M., Fischer, L., Oberhauser, V., Palczewski, K., and von Lintig, J. (2007) Sequestration of retinyl esters is essential for retinoid signaling in the zebrafish embryo. The Journal of biological chemistry. 282(2):1144-1151

Itou, J., Taniguchi, N., Oishi, I., Kawakami, H., Lotz, M., and Kawakami, Y. (2011) HMGB factors are required for posterior digit development through integrating signaling pathway activities. Developmental Dynamics : an official publication of the American Association of Anatomists. 240(5):1151-1162

Iwasaki, M., Kuroda, J., Kawakami, K., Wada, H. (2018) Epidermal regulation of bone morphogenesis through the development and regeneration of osteoblasts in the zebrafish scale. Developmental Biology. 437(2):105-119

Jacob, J., Ribes, V., Moore, S., Constable, S.C., Sasai, N., Gerety, S.S., Martin, D.J., Sergeant, C.P., Wilkinson, D.G., and Briscoe, J. (2014) Valproic Acid silencing of ascl1b/ascl1 results in the failure of serotonergic differentiation in a zebrafish model of Fetal Valproate Syndrome. Disease models & mechanisms. 7(1):107-17

Jagadeeshan, S., Sagayaraj, R.V., Paneerselvan, N., Ghouse, S.S., Malathi, R. (2017) Toxicity and anti-angiogenicity evaluation of Pak1 inhibitor IPA-3 using zebrafish embryo model. Cell biology and toxicology. 33(1):41-56

Jayashankar, V., Nguyen, M.J., Carr, B.W., Zheng, D.C., Rosales, J.B., Rosales, J.B., and Weiser, D.C. (2013) Protein Phosphatase 1 beta Paralogs Encode the Zebrafish Myosin Phosphatase Catalytic Subunit. PLoS One. 8(9):e75766

Jessen, J.R., Topczewski, J., Bingham, S., Sepich, D.S., Marlow, F., Chandrasekhar, A., and Solnica-Krezel, L. (2002) Zebrafish trilobite identifies new roles for Strabismus in gastrulation and neuronal movements. Nature cell biology. 4(8):610-615

Jia, S., Ren, Z., Li, X., Zheng, Y., and Meng, A. (2008) smad2 and smad3 Are Required for Mesendoderm Induction by Transforming Growth Factor-β/Nodal Signals in Zebrafish. The Journal of biological chemistry. 283(4):2418-2426

Jiang, X., Zhao, K., Sun, Y., Song, X., Yi, C., Xiong, T., Wang, S., Yu, Y., Chen, X., Liu, R., Yan, X., Antos, C.L. (2024) The scale of zebrafish pectoral fin buds is determined by intercellular K+ levels and consequent Ca2+-mediated signaling via retinoic acid regulation of Rcan2 and Kcnk5b. PLoS Biology. 22:e3002565e3002565

Jin, Y., Zhu, Z., Wang, Y., Yang, E., Feng, X., Fu, Z. (2016) The fungicide imazalil induces developmental abnormalities and alters locomotor activity during early developmental stages in zebrafish. Chemosphere. 153:455-461

Johnson, J.L., Hall, T.E., Dyson, J.M., Sonntag, C., Ayers, K., Berger, S., Gautier, P., Mitchell, C., Hollway, G.E., and Currie, P.D. (2012) Scube activity is necessary for Hedgehog signal transduction in vivo. Developmental Biology. 368(2):193-202

Joshi, P., Liang, J.O., Dimonte, K., Sullivan, J., and Pimplikar, S.W. (2009) Amyloid precursor protein is required for convergent-extension movements during Zebrafish development. Developmental Biology. 335(1):1-11

Jung, J., Kim, E., Rhee, M. (2021) Kapd Is Essential for Specification of the Dopaminergic Neurogenesis in Zebrafish Embryos. Molecules and cells. 44(4):233-244

Kang, N., Won, M., Rhee, M., Ro, H. (2014) Siah Ubiquitin Ligases Modulate Nodal Signaling during Zebrafish Embryonic Development. Molecules and cells. 37(5):389-98

Kao, T.T., Lee, G.H., Fu, C.C., Chen, B.H., Chen, L.T., and Fu, T.F. (2013) Methotrexate-Induced Decrease in Embryonic 5-Methyl-Tetrahydrofolate Is Irreversible with Leucovorin Supplementation. Zebrafish. 10(3):326-37

Karlstrom, R.O., Talbot, W.S., and Schier, A.F. (1999) Comparative synteny cloning of zebrafish you-too: mutations in the Hedgehog target gli2 affect ventral forebrain patterning. Genes & Development. 13:388-393

Kashyap, B., Frey, R.A., and Stenkamp, D.L. (2011) Ethanol-Induced Microphthalmia is Not Mediated by Changes in Retinoic Acid or Sonic Hedgehog Signaling During Retinal Neurogenesis. Alcoholism, clinical and experimental research. 35(9):1644-61

Kastenhuber, E., Kern U., Bonkowsky, J.L., Chien, C.B., Driever, W., and Schweitzer, J. (2009) Netrin-DCC, Robo-Slit, and heparan sulfate proteoglycans coordinate lateral positioning of longitudinal dopaminergic diencephalospinal axons. The Journal of neuroscience : the official journal of the Society for Neuroscience. 29(28):8914-8926

Kawahara, A. and Dawid, I.B. (2002) Developmental expression of zebrafish emx1 during early embryogenesis. Gene expression patterns : GEP. 2(3-4):201-206

Kay, J.N., Link, B.A., and Baier, H. (2005) Staggered cell-intrinsic timing of ath5 expression underlies the wave of ganglion cell neurogenesis in the zebrafish retina. Development (Cambridge, England). 132(11):2573-2585

Kearns, C.A., Walker, M., Ravanelli, A.M., Scott, K., Arzbecker, M.R., Appel, B. (2021) Zebrafish spinal cord oligodendrocyte formation requires boc function. Genetics. 218(4):

Ketley, A., Warren, A., Holmes, E., Gering, M., Aboobaker, A.A., and Brook, J.D. (2013) The miR-30 MicroRNA Family Targets smoothened to Regulate Hedgehog Signalling in Zebrafish Early Muscle Development. PLoS One. 8(6):e65170

Kikuchi, Y., Agathon, A., Alexander, J., Thisse, C., Waldron, S., Yelon, D., Thisse, B., and Stainier, D.Y. (2001) casanova encodes a novel Sox-related protein necessary and sufficient for early endoderm formation in zebrafish. Genes & Development. 15(12):1493-1505

Kim, G.Y., Kim, H.Y., Kim, H.T., Moon, J.M., Kim, C.H., Kang, S., and Rhim, H. (2012) HtrA1 Is a Novel Antagonist Controlling Fibroblast Growth Factor (FGF) Signaling via Cleavage of FGF8. Molecular and cellular biology. 32(21):4482-4492

Kim, H.T., Lee, M.S., Jeong, Y.M., Ro, H., Kim, D.I., Shin, Y.H., Kim, J.E., Hwang, K.S., Choi, J.H., Bahn, M., Lee, J.J., Lee, S.H., Bae, Y.K., Lee, J.S., Choi, J.K., Kim, N.S., Yeo, C.Y., Kim, C.H. (2017) Ottogi Inhibits Wnt/β-catenin Signaling by Regulating Cell Membrane Trafficking of Frizzled8. Scientific Reports. 7:13278

Kim, J., Oh, H., Ryu, B., Kim, U., Lee, J.M., Jung, C.R., Kim, C.Y., Park, J.H. (2018) Triclosan affects axon formation in the neural development stages of zebrafish embryos (Danio rerio). Environmental pollution (Barking, Essex : 1987). 236:304-312

Kishimoto, N., Cao, Y., Park, A., and Sun, Z. (2008) Cystic kidney gene seahorse regulates cilia-mediated processes and Wnt pathways. Developmental Cell. 14(6):954-961

Kizil, C., Küchler, B., Yan, J.J., Özhan, G., Moro, E., Argenton, F., Brand, M., Weidinger, G., Antos, C.L. (2014) Simplet/Fam53b is required for Wnt signal transduction by regulating β-catenin nuclear localization. Development (Cambridge, England). 141:3529-39

Klarić, T., Lardelli, M., Key, B., Koblar, S., Lewis, M. (2014) Activity-dependent expression of neuronal PAS domain-containing protein 4 (npas4a) in the developing zebrafish brain. Frontiers in Neuroanatomy. 8:148

Knickmeyer, M.D., Mateo, J.L., Eckert, P., Roussa, E., Rahhal, B., Zuniga, A., Krieglstein, K., Wittbrodt, J., Heermann, S. (2018) TGFβ-facilitated optic fissure fusion and the role of bone morphogenetic protein antagonism. Open Biology. 8(3)

Knight, R.D., Javidan, Y., Nelson, S., Zhang, T., and Schilling, T. (2004) Skeletal and pigment cell defects in the lockjaw mutant reveal multiple roles for zebrafish tfap2a in neural crest development. Developmental Dynamics : an official publication of the American Association of Anatomists. 229(1):87-98

Kobayashi, M., Toyama, R., Takeda, H., Dawid, I.B., and Kawakami, K. (1998) Overexpression of the forebrain-specific homeobox gene six3 induces rostral forebrain enlargement in zebrafish. Development (Cambridge, England). 125:2973-2982

Konantz, M., Alghisi, E., Müller, J.S., Lenard, A., Esain, V., Carroll, K.J., Kanz, L., North, T.E., Lengerke, C. (2016) Evi1 regulates Notch activation to induce zebrafish hematopoietic stem cell emergence. The EMBO journal. 35(21):2315-2331

Kondrychyn, I., Teh, C., Sin, M., and Korzh, V. (2013) Stretching morphogenesis of the roof plate and formation of the central canal. PLoS One. 8(2):e56219

Koos, D.S. and Ho, R.K. (1999) The nieuwkoid/dharma homeobox gene is essential for bmp2b repression in the zebrafish pregastrula. Developmental Biology. 215(2):190-207

Kotani, T., Iemura, S.I., Natsume, T., Kawakami, K., and Yamashita, M. (2010) Mys protein regulates protein kinase A activity by interacting with regulatory type I{alpha} subunit during vertebrate development. The Journal of biological chemistry. 285(7):5106-5116

Krauss, S., Concordet, J.P., and Ingham, P.W. (1993) A functionally conserved homolog of the Drosophila segment polarity gene hh is expressed in tissues with polarizing activity in zebrafish embryos. Cell. 75(7):1431-1444

Kubota, Y., Oike, Y., Satoh, S., Tabata, Y., Niikura, Y., Morisada, T., Akao, M., Urano, T., Ito, Y., Miyamoto, T., Watanabe, S., and Suda, T. (2005) Isolation and expression patterns of genes for three angiopoietin-like proteins, Angptl1, 2 and 6 in zebrafish. Gene expression patterns : GEP. 5(5):679-685

Kunwar, P.S., Zimmerman, S., Bennett, J.T., Chen, Y., Whitman, M., and Schier, A.F. (2003) Mixer/Bon and FoxH1/Sur have overlapping and divergent roles in Nodal signaling and mesendoderm induction. Development (Cambridge, England). 130(23):5589-5599

Kur, E., Christa, A., Veth, K.N., Gajera, C.R., Andrade-Navarro, M.A., Zhang, J., Willer, J.R., Gregg, R.G., Abdelilah-Seyfried, S., Bachmann, S., Link, B.A., Hammes, A., and Willnow, T.E. (2011) Loss of Lrp2 in zebrafish disrupts pronephric tubular clearance but not forebrain development. Developmental Dynamics : an official publication of the American Association of Anatomists. 240(6):1567-1577

LaFlamme, A., Young, K.E., Lang, I., Weiser, D.C. (2018) Alternative splicing of (ppp1r12a/mypt1) in zebrafish produces a novel myosin phosphatase targeting subunit. Gene. 675:15-26

Lai, S.L., Yao, W.L., Tsao, K.C., Houben, A.J., Albers, H.M., Ovaa, H., Moolenaar, W.H., and Lee, S.J. (2012) Autotaxin/Lpar3 signaling regulates Kupffer's vesicle formation and left-right asymmetry in zebrafish. Development (Cambridge, England). 139(23):4439-4448

Lalonde, R.L., Akimenko, M.A. (2018) Effects of fin fold mesenchyme ablation on fin development in zebrafish. PLoS One. 13:e0192500

Lampert, J.M., Holzschuh, J., Hessel, S., Driever, W., Vogt, K., and von Lintig, J. (2003) Provitamin A conversion to retinal via the beta,beta-carotene-15,15'-oxygenase (bcox) is essential for pattern formation and differentiation during zebrafish embryogenesis. Development (Cambridge, England). 130(10):2173-2186

Latimer, A., and Jessen, J.R. (2010) Extracellular matrix assembly and organization during zebrafish gastrulation. Matrix biology : journal of the International Society for Matrix Biology. 29(2):89-96

Lauderdale, J.D., Pasquali, S.K., Fazel, R., van Eeden, F.J., Schauerte, H.E., Haffter, P., and Kuwada, J.Y. (1998) Regulation of netrin-1a expression by hedgehog proteins. Molecular and cellular neurosciences. 11:194-205

Lauter, G., Söll, I., and Hauptmann, G. (2013) Molecular characterization of prosomeric and intraprosomeric subdivisions of the embryonic zebrafish diencephalon. The Journal of comparative neurology. 521(5):1093-1118

Lawson, N.D., Vogel, A.M., and Weinstein, B.M. (2002) sonic hedgehog and vascular endothelial growth factor act upstream of the Notch pathway during arterial endothelial differentiation. Developmental Cell. 3(1):127-136

Lecaudey, V., Anselme, I., Dildrop, R., Ruther, U., and Schneider-Maunoury, S. (2005) Expression of the zebrafish Iroquois genes during early nervous system formation and patterning. The Journal of comparative neurology. 492(3):289-302

Lee, B.C., and Roy, S. (2006) Blimp-1 is an essential component of the genetic program controlling development of the pectoral limb bud. Developmental Biology. 300(2):623-634

Lee, Y., Hami, D., De Val, S., Kagermeier-Schenk, B., Wills, A.A., Black, B.L., Weidinger, G., and Poss, K.D. (2009) Maintenance of blastemal proliferation by functionally diverse epidermis in regenerating zebrafish fins. Developmental Biology. 331(2):270-280

Lee, Y.R., Kim, S.H., Ben-Mahmoud, A., Kim, O.H., Choi, T.I., Lee, K.H., Ku, B., Eum, J., Kee, Y., Lee, S., Cha, J., Won, D., Lee, S.T., Choi, J.R., Lee, J.S., Kim, H.D., Kim, H.G., Bonkowsky, J.L., Kang, H.C., Kim, C.H. (2021) Eif2b3 mutants recapitulate phenotypes of Vanishing White Matter Disease and validate novel disease alleles in zebrafish. Human molecular genetics. 30(5):331-342

Lele, Z., Hartson, S.D., Martin, C.C., Whitesell, L., Matts, R.L., and Krone, P.H. (1999) Disruption of zebrafish somite development by pharmacologic inhibition of hsp90. Developmental Biology. 210(1):56-70

Leucht, C., Stigloher, C., Wizenmann, A., Klafke, R., Folchert, A., and Bally-Cuif, L. (2008) MicroRNA-9 directs late organizer activity of the midbrain-hindbrain boundary. Nature Neuroscience. 11(6):641-648

Lewis, K.E. and Eisen, J.S. (2003) From cells to circuits: development of the zebrafish spinal cord. Prog. Neurobiol.. 69(6):419-449

Lewis, K.E., Concordet, J.P., and Ingham, P.W. (1999) Characterisation of a second patched gene in the zebrafish Danio rerio and the differential response of patched genes to hedgehog signalling. Developmental Biology. 208:14-29

Li, D., Sun, H., Deng, W., Tao, D., Liu, Y., and Ma, Y. (2011) Zili Antagonizes Bmp Signaling to Regulate Dorsal-Ventral Patterning during Zebrafish Early Embryogenesis. Zoological science. 28(6):397-402

Li, J., Yue, Y., Dong, X., Jia, W., Li, K., Liang, D., Dong, Z., Wang, X., Nan, X., Zhang, Q., Zhao, Q. (2015) Zebrafish foxc1a plays a crucial role in early somitogenesis by restricting the expression of aldh1a2 directly. The Journal of biological chemistry. 290(16):10216-28

Li, L., Shi, H., Zhang, M., Guo, X., Tong, F., Zhang, W., Zhou, J., Wang, H., Yang, S. (2016) Upregulation of metastasis-associated PRL-3 initiates chordoma in zebrafish. International Journal of Oncology. 48(4):1541-52

Li, M., Rong, X., Lu, L., Li, Y., Yao, K., Ge, W., Duan, C. (2021) IGF-2 mRNA binding protein 2 regulates primordial germ cell development in zebrafish. General and comparative endocrinology. 313:113875

Li, P., Lahvic, J.L., Binder, V., Pugach, E.K., Riley, E.B., Tamplin, O.J., Panigrahy, D., Bowman, T.V., Barrett, F.G., Heffner, G.C., McKinney-Freeman, S., Schlaeger, T.M., Daley, G.Q., Zeldin, D.C., Zon, L.I. (2015) Epoxyeicosatrienoic acids enhance embryonic haematopoiesis and adult marrow engraftment. Nature. 523:468-71

Li, R., Wang, H., Mi, C., Feng, C., Zhang, L., Yang, L., Zhou, B. (2019) The adverse effect of TCIPP and TCEP on neurodevelopment of zebrafish embryos/larvae. Chemosphere. 220:811-817

Li, Y., Wang, C., Zhang, L., Chen, B., Mo, Y., Zhang, J. (2022) Claudin-5a is essential for the functional formation of both zebrafish blood-brain barrier and blood-cerebrospinal fluid barrier. Fluids and barriers of the CNS. 19:40

Li, Y.X., Farrell, M.J., Liu, R., Mohanty, N., and Kirby, M.L. (2000) Double-stranded RNA injection produces null phenotypes in zebrafish. Developmental Biology. 217(2):394-405

Li, Z., Korzh, V., and Gong, Z. (2007) Localized rbp4 expression in the yolk syncytial layer plays a role in yolk cell extension and early liver development. BMC Developmental Biology. 7(1):117

Liao, E.C., Trede, N.S., Ransom, D., Zapata, A., Kieran, M., and Zon, L.I. (2002) Non-cell autonomous requirement for the bloodless gene in primitive hematopoiesis of zebrafish. Development (Cambridge, England). 129(3):649-659

Liedtke, D., Orth, M., Meissler, M., Geuer, S., Knaup, S., Köblitz, I., Klopocki, E. (2019) ECM alterations in Fndc3a (Fibronectin Domain Containing Protein 3A) deficient zebrafish cause temporal fin development and regeneration defects. Scientific Reports. 9:13383

Lin, X., Rinaldo, L., Fazly, A.F., and Xu, X. (2007) Depletion of Med10 enhances Wnt and suppresses Nodal signaling during zebrafish embryogenesis. Developmental Biology. 303(2):536-548

Liu, A., Majumdar, A., Schauerte, H.E., Haffter, P., and Drummond, I.A. (2000) Zebrafish wnt4b expression in the floor plate is altered in sonic hedgehog and gli-2 mutants. Mechanisms of Development. 91(1-2):409-413

Liu, J.X., Xu, Q.H., Li, S., Yu, X., Liu, W., Ouyang, G., Zhang, T., Chen, L.L. (2017) Transcriptional factors Eaf1/2 inhibit endoderm and mesoderm formation via suppressing TGF-β signaling. Biochimica et biophysica acta. 1860(10):1103-1116

Liu, Q., Dalman, M., Chen, Y., Akhter, M., Brahmandam, S., Patel, Y., Lowe, J., Thakkar, M., Gregory, A.V., Phelps, D., Riley, C., and Londraville, R.L. (2012) Knockdown of Leptin A Expression Dramatically Alters Zebrafish Development. General and comparative endocrinology. 178(3):562-572

Liu, X., Zhang, Q., Li, S., Mi, P., Chen, D., Zhao, X., Feng, X. (2018) Developmental toxicity and neurotoxicity of synthetic organic insecticides in zebrafish (Danio rerio): A comparative study of deltamethrin, acephate, and thiamethoxam. Chemosphere. 199:16-25

Liu, Z., Wang, Y., Zhu, Z., Yang, E., Feng, X., Fu, Z., Jin, Y. (2016) Atrazine and its main metabolites alter the locomotor activity of larval zebrafish (Danio rerio). Chemosphere. 148:163-170

Lo, C., Flinn, L.J., and Bandmann, O. (2013) Heterozygous mutations in the FGF8, SHH and nodal/transforming growth factor beta pathways do not confer increased dopaminergic neuron vulnerability-A zebrafish study. Neuroscience letters. 532:55-58

Lopes, S.S., Lourenço, R., Pacheco, L., Moreno, N., Kreiling, J., and Saude, L. (2010) Notch signalling regulates left-right asymmetry through ciliary length control. Development (Cambridge, England). 137(21):3625-3632

Loucks, E., and Ahlgren, S. (2012) Assessing teratogenic changes in a zebrafish model of fetal alcohol exposure. Journal of visualized experiments : JoVE. (61)

Lovin, L.M., Kim, S., Taylor, R.B., Scarlett, K.R., Langan, L.M., Chambliss, C.K., Chatterjee, S., Scott, J.T., Brooks, B.W. (2021) Differential influences of (±) anatoxin-a on photolocomotor behavior and gene transcription in larval zebrafish and fathead minnows. Environmental sciences Europe. 33(1):

Luo, Y., Wan, G., Zhou, X., Wang, Q., Zhang, Y., Bao, J., Cong, Y., Zhao, Y., Li, D. (2021) Architecture of Dispatched, a Transmembrane Protein Responsible for Hedgehog Release. Frontiers in molecular biosciences. 8:701826

Macdonald, R., Barth, K.A., Xu, Q.L., Holder, N., Mikkola, I., and Wilson, S.W. (1995) Midline signalling is required for Pax gene regulation and patterning of the eyes. Development (Cambridge, England). 121:3267-3278

Male, I., Ozacar, A.T., Fagan, R.R., Loring, M.D., Loring, M.D., Shen, M.C., Pace, V.A., Devine, C.A., Lawson, G.E., Lutservitz, A., Karlstrom, R.O. (2020) Hedgehog signaling regulates neurogenesis in the larval and adult zebrafish hypothalamus. eNeuro. 7(6):

Mao, J., McGlinn, E., Huang, P., Tabin, C.J., and McMahon, A.P. (2009) Fgf-dependent Etv4/5 activity is required for posterior restriction of Sonic Hedgehog and promoting outgrowth of the vertebrate limb. Developmental Cell. 16(4):600-606

Marlow, F., Zwartkruis, F., Malicki, J., Neuhauss, S.C.F., Abbas, L., Weaver, M., Driever, W., and Solnica-Krezel, L. (1998) Functional interactions of genes mediating convergent extension, knypek and trilobite, during the partitioning of the eye primordium in zebrafish. Developmental Biology. 203:382-399

Martinez-Morales, J.R., Del Bene, F., Nica, G., Hammerschmidt, M., Bovolenta, P., and Wittbrodt, J. (2005) Differentiation of the vertebrate retina is coordinated by an FGF signaling center. Developmental Cell. 8(4):565-574

Mateus, R., Lourenço, R., Fang, Y., Brito, G., Farinho, A., Valério, F., Jacinto, A. (2015) Control of tissue growth by Yap relies on cell density and F-actin in zebrafish fin regeneration. Development (Cambridge, England). 142(16):2752-63

Mathieu, J., Barth, A., Rosa, F.M., Wilson, S.W., and Peyriéras, N. (2002) Distinct and cooperative roles for Nodal and Hedgehog signals during hypothalamic development. Development (Cambridge, England). 129(13):3055-3065

Matsumoto, K., Akieda, Y., Haraoka, Y., Hirono, N., Sasaki, H., Ishitani, T. (2024) Foxo3-mediated physiological cell competition ensures robust tissue patterning throughout vertebrate development. Nature communications. 15:1066210662

Maurus, D., and Harris, W.A. (2009) Zic-associated holoprosencephaly: zebrafish Zic1 controls midline formation and forebrain patterning by regulating Nodal, Hedgehog, and retinoic acid signaling. Genes & Development. 23(12):1461-1473

Maves, L., Waskiewicz, A.J., Paul, B., Cao, Y., Tyler, A., Moens, C.B., and Tapscott, S.J. (2007) Pbx homeodomain proteins direct Myod activity to promote fast-muscle differentiation. Development (Cambridge, England). 134(18):3371-3382

Mayer, A.N. and Fishman, M.C. (2003) nil per os encodes a conserved RNA recognition motif protein required for morphogenesis and cytodifferentiation of digestive organs in zebrafish. Development (Cambridge, England). 130(17):3917-3928

McFarland, K.A., Topczewska, J.M., Weidinger, G., Dorsky, R.I., and Appel, B. (2008) Hh and Wnt signaling regulate formation of olig2(+) neurons in the zebrafish cerebellum. Developmental Biology. 318(1):162-171

McGonnell, I.M., and Fowkes, R.C. (2006) Fishing for gene function - endocrine modelling in the zebrafish. The Journal of endocrinology. 189(3):425-439

Meng, A., Moore, B., Tang, H., Yuan, B., and Lin, S. (1999) A Drosophila doublesex-related gene, terra, is involved in somitogenesis in vertebrates. Development (Cambridge, England). 126:1259-1268

Mi, P., Gao, Q., Feng, Z.Y., Zhang, J.W., Zhao, X., Chen, D.Y., Feng, X.Z. (2020) Melatonin attenuates 17β-trenbolone induced insomnia-like phenotype and movement deficiency in zebrafish. Chemosphere. 253:126762

Mich, J.K., Blaser, H., Thomas, N.A., Firestone, A.J., Yelon, D., Raz, E., and Chen, J.K. (2009) Germ cell migration in zebrafish is cyclopamine-sensitive but Smoothened-independent. Developmental Biology. 328(2):342-354

Miles, L.B., Darido, C., Kaslin, J., Heath, J.K., Jane, S.M., Dworkin, S. (2017) Mis-expression of grainyhead-like transcription factors in zebrafish leads to defects in enveloping layer (EVL) integrity, cellular morphogenesis and axial extension. Scientific Reports. 7:17607

Minehata, K.I., Kawahara, A., and Suzuki, T. (2008) meis1 regulates the development of endothelial cells in zebrafish. Biochemical and Biophysical Research Communications. 374(4):647-652

Miyake, A., Chitose, T., Kamei, E., Murakami, A., Nakayama, Y., Konishi, M., Itoh, N. (2014) Fgf16 Is Required for Specification of GABAergic Neurons and Oligodendrocytes in the Zebrafish Forebrain. PLoS One. 9:e110836

Miyake, A., Nakayama, Y., Konishi, M., and Itoh, N. (2005) Fgf19 regulated by Hh signaling is required for zebrafish forebrain development. Developmental Biology. 288(1):259-275

Mizuno, T., Yamaha, E., Kuroiwa, A., and Takeda, H. (1999) Removal of vegetal yolk causes dorsal deficencies and impairs dorsal-inducing ability of the yolk cell in zebrafish. Mechanisms of Development. 81(1-2):51-63

Monteiro, R., Pinheiro, P., Joseph, N., Peterkin, T., Koth, J., Repapi, E., Bonkhofer, F., Kirmizitas, A., Patient, R. (2016) Transforming Growth Factor β Drives Hemogenic Endothelium Programming and the Transition to Hematopoietic Stem Cells. Developmental Cell. 38(4):358-70

Mukaigasa, K., Sakuma, C., Yaginuma, H. (2021) The developmental hourglass model is applicable to the spinal cord based on single-cell transcriptomes and non-conserved cis-regulatory elements. Development, growth & differentiation. 63(7):372-391

Murciano, C., Cazorla-Vázquez, S., Gutiérrez, J., Hijano, J.A., Ruiz-Sánchez, J., Mesa-Almagro, L., Martín-Reyes, F., Fernández, T.D., Marí-Beffa, M. (2018) Widening control of fin inter-rays in zebrafish and inferences about actinopterygian fins. Journal of anatomy. 232(5):783-805

Muthu, V., Eachus, H., Ellis, P., Brown, S., Placzek, M. (2016) Rx3 and Shh direct anisotropic growth and specification in the zebrafish tuberal/anterior hypothalamus. Development (Cambridge, England). 143(14):2651-63

Muto, A., Ikeda, S., Lopez-Burks, M.E., Kikuchi, Y., Calof, A.L., Lander, A.D., Schilling, T.F. (2014) Nipbl and Mediator Cooperatively Regulate Gene Expression to Control Limb Development. PLoS Genetics. 10:e1004671

Müller, F., Albert, S., Blader, P., Fischer, N., Hallonet, M., and Strähle, U. (2000) Direct action of the Nodal-related signal Cyclops in induction of sonic hedgehog in the ventral midline of the CNS. Development (Cambridge, England). 127(18):3889-3897

Müller, F., Chang, B., Albert, S., Fischer, N., Tora, L., and Strähle, U. (1999) Intronic enhancers control expression of zebrafish sonic hedgehog in floor plate and notochord. Development (Cambridge, England). 126(10):2103-2116

Nakada, C., Satoh, S., Tabata, Y., Arai, K., and Watanabe, S. (2006) Transcriptional repressor foxl1 regulates central nervous system development by suppressing shh expression in zebra fish. Molecular and cellular biology. 26(19):7246-7257

Nakamura, T., Gehrke, A.R., Lemberg, J., Szymaszek, J., Shubin, N.H. (2016) Digits and fin rays share common developmental histories. Nature. 537(7619):225-228

Nakayama, Y., Kikuta, H., Kanai, M., Yoshikawa, K., Kawamura, A., Kobayashi, K., Wang, Z., Khan, A., Kawakami, K., and Yamasu, K. (2013) Gbx2 functions as a transcriptional repressor to regulate the specification and morphogenesis of the mid-hindbrain junction in a dosage- and stage-dependent manner. Mechanisms of Development. 130(11-12):532-52

Narboux-Neme, N., Ekker, M., Levi, G., Heude, E. (2019) Posterior axis formation requires Dlx5/Dlx6 expression at the neural plate border. PLoS One. 14:e0214063

Nasevicius, A., Hyatt, T., Kim, H., Guttman, J., Walsh, E., Sumanas, S., Wang, Y.S., and Ekker, S.C. (1998) Evidence for a fizzled-mediated wnt pathway required for zebrafish dorsal mesoderm formation. Development (Cambridge, England). 125:4283-4292

Nechiporuk, A. and Keating, M.T. (2002) A proliferation gradient between proximal and msxb-expressing distal blastema directs zebrafish fin regeneration. Development (Cambridge, England). 129(11):2607-2617

Neugebauer, J.M., Cadwallader, A.B., Amack, J.D., Bisgrove, B.W., and Yost, H.J. (2013) Differential roles for 3-OSTs in the regulation of cilia length and motility. Development (Cambridge, England). 140(18):3892-3902

Neumann, C.J. and Nüsslein-Volhard, C. (2000) Patterning of the zebrafish retina by a wave of sonic hedgehog activity. Science (New York, N.Y.). 289(5487):2137-2139

Nevin, L.M., Taylor, M.R., and Baier, H. (2008) Hardwiring of fine synaptic layers in the zebrafish visual pathway. Neural Development. 3:36

Nguyen, V.H., Trout, J., Connors, SA.., Andermann, P., Weinberg, E., and Mullins, M.C. (2000) Dorsal and intermediate neuronal cell types of the spinal cord are established by a BMP signaling pathway. Development (Cambridge, England). 127(6):1209-1220

Nicoli, S., Gilardelli, C.N., Pozzoli, O., Presta, M., and Cotelli, F. (2005) Regulated expression pattern of gremlin during zebrafish development. Gene expression patterns : GEP. 5(4):539-544

Nie, J., Wang, H., He, F., and Huang, H. (2010) Nusap1 is essential for neural crest cell migration in zebrafish. Protein & cell. 1(3):259-266

Nittoli, V., Fortunato, A.E., Fasano, G., Coppola, U., Gentile, A., Maiella, S., Langellotto, F., Porreca, I., De Paolo, R., Marino, R., Fiengo, M., Donizetti, A., Aniello, F., Kondo, T., Ristoratore, F., Canzoniero, L.M.T., Duboule, D., Wilson, S.W., Sordino, P. (2019) Characterization of paralogous uncx transcription factor encoding genes in zebrafish. Gene X. 2:100011

Noble, A.R., Masek, M., Hofmann, C., Cuoco, A., Rusterholz, T.D.S., Özkoc, H., Greter, N.R., Phelps, I.G., Vladimirov, N., Kollmorgen, S., Stoeckli, E., Bachmann-Gagescu, R. (2024) Shared and unique consequences of Joubert Syndrome gene dysfunction on the zebrafish central nervous system. Biology Open. 13(11):

Nomura, R., Kamei, E., Hotta, Y., Konishi, M., Miyake, A., and Itoh, N. (2006) Fgf16 is essential for pectoral fin bud formation in zebrafish. Biochemical and Biophysical Research Communications. 347(1):340-346

Norton, W.H., Ledin, J., Grandel, H., and Neumann, C.J. (2005) HSPG synthesis by zebrafish Ext2 and Extl3 is required for Fgf10 signalling during limb development. Development (Cambridge, England). 132(22):4963-4973

Nowak, M., Köster, C., and Hammerschmidt, M. (2005) Perp is required for tissue-specific cell survival during zebrafish development. Cell death and differentiation. 12(1):52-64

Nyholm, M.K., Wu, S.F., Dorsky, R.I., and Grinblat, Y. (2007) The zebrafish zic2a-zic5 gene pair acts downstream of canonical Wnt signaling to control cell proliferation in the developing tectum. Development (Cambridge, England). 134(4):735-746

Odenthal, J., Haffter, P., Vogelsang, E., Brand, M., van Eeden, F.J., Furutani-Seiki, M., Granato, M., Hammerschmidt, M., Heisenberg, C.P., Jiang, Y.J., Kane, D.A., Kelsh, R.N., Mullins, M.C., Warga, R.M., Allende, M.L., Weinberg, E.S., and Nüsslein-Volhard, C. (1996) Mutations affecting the formation of the notochord in the zebrafish, Danio rerio. Development (Cambridge, England). 123:103-115

Oehlers, S.H., Flores, M.V., Okuda, K.S., Hall, C.J., Crosier, K.E., and Crosier, P.S. (2011) A chemical enterocolitis model in zebrafish larvae that is dependent on microbiota and responsive to pharmacological agents. Developmental Dynamics : an official publication of the American Association of Anatomists. 240(1):288-298

Okada, K., Takada, S. (2020) The second pharyngeal pouch is generated by dynamic remodeling of endodermal epithelium in zebrafish. Development (Cambridge, England). 147(24):

Osborn, D.P., Li, K., Hinits, Y., and Hughes, S.M. (2011) Cdkn1c drives muscle differentiation through a positive feedback loop with Myod. Developmental Biology. 350(2):464-475

Ota, S., Ishitani, S., Shimizu, N., Matsumoto, K., Itoh, M., and Ishitani, T. (2012) NLK positively regulates Wnt/beta-catenin signalling by phosphorylating LEF1 in neural progenitor cells. The EMBO journal. 31(8):1904-1915

Pai, C.W., and Chen, Y.H. (2010) Transgenic expression of prothymosin alpha on zebrafish epidermal cells promotes proliferation and attenuates UVB-induced apoptosis. Transgenic Research. 19(4):655-665

Paridaen, J.T., Danesin, C., Elas, A.T., van de Water, S., Houart, C., and Zivkovic, D. (2009) Apc1 is required for maintenance of local brain organizers and dorsal midbrain survival. Developmental Biology. 331(2):101-112

Park, H.C., Shin, J., and Appel, B. (2004) Spatial and temporal regulation of ventral spinal cord precursor specification by Hedgehog signaling. Development (Cambridge, England). 131(23):5959-5969

Parkin, C.A., Allen, C.E., and Ingham, P.W. (2009) Hedgehog signalling is required for cloacal development in the zebrafish embryo. The International journal of developmental biology. 53(1):45-57

Pashay Ahi, E., Walker, B.S., Lassiter, C.S., Jónsson, Z.O. (2016) Investigation of the effects of estrogen on skeletal gene expression during zebrafish larval head development. PeerJ. 4:e1878

Paulus, J.D., and Halloran, M.C. (2006) Zebrafish bashful/laminin-alpha1 mutants exhibit multiple axon guidance defects. Developmental Dynamics : an official publication of the American Association of Anatomists. 235(1):213-224

Pei, D.S., Jia, P.P., Luo, J.J., Liu, W., Strauss, P.R. (2019) AP endonuclease 1 (Apex1) influences brain development linking oxidative stress and DNA repair. Cell Death & Disease. 10:348

Pei, W., Noushmehr, H., Costa, J., Ouspenskaia, M.V., Elkahloun, A.G., and Feldman, B. (2007) An early requirement for maternal FoxH1 during zebrafish gastrulation. Developmental Biology. 310(1):10-22

Peterson, R.T., Shaw, S.Y., Peterson, T.A., Milan, D.J., Zhong, T.P., Schreiber, S.L., MacRae, C.A., and Fishman, M.C. (2004) Chemical suppression of a genetic mutation in a zebrafish model of aortic coarctation. Nat. Biotechnol.. 22(5):595-599

Peyriéras, N., Strähle, U., and Rosa, F. (1998) Conversion of zebrafish blastomeres to an endodermal fate by TGF-ß-related signaling. Current biology : CB. 8:783-786

Pezzotta, A., Gentile, I., Genovese, D., Totaro, M.G., Battaglia, C., Leung, A.Y., Fumagalli, M., Parma, M., Cazzaniga, G., Fazio, G., Alcalay, M., Marozzi, A., Pistocchi, A. (2022) HDAC6 inhibition decreases leukemic stem cell expansion driven by Hedgehog hyperactivation by restoring primary ciliogenesis. Pharmacological research. 183:106378

Philipp, M., Fralish, G.B., Meloni, A.R., Chen, W., Macinnes, A., Barak, L.S., and Caron, M.G. (2008) Smoothened Signaling in Vertebrates Is Facilitated by a G-Protein Coupled Receptor Kinase. Molecular biology of the cell. 19(12):5478-5489

Pikulkaew, S., Benato, F., Celeghin, A., Zucal, C., Skobo, T., Colombo, L., and Dalla Valle , L. (2011) The knockdown of maternal glucocorticoid receptor mRNA alters embryo development in zebrafish. Developmental Dynamics : an official publication of the American Association of Anatomists. 240(4):874-889

Pinheiro, P., Gering, M., and Patient, R. (2004) The basic helix-loop-helix transcription factor, Tal2, marks the lateral floor plate of the spinal cord in zebrafish. Gene expression patterns : GEP. 4(1):85-92

Pistocchi, A., Gaudenzi, G., Carra, S., Bresciani, E., Del Giacco, L., and Cotelli, F. (2008) Crucial role of zebrafish prox1 in hypothalamic catecholaminergic neurons development. BMC Developmental Biology. 8:27

Pogoda, H.M., von der Hardt, S., Herzog, W., Kramer, C., Schwarz, H., and Hammerschmidt, M. (2006) The proneural gene ascl1a is required for endocrine differentiation and cell survival in the zebrafish adenohypophysis. Development (Cambridge, England). 133(6):1079-1089

Poss, K.D., Shen, J., Nechiporuk, A., McMahon, G., Thisse, B., Thisse, C., and Keating, M.T. (2000) Roles for Fgf signaling during zebrafish fin regeneration. Developmental Biology. 222(2):347-358

Powell, D.R., Williams, J.S., Hernandez-Lagunas, L., Salcedo, E., O'Brien, J.H., Bruk Artinger, K. (2015) Cdon promotes neural crest migration by regulating N-cadherin localization. Developmental Biology. 407(2):289-99

Prykhozhij, S.V. (2010) In the Absence of Sonic Hedgehog, p53 Induces Apoptosis and Inhibits Retinal Cell Proliferation, Cell-Cycle Exit and Differentiation in Zebrafish. PLoS One. 5(10):e13549

Pu, S.Y., Hamid, N., Ren, Y.W., Pei, D.S. (2019) Effects of phthalate acid esters on zebrafish larvae: Development and skeletal morphogenesis. Chemosphere. 246:125808

Pyati, U.J., Webb, A.E., and Kimelman, D. (2005) Transgenic zebrafish reveal stage-specific roles for Bmp signaling in ventral and posterior mesoderm development. Development (Cambridge, England). 132(10):2333-2343

Pípal, M., Legradi, J., Smutná, M., Kočí, T., Priebojová, J., Bláhová, L., Krauss, M., Hilscherová, K. (2020) Neurobehavioral effects of cyanobacterial biomass field extracts on zebrafish embryos and potential role of retinoids. Aquatic toxicology (Amsterdam, Netherlands). 228:105613

Qiu, Y., Sun, S., Yu, X., Zhou, J., Cai, W., Qian, L. (2020) Carboxyl ester lipase is highly conserved in utilizing maternal supplied lipids during early development of zebrafish and human. Biochimica et biophysica acta. Molecular and cell biology of lipids. 1865(6):158663

Quintanilla, C.A., Ho, R.K. (2020) The Cdx transcription factors and retinoic acid play parallel roles in antero-posterior position of the pectoral fin field during gastrulation. Mechanisms of Development. 164:103644

Rastegar, S., Albert, S., Le Roux, I., Fischer, N., Blader, P., Müller, F., and Strähle, U. (2002) A floor plate enhancer of the zebrafish netrin1 gene requires Cyclops (Nodal) signalling and the winged helix transcription factor FoxA2. Developmental Biology. 252(1):1-14

Rau, M.J., Fischer, S., and Neumann, C.J. (2006) Zebrafish Trap230/Med12 is required as a coactivator for Sox9-dependent neural crest, cartilage and ear development. Developmental Biology. 296(1):83-93

Rayrikar, A.Y., Wagh, G.A., Santra, M., Patra, C. (2022) Ccn2a-FGFR1-SHH signaling is necessary for intervertebral disc homeostasis and regeneration in adult zebrafish. Development (Cambridge, England). 150(1):

Recidoro, A.M., Roof, A.C., Schmitt, M., Worton, L.E., Petrie, T., Strand, N., Ausk, B.J., Srinivasan, S., Moon, R.T., Gardiner, E.M., Kaminsky, W., Bain, S.D., Allan, C.H., Gross, T.S., Kwon, R.Y. (2014) Botulinum Toxin Induces Muscle Paralysis and Inhibits Bone Regeneration in Zebrafish. Journal of bone and mineral research : the official journal of the American Society for Bone and Mineral Research. 29(11):2346-56

Reifers, F., Bohli, H., Walsh, E.C., Crossley, P.H., Stainier, D.Y., and Brand, M. (1998) Fgf8 is mutated in zebrafish acerebellar (ace) mutants and is required for maintenance of midbrain-hindbrain boundary development and somitogenesis. Development (Cambridge, England). 125:2381-2395

Reimer, M.M., Kuscha, V., Wyatt, C., Sörensen, I., Frank, R.E., Knüwer, M., Becker, T., and Becker, C.G. (2009) Sonic hedgehog is a polarized signal for motor neuron regeneration in adult zebrafish. The Journal of neuroscience : the official journal of the Society for Neuroscience. 29(48):15073-15082

Ribeiro, A., Monteiro, J.F., Certal, A.C., Cristovão, A.M., Saúde, L. (2017) Foxj1a is expressed in ependymal precursors, controls central canal position and is activated in new ependymal cells during regeneration in zebrafish. Open Biology. 7(11)

Richardson, J., Shono, T., Okabe, M., and Graham, A. (2012) The presence of an embryonic opercular flap in amniotes. Proceedings. Biological sciences. 279(1727):224-9

Roelink, H., Augsburger, A., Heemskerk, J., Korzh, V., Norlin, S., Ruiz-i-Altaba, A., Tanabe, Y., Placzek, M., Edlund, T., Jessell, T.M., and Dodd, J. (1994) Floor plate and motor neuron induction by vhh-1, a vertebrate homolog of hedgehog expressed by the notochord. Cell. 76:761-775

Rohr, K.B., Schulte-Merker, S., and Tautz, D. (1999) Zebrafish zic1 expression in brain and somites is affected by BMP and hedgehog signalling. Mechanisms of Development. 85(1-2):147-159

Roy, S., Qiao, T., Wolff, C., and Ingham, P.W. (2001) Hedgehog signaling pathway is essential for pancreas specification in the zebrafish embryo. Current biology : CB. 11(17):1358-1363

Rurale, G., Marelli, F., Duminuco, P., Persani, L. (2019) Glis3 as a critical regulator of thyroid primordium specification. Thyroid : official journal of the American Thyroid Association. 30(2):277-289

Ryu, S., Holzschuh, J., Mahler, J., and Driever, W. (2006) Genetic analysis of dopaminergic system development in zebrafish. Journal of neural transmission. Supplementum. 70:61-66

Sakamoto, K., Onimaru, K., Munakata, K., Suda, N., Tamura, M., Ochi, H., and Tanaka, M. (2009) Heterochronic shift in Hox-mediated activation of sonic hedgehog leads to morphological changes during fin development. PLoS One. 4(4):e5121

San, B., Chrispijn, N.D., Wittkopp, N., van Heeringen, S.J., Lagendijk, A.K., Aben, M., Bakkers, J., Ketting, R.F., Kamminga, L.M. (2016) Normal formation of a vertebrate body plan and loss of tissue maintenance in the absence of ezh2. Scientific Reports. 6:24658

Sanek, N.A., and Grinblat, Y. (2008) A novel role for zebrafish zic2a during forebrain development. Developmental Biology. 317(1):325-335

Sarmah, B., and Wente, S.R. (2010) Inositol hexakisphosphate kinase-2 acts as an effector of the vertebrate Hedgehog pathway. Proceedings of the National Academy of Sciences of the United States of America. 107(46):19921-19926

Saude, L., Woolley, K., Martin, P., Driever, W., and Stemple, D.L. (2000) Axis-inducing activities and cell fates of the zebrafish organizer. Development (Cambridge, England). 127(16):3407-3417

Sbrogna, J.L., Barresi, M.J., and Karlstrom, R.O. (2003) Multiple roles for Hedgehog signaling in zebrafish pituitary development. Developmental Biology. 254(1):19-35

Schauerte, H.E., van Eeden, F.J.M., Fricke, C., Odenthal, J., Strähle, U., Haffter, P. (1998) Sonic hedgehog is not required for the induction of medial floor plate cells in the zebrafish. Development (Cambridge, England). 125:2983-2993

Schier, A.F., Neuhauss, S.C.F., Helde, K.A., Talbot, W.S., and Driever, W. (1997) The one-eyed pinhead gene functions in mesoderm and endoderm formation in zebrafish and interacts with no tail. Development (Cambridge, England). 124(2):327-342

Schlueter, P.J., Peng, G., Westerfield, M., and Duan, C. (2007) Insulin-like growth factor signaling regulates zebrafish embryonic growth and development by promoting cell survival and cell cycle progression. Cell death and differentiation. 14(6):1095-1105

Scholpp, S. and Brand, M. (2003) Integrity of the midbrain region is required to maintain the diencephalic-mesencephalic boundary in zebrafish no isthmus/pax2.1 mutants. Developmental Dynamics : an official publication of the American Association of Anatomists. 228(3):313-322

Scholpp, S., Foucher, I., Staudt, N., Peukert, D., Lumsden, A., and Houart, C. (2007) Otx1l, Otx2 and Irx1b establish and position the ZLI in the diencephalon. Development (Cambridge, England). 134(17):3167-3176

Schredelseker, T., Driever, W. (2020) Conserved Genoarchitecture of the Basal Hypothalamus in Zebrafish Embryos. Frontiers in Neuroanatomy. 14:3

Schuff, M., Siegel, D., Philipp, M., Bundschu,. K., Heymann, N., Donow, C., and Knöchel, W. (2012) Characterization of Danio rerio Nanog and Functional Comparison to Xenopus Vents. Stem cells and development. 21(8):1225-1238

Schwend, T., Loucks, E.J., and Ahlgren, S.C. (2010) Visualization of gli activity in craniofacial tissues of hedgehog-pathway reporter transgenic zebrafish. PLoS One. 5(12):e14396

Schäfer, M., Rembold, M., Wittbrodt, J., Schartl, M., and Winkler, C. (2005) Medial floor plate formation in zebrafish consists of two phases and requires trunk-derived Midkine-a. Genes & Development. 19(8):897-902

Seaver, A.W., Weaver, N.S., Iovine, M.K. (2023) Retinoic Acid Influences connexin43 Expression During Joint Formation in the Regenerating Zebrafish Fin. Bioelectricity. 5:173180173-180

Sekimizu, K., Nishioka, N., Sasaki, H., Takeda, H., Karlstrom, R.O., and Kawakami, A. (2004) The zebrafish iguana locus encodes Dzip1, a novel zinc-finger protein required for proper regulation of Hedgehog signaling. Development (Cambridge, England). 131(11):2521-2532

Sheehan-Rooney, K., Swartz, M.E., Lovely, C.B., Dixon, M.J., and Eberhart, J.K. (2013) Bmp and Shh Signaling Mediate the Expression of satb2 in the Pharyngeal Arches. PLoS One. 8(3):e59533

Shen, M., Ozacar, A.T., Osgood, M., Boeras, C., Pink, J., Thomas, J., Kohtz, J., and Karlstrom, R.O. (2013) Heat-shock–mediated conditional regulation of hedgehog/gli signaling in zebrafish. Developmental Dynamics : an official publication of the American Association of Anatomists. 242(5):539-49

Shi, J., Cai, M., Si, Y., Zhang, J., Du, S. (2018) Knockout of myomaker results in defective myoblast fusion, reduced muscle growth and increased adipocyte infiltration in zebrafish skeletal muscle. Human molecular genetics. 27(20):3542-3554

Shinya, M., Eschbach, C., Clark, M., Lehrach, H., and Furutani-Seiki, M. (2000) Zebrafish Dkk1, induced by the pre-MBT Wnt signaling, is secreted from the prechordal plate and patterns the anterior neural plate. Mechanisms of Development. 98(1-2):3-17

Shinya, M., Kobayashi, K., Masuda, A., Tokumoto, M., Ozaki, Y., Saito, K., Kawasaki, T., Sado, Y., and Sakai, N. (2013) Properties of gene knockdown system by vector-based siRNA in zebrafish. Development, growth & differentiation. 55(9):755-765

Shkumatava, A., and Neumann, C.J. (2005) Shh directs cell-cycle exit by activating p57Kip2 in the zebrafish retina. EMBO reports. 6(6):563-569

Shoji, W., Yee, C.S., and Kuwada, J.Y. (1998) Zebrafish semaphorin Z1a collapses specific growth cones and alters their pathway in vivo. Development (Cambridge, England). 125:1275-1283

Signore, I.A., Jerez, C., Figueroa, D., Suazo, J., Marcelain, K., Cerda, O., Flores, A.C. (2016) Inhibition of the 3-hydroxy-3-methyl-glutaryl-CoA reductase induces orofacial defects in zebrafish. Birth defects research. Part A, Clinical and molecular teratology. 106(10):814-830

Simms, R.J., Hynes, A.M., Eley, L., Inglis, D., Chaudhry, B., Dawe, H.R., and Sayer, J.A. (2012) Modelling a ciliopathy: Ahi1 knockdown in model systems reveals an essential role in brain, retinal, and renal development. Cellular and molecular life sciences : CMLS. 69(6):993-1009

Sire, J.Y., and Akimenko, M.A. (2004) Scale development in fish: a review, with description of sonic hedgehog (shh) expression in the zebrafish (Danio rerio). The International journal of developmental biology. 48(2-3):233-246

Slagle, C.E., Aoki, T., and Burdine, R.D. (2011) Nodal-Dependent Mesendoderm Specification Requires the Combinatorial Activities of FoxH1 and Eomesodermin. PLoS Genetics. 7(5):e1002072

Smith, D.G., Wilburn, C., and McCarthy, R.A. (2003) Methoprene photolytic compounds disrupt zebrafish development, producing phenocopies of mutants in the sonic hedgehog signaling pathway. Marine biotechnology (New York, N.Y.). 5(2):201-212

Solnica-Krezel, L. and Driever, W. (2001) The role of the homeodomain protein Bozozok in zebrafish axis formation. The International journal of developmental biology. 45(1):299-310

Song, M.H., Brown, N.L., and Kuwada, J.Y. (2004) The cfy mutation disrupts cell divisions in a stage-dependent manner in zebrafish embryos. Developmental Biology. 276(1):194-206

Stadler, J.A., Shkumatava, A., and Neumann, C.J. (2004) The role of hedgehog signaling in the development of the zebrafish visual system. Developmental neuroscience. 26(5-6):346-351

Staudt, N., Giger, F.A., Fielding, T., Hutt, J.A., Foucher, I., Snowden, V., Hellich, A., Kiecker, C., Houart, C. (2019) Pineal progenitors originate from a non-neural territory limited by FGF signalling. Development (Cambridge, England). 146(22):

Stemple, D.L., Solnica-Krezel, L., Zwartkruis, F., Neuhauss, S.C., Schier, A.F., Malicki, J., Stainier, D.Y., Abdelilah, S., Rangini, Z., Mountcastle-Shah, E., and Driever, W. (1996) Mutations affecting development of the notochord in zebrafish. Development (Cambridge, England). 123:117-128

Stenkamp, D.L., Frey, R.A., Mallory, D.E., and Shupe, E.E. (2002) Embryonic retinal gene expression in sonic-you mutant zebrafish. Developmental Dynamics : an official publication of the American Association of Anatomists. 225(3):344-350

Stenkamp, D.L., Satterfield, R., Muhunthan, K., Sherpa, T., Vihtelic, T.S., and Cameron, D. (2008) Age-Related Cone Abnormalities in Zebrafish with Genetic Lesions in Sonic Hedgehog. Investigative ophthalmology & visual science. 49(10):4631-4640

Stock, D.W. (2007) Zebrafish dentition in comparative context. The Journal of experimental biology. 308(5):523-549

Stoick-Cooper, C.L., Weidinger, G., Riehle, K.J., Hubbert, C., Major, M.B., Fausto N., and Moon, R.T. (2007) Distinct Wnt signaling pathways have opposing roles in appendage regeneration. Development (Cambridge, England). 134(3):479-489

Strähle, U., Blader, P., and Ingham, P.W. (1996) Expression of axial and sonic hedgehog in wildtype and midline defective zebrafish embryos. The International journal of developmental biology. 40(5):929-940

Sugimoto, K., Hui, S.P., Sheng, D.Z., Kikuchi, K. (2017) Dissection of zebrafish shha function using site-specific targeting with a Cre-dependent genetic switch.. eLIFE. 6

Sumanas, S., Zhang, B., Dai, R., and Lin, S. (2005) 15-Zinc finger protein Bloody Fingers is required for zebrafish morphogenetic movements during neurulation. Developmental Biology. 283(1):85-96

Sun, L., Chen, F., Peng, G. (2015) Conserved Noncoding Sequences Regulate lhx5 Expression in the Zebrafish Forebrain. PLoS One. 10:e0132525

Sun, L., Xu, W., Peng, T., Chen, H., Ren, L., Tan, H., Xiao, D., Qian, H., Fu, Z. (2016) Developmental exposure of zebrafish larvae to organophosphate flame retardants causes neurotoxicity. Neurotoxicology and teratology. 55:16-22

Sun, X., Zhou, Y., Zhang, R., Wang, Z., Xu, M., Zhang, D., Huang, J., Luo, F., Li, F., Ni, Z., Zhou, S., Chen, H., Chen, S., Chen, L., Du, X., Chen, B., Huang, H., Liu, P., Yin, L., Qiu, J., Chen, D., Deng, C., Xie, Y., Luo, L., Chen, L. (2020) Dstyk mutation leads to congenital scoliosis-like vertebral malformations in zebrafish via dysregulated mTORC1/TFEB pathway. Nature communications. 11:479

Sun, Z., Jin, P., Tian, T., Gu, Y., Chen, Y.G., and Meng, A. (2006) Activation and roles of ALK4/ALK7-mediated maternal TGFbeta signals in zebrafish embryo. Biochemical and Biophysical Research Communications. 345(2):694-703

Swartz, M.E., Lovely, C.B., Eberhart, J.K. (2021) Variation in phenotypes from a Bmp-Gata3 genetic pathway is modulated by Shh signaling. PLoS Genetics. 17:e1009579

Sylvester, J.B., Rich, C.A., Yi, C., Peres, J.N., Houart, C., and Streelman, J.T. (2013) Competing signals drive telencephalon diversity. Nature communications. 4:1745

Takayama, K., Shimoda, N., Takanaga, S., Hozumi, S., and Kikuchi, Y. (2014) Expression patterns of dnmt3aa, dnmt3ab, and dnmt4 during development and fin regeneration in zebrafish. Gene expression patterns : GEP. 14(2):105-110

Talbot, W.S., Trevarrow, B., Halpern, M.E., Melby, A.E., Farr, G., Postlethwait, J.H., Jowett, T., Kimmel, C.B., and Kimelman, D. (1995) A homeobox gene essential for zebrafish notochord development. Nature. 378:150-157

Tanaka, Y., Okayama, S., Urakawa, K., Kudoh, H., Ansai, S., Abe, G., Tamura, K. (2024) Fin elaboration via anterior-posterior constraint by hhip on Hedgehog signaling in teleosts. Development (Cambridge, England). 151(22):

Tay, H.G., Schulze, S.K., Compagnon, J., Foley, F.C., Heisenberg, C.P., Yost, H.J., Abdelilah-Seyfried, S., and Amack, J.D. (2013) Lethal giant larvae 2 regulates development of the ciliated organ Kupffer's vesicle. Development (Cambridge, England). 140(7):1550-1559

Tayeh, M.K., Yen, H.J., Beck, J.S., Searby, C.C., Westfall, T.A., Griesbach, H., Sheffield, V.C., and Slusarski, D.C. (2008) Genetic interaction between Bardet-Biedl syndrome genes and implications for limb patterning. Human molecular genetics. 17(13):1956-1967

Teraoka, H., Dong, W., Okuhara, Y., Iwasa, H., Shindo, A., Hill, A.J., Kawakami, A., and Hiraga, T. (2006) Impairment of lower jaw growth in developing zebrafish exposed to 2,3,7,8-tetrachlorodibenzo-p-dioxin and reduced hedgehog expression. Aquatic toxicology (Amsterdam, Netherlands). 78(2):103-113

Teraoka, H., Urakawa, S., Nanba, S., Nagai, Y., Dong, W., Imagawa, T., Tanguay, R.L., Svoboda, K., Handley-Goldstone, H.M., Stegeman, J.J., and Hiraga, T. (2006) Muscular contractions in the zebrafish embryo are necessary to reveal thiuram-induced notochord distortions. Toxicology and applied pharmacology. 212(1):24-34

Thisse, B., Wright, C.V.E., and Thisse, C. (2000) Activin- and Nodal-related factors control antero-posterior patterning of the zebrafish embryo. Nature. 403(6768):425-428

Thomas, J.L., Morgan, G.W., Dolinski, K.M., Thummel, R. (2017) Characterization of the pleiotropic roles of Sonic Hedgehog during retinal regeneration in adult zebrafish. Experimental Eye Research. 166:106-115

Thorimbert, V., König, D., Marro, J., Ruggiero, F., Jaźwińska, A. (2015) Bone morphogenetic protein signaling promotes morphogenesis of blood vessels, wound epidermis, and actinotrichia during fin regeneration in zebrafish. FASEB journal : official publication of the Federation of American Societies for Experimental Biology. 29(10):4299-312

Tian, T., Zhao, L., Zhao, X., Zhang, M., and Meng, A. (2009) A zebrafish gene trap line expresses GFP recapturing expression pattern of foxj1b. Journal of genetics and genomics = Yi chuan xue bao. 36(10):581-589

Ton, Q.V., and Iovine, M.K. (2013) Identification of an evx1-Dependent Joint-Formation Pathway during FIN Regeneration. PLoS One. 8(11):e81240

Topczewski, J., Sepich, D.S., Myers, D.C., Walker, C., Amores, A., Lele, Z., Hammerschmidt, M., Postlethwait, J., and Solnica-Krezel, L. (2001) The zebrafish glypican Knypek controls cell polarity during gastrulation movements of convergent extension. Developmental Cell. 1(2):251-264

Trengove, M., Wyett, R., Liongue, C., Ward, A.C. (2022) Functional Analysis of Zebrafish socs4a: Impacts on the Notochord and Sensory Function. Brain sciences. 12(2):

Tsai, I.C., Amack, J.D., Gao, Z.H., Band, V., Yost, H.J., and Virshup, D.M. (2007) A Wnt-CKIε-Rap1 Pathway Regulates Gastrulation by Modulating SIPA1L1, a Rap GTPase Activating Protein. Developmental Cell. 12(3):335-347

Tschaikner, P., Regele, D., Röck, R., Salvenmoser, W., Meyer, D., Bouvier, M., Geley, S., Stefan, E., Aanstad, P. (2021) Feedback Control of the Gpr161-G_αs-PKA axis contributes to basal Hedgehog repression in zebrafish. Development (Cambridge, England). 148(4):

Tu, C.F., Tsao, K.C., Lee, S.J., Yang, R.B. (2014) SCUBE3 (Signal Peptide-CUB-EGF Domain-containing Protein 3) Modulates Fibroblast Growth Factor Signaling during Fast Muscle Development. The Journal of biological chemistry. 289(27):18928-18942

Turner, K.J., Hoyle, J., Valdivia, L.E., Cerveny, K.L., Hart, W., Mangoli, M., Geisler, R., Rees, M., Houart, C., Poole, R.J., Wilson, S.W., Gestri, G. (2019) Abrogation of Stem Loop Binding Protein (Slbp) function leads to a failure of cells to transition from proliferation to differentiation, retinal coloboma and midline axon guidance deficits. PLoS One. 14:e0211073

Umasankar, P.K., Sanker, S., Thieman, J.R., Chakraborty, S., Wendland, B., Tsang, M., and Traub, L.M. (2012) Distinct and separable activities of the endocytic clathrin-coat components Fcho1/2 and AP-2 in developmental patterning. Nature cell biology. 14(5):488-501

Ungar, A.R., Kelly, G.M., and Moon, R.T. (1995) Wnt4 affects morphogenesis when misexpressed in the zebrafish embryo. Mechanisms of Development. 52:153-164

Uribe, R.A., Bronner, M.E. (2015) Meis3 is required for neural crest invasion of the gut during zebrafish enteric nervous system development. Molecular biology of the cell. 26(21):3728-40

van der Velden, Y.U., Wang, L., van Lohuizen, M., and Haramis, A.P. (2012) The Polycomb group protein Ring1b is essential for pectoral fin development. Development (Cambridge, England). 139(12):2210-2220

van Eeden, F.J., Granato, M., Schach, U., Brand, M., Furutani-Seiki-, M., Haffter, P., Hammerschmidt, M., Heisenberg, C.P., Jiang, Y.J., Kane, D.A., Kelsh, R.N., Mullins, M.C., Odenthal, J., Warga, R.M., Allende, M.L., Weinberg, E.S., and Nüsslein-Volhard, C. (1996) Mutations affecting somite formation and patterning in the zebrafish, Danio rerio. Development (Cambridge, England). 123:153-164

Vauti, F., Stegemann, L.A., Vögele, V., Köster, R.W. (2020) All-age whole mount in situ hybridization to reveal larval and juvenile expression patterns in zebrafish. PLoS One. 15:e0237167

Vinothkumar, S., Rastegar, S., Takamiya, M., Ertzer, R., and Strähle, U. (2008) Sequential and cooperative action of Fgfs and Shh in the zebrafish retina. Developmental Biology. 314(1):200-214

Wada, N., Javidan, Y., Nelson, S., Carney, T.J., Kelsh, R.N., Schilling, T.F. (2005) Hedgehog signaling is required for cranial neural crest morphogenesis and chondrogenesis at the midline in the zebrafish skull. Development (Cambridge, England). 132(17):3977-3988

Wallace, K.N. and Pack, M. (2003) Unique and conserved aspects of gut development in zebrafish. Developmental Biology. 255(1):12-29

Walter, K.M., Miller, G.W., Chen, X., Yaghoobi, B., Puschner, B., Lein, P.J. (2018) Effects of Thyroid Hormone Disruption on the Ontogenetic Expression of Thyroid Hormone Signaling Genes in Developing Zebrafish (Danio rerio). General and comparative endocrinology. 272:20-32

Wang, J., Cao, J., Dickson, A.L., Poss, K.D. (2015) Epicardial regeneration is guided by cardiac outflow tract and Hedgehog signalling. Nature. 522(7555):226-30

Wang, L., Liu, T., Xu, L., Gao, Y., Wei, Y., Duan, C., Chen, G.Q., Lin, S., Patient, R., Zhang, B., Hong, D., and Liu, F. (2013) Fev regulates hematopoietic stem cell development via ERK signaling. Blood. 122(3):367-75

Wang, L., Yan, R., Yang, Q., Li, H., Zhang, J., Shimoda, Y., Kato, K., Yamanaka, K., An, Y. (2020) Role of GH/IGF axis in arsenite-induced developmental toxicity in zebrafish embryos. Ecotoxicology and environmental safety. 201:110820

Wang, S., Zhou, Z., Li, J., Wang, Y., Li, H., Lv, R., Xu, G., Zhang, J., Bi, J., Huo, R. (2021) Identification of ACTA2 as a Key Contributor to Venous Malformation. Frontiers in cell and developmental biology. 9:755409

Wang, X., Yang, N., Uno, E., Roeder, R.G., and Guo, S. (2006) A subunit of the mediator complex regulates vertebrate neuronal development. Proceedings of the National Academy of Sciences of the United States of America. 103(46):17284-17289

Wang, Y.T., Tseng, T.L., Kuo, Y.C., Yu, J.K., Su, Y.H., Poss, K.D., Chen, C.H. (2019) Genetic Reprogramming of Positional Memory in a Regenerating Appendage. Current biology : CB. 29(24):4193-4207.e4

Wehner, D., Cizelsky, W., Vasudevaro, M.D., Özhan, G., Haase, C., Kagermeier-Schenk, B., Röder, A., Dorsky, R.I., Moro, E., Argenton, F., Kühl, M., and Weidinger, G. (2014) Wnt/β-Catenin Signaling Defines Organizing Centers that Orchestrate Growth and Differentiation of the Regenerating Zebrafish Caudal Fin. Cell Reports. 6(3):467-481

Weinberg, E.S., Allende, M.L., Kelly, C.S., Abdelhamid, A., Murakami, T., Andermann, P., Doerre, O.G., Grunwald, D.J., and Riggleman, B. (1996) Developmental regulation of zebrafish MyoD in wild-type, no-tail and spadetail embryos. Development (Cambridge, England). 122:271-280

Weiser, D.C., Pyati, U.J., and Kimelman, D. (2007) Gravin regulates mesodermal cell behavior changes required for axis elongation during zebrafish gastrulation. Genes & Development. 21(12):1559-1571

Wen, W., Pillai-Kastoori, L., Wilson, S.G., Morris, A.C. (2015) Sox4 regulates choroid fissure closure by limiting hedgehog signaling during ocular morphogenesis. Developmental Biology. 399(1):139-53

Wibowo, I., Utami, N., Anggraeni, T., Barlian, A., Putra, R.E., Indriani, A.D., Masadah, R., Ekawardhani, S. (2021) Propolis Can Improve Caudal Fin Regeneration in Zebrafish (Danio rerio) Induced by The Combined Administration of Alloxan and Glucose. Zebrafish. 18(4):274-281

Williams, A.L., Eason, J., Chawla, B., Bohnsack, B.L. (2017) Cyp1b1 Regulates Ocular Fissure Closure Through a Retinoic Acid-Independent Pathway. Investigative ophthalmology & visual science. 58:1084-1097

Williams, M.L.K., Sawada, A., Budine, T., Yin, C., Gontarz, P., Solnica-Krezel, L. (2018) Gon4l regulates notochord boundary formation and cell polarity underlying axis extension by repressing adhesion genes. Nature communications. 9:1319

Winata, C.L., Korzh, S., Kondrychyn, I., Zheng, W., Korzh, V., and Gong, Z. (2009) Development of zebrafish swimbladder: the requirement of Hedgehog signaling in specification and organization of the three tissue layers. Developmental Biology. 331(2):222-236

Wolff, C., Roy, S., and Ingham, P.W. (2003) Multiple muscle cell identities induced by distinct levels and timing of hedgehog activity in the zebrafish embryo. Current biology : CB. 13(14):1169-1181

Wong, K.S., Rehn, K., Palencia-Desai, S., Kohli, V., Hunter, W., Uhl, J.D., Rost, M.S., and Sumanas, S. (2012) Hedgehog signaling is required for differentiation of endocardial progenitors in zebrafish. Developmental Biology. 361(2):377-91

Woods, I.G., Wilson, C., Friedlander, B., Chang, P., Reyes, D.K., Nix, R., Kelly, P.D., Chu, F., Postlethwait, J.H., and Talbot, W.S. (2005) The zebrafish gene map defines ancestral vertebrate chromosomes. Genome research. 15(9):1307-1314

Wu, Q., Yan, W., Cheng, H., Liu, C., Hung, T.C., Guo, X., Li, G. (2017) Parental transfer of microcystin-LR induced transgenerational effects of developmental neurotoxicity in zebrafish offspring. Environmental pollution (Barking, Essex : 1987). 231:471-478

Wu, Y., Li, W., Yuan, M., Liu, X. (2019) The synthetic pyrethroid deltamethrin impairs zebrafish (Danio rerio) swim bladder development. The Science of the total environment. 701:134870

Wu, Y., Yang, Q., Chen, M., Zhang, Y., Zuo, Z., Wang, C. (2018) Fenbuconazole exposure impacts the development of zebrafish embryos. Ecotoxicology and environmental safety. 158:293-299

Xu, P., Balczerski, B., Ciozda, A., Louie, K., Oralova, V., Huysseune, A., Crump, J.G. (2018) Fox proteins are modular competency factors for facial cartilage and tooth specification. Development (Cambridge, England). 145(12)

Xu, P.F., Zhu, K.Y., Jin, Y., Chen, Y., Sun, X.J., Deng, M., Chen, S.J., Chen, Z., and Liu, T.X. (2010) Setdb2 restricts dorsal organizer territory and regulates left-right asymmetry through suppressing fgf8 activity. Proceedings of the National Academy of Sciences of the United States of America. 107(6):2521-2526

Yamamoto, M., Morita, R., Mizoguchi, T., Matsuo, H., Isoda, M., Ishitani, T., Chitnis, A.B., Matsumoto, K., Crump, J.G., Hozumi, K., Yonemura, S., Kawakami, K., and Itoh, M. (2010) Mib-Jag1-Notch signalling regulates patterning and structural roles of the notochord by controlling cell-fate decisions. Development (Cambridge, England). 137(15):2527-2537

Yan, Y.L., Hatta, K., Riggleman, B., and Postlethwait, J.H. (1995) Expression of a type II collagen gene in the zebrafish embryonic axis. Developmental Dynamics : an official publication of the American Association of Anatomists. 203:363-376

Yang, H., Xiang, J., Wang, N., Zhao, Y., Hyman, J., Jiang, J., Chen, J.K., Yang, Z., and Lin, S. (2009) Converse conformational control of smoothened activity by structurally related small molecules. The Journal of biological chemistry. 284(31):20876-20884

Yang, X., Gu, Q., Lin, L., Li, S., Zhong, S., Li, Q., Cui, Z. (2015) Nucleoporin 62-like protein activates canonical Wnt signaling through facilitating the nuclear import of β-catenin in zebrafish. Molecular and cellular biology. 35(7):1110-24

Yang, Y., Wang, H., He, J., Shi, W., Jiang, Z., Gao, L., Jiang, Y., Ni, R., Yang, Q., Luo, L. (2021) A single-cell-resolution fate map of endoderm reveals demarcation of pancreatic progenitors by cell cycle. Proceedings of the National Academy of Sciences of the United States of America. 118(25):

Yee, N.S., Zhou, W., and Liang, I.C. (2011) Transient receptor potential ion channel Trpm7 regulates exocrine pancreatic epithelial proliferation by Mg2+-sensitive Socs3a signaling in development and cancer. Disease models & mechanisms. 4(2):240-254

Yeo, S.Y., Little, M.H., Yamada, T., Miyashita, T., Halloran, M.C., Kuwada, J.Y., Huh, T.L., and Okamoto, H. (2001) Overexpression of a slit homologue impairs convergent extension of the mesoderm and causes cyclopia in embryonic zebrafish. Developmental Biology. 230(1):1-17

Yi, C., Spitters, T.W., Al-Far, E.A.A., Wang, S., Xiong, T., Cai, S., Yan, X., Guan, K., Wagner, M., El-Armouche, A., Antos, C.L. (2021) A calcineurin-mediated scaling mechanism that controls a K⁺-leak channel to regulate morphogen and growth factor transcription. eLIFE. 10:

Yin, A., Korzh, V., and Gong, Z. (2012) Perturbation of zebrafish swimbladder development by enhancing Wnt signaling in Wif1 morphants. Biochimica et biophysica acta. Molecular cell research. 1823(2):236-244

Yoder, J.A., Mueller, M.G., Wei, S., Corliss, B.C., Prather, D.M., Willis, T., Litman, R.T., Djeu, J.Y., and Litman, G.W. (2001) Immune-type receptor genes in zebrafish share genetic and functional properties with genes encoded by the mammalian leukocyte receptor cluster. Proceedings of the National Academy of Sciences of the United States of America. 98(12):6771-6776

Yu, J.C., Fox, Z.D., Crimp, J.L., Littleford, H.E., Jowdry, A.L., Jackman, W.R. (2015) Hedgehog signaling regulates dental papilla formation and tooth size during zebrafish odontogenesis. Developmental Dynamics : an official publication of the American Association of Anatomists. 244(4):577-90

Zardoya, R., Abouheif, E., and Meyer, A. (1996) Evolutionary analyses of hedgehog and Hoxd-10 genes in fish species closely related to the zebrafish. Proceedings of the National Academy of Sciences of the United States of America. 93:13036-13041

Zeller, J. and Granato, M. (1999) The zebrafish diwanka gene controls an early step of motor growth cone migration. Development (Cambridge, England). 126(15):3461-3472

Zeng, X.X., Wilm, T.P., Sepich, D.S., and Solnica-Krezel, L. (2007) Apelin and Its Receptor Control Heart Field Formation during Zebrafish Gastrulation. Developmental Cell. 12(3):391-402

Zhang, C., Anderson, A., Cole, G.J. (2015) Analysis of crosstalk between retinoic acid and sonic hedgehog pathways following ethanol exposure in embryonic zebrafish. Birth defects research. Part A, Clinical and molecular teratology. 103(12):1046-57

Zhang, C., Frazier, J.M., Chen, H., Liu, Y., Lee, J.A., Cole, G.J. (2014) Molecular and morphological changes in zebrafish following transient ethanol exposure during defined developmental stages. Neurotoxicology and teratology. 44:70-80

Zhang, C., Turton, Q.M., Mackinnon, S., Sulik, K.K., and Cole, G.J. (2011) Agrin function associated with ocular development is a target of ethanol exposure in embryonic zebrafish. Birth defects research. Part A, Clinical and molecular teratology. 91(3):129-141

Zhang, J., Jeradi, S., Strähle, U., and Akimenko, M.A. (2012) Laser ablation of the sonic hedgehog-a-expressing cells during fin regeneration affects ray branching morphogenesis. Developmental Biology. 365(2):424-433

Zhang, J., Wagh, P., Guay, D., Sanchez-Pulido, L., Padhi, B.K., Korzh, V., Andrade-Navarro, M.A., and Akimenko, M.A. (2010) Loss of fish actinotrichia proteins and the fin-to-limb transition. Nature. 466(7303):234-237

Zhang, L., Zhou, H., Su, Y., Sun, Z., Zhang, H., Zhang, L., Zhang, Y., Ning, Y., Chen, Y.G., and Meng, A. (2004) Zebrafish Dpr2 inhibits mesoderm induction by promoting degradation of nodal receptors. Science (New York, N.Y.). 306(5693):114-117

Zhang, T., Zhou, X.Y., Ma, X.F., Liu, J.X. (2015) Mechanisms of cadmium-caused eye hypoplasia and hypopigmentation in zebrafish embryos. Aquatic toxicology (Amsterdam, Netherlands). 167:68-76

Zhao, W., Hu, N., Ding, D., Long, D., Li, S., Li, G., Zhang, H. (2018) Developmental toxicity and apoptosis in zebrafish embryos induced by low-dose γ-ray irradiation. Environmental science and pollution research international. 26(4):3869-3881

Zhao, Z., Lee, R.T., Pusapati, G.V., Iyu, A., Rohatgi, R., Ingham, P.W. (2016) An essential role for Grk2 in Hedgehog signalling downstream of Smoothened. EMBO reports. 17(5):739-52

Zhou, T., Wang, L., Zhu, K.Y., Dong, M., Xu, P.F., Chen, Y., Chen, S.J., Chen, Z., Deng, M., and Liu, T.X. (2011) Dominant-negative C/ebpalpha and polycomb group protein Bmi1 extends short-lived hematopoietic stem/progenitor cells lifespan and induces lethal dyserythropoiesis. Blood. 118(14):3842-52

Zhu, B., Zhao, G., Yang, L., Zhou, B. (2018) Tetrabromobisphenol A caused neurodevelopmental toxicity via disrupting thyroid hormones in zebrafish larvae. Chemosphere. 197:353-361

Zhu, S., Liu, L., Korzh, V., Gong, Z., and Low, B.C. (2006) RhoA acts downstream of Wnt5 and Wnt11 to regulate convergence and extension movements by involving effectors Rho Kinase and Diaphanous: Use of zebrafish as an in vivo model for GTPase signaling. Cellular Signalling. 18(3):359-372

Zhu, X.Y., Wu, Y.Y., Xia, B., Dai, M.Z., Huang, Y.F., Yang, H., Li, C.Q., Li, P. (2020) Fenobucarb-induced developmental neurotoxicity and mechanisms in zebrafish. Neurotoxicology. 79:11-19

Zou, S., Kamei, H., Modi, Z., and Duan, C. (2009) Zebrafish IGF genes: gene duplication, conservation and divergence, and novel roles in midline and notochord development. PLoS One. 4(9):e7026

Zebrafish Nomenclature Committee (2025) Nomenclature Data Curation (2025). Nomenclature Committee Submission.

Grepper, D., Tabasso, C., Zanou, N., Aguettaz, A.K.F., Castro-Sepulveda, M., Ziegler, D.V., Lagarrigue, S., Arribat, Y., Martinotti, A., Ebrahimi, A., Daraspe, J., Fajas, L., Amati, F. (2024) BCL2L13 at endoplasmic reticulum-mitochondria contact sites regulates calcium homeostasis to maintain skeletal muscle function. iScience. 27:110510110510

Jiang, X., Zhao, K., Sun, Y., Song, X., Yi, C., Xiong, T., Wang, S., Yu, Y., Chen, X., Liu, R., Yan, X., Antos, C.L. (2024) The scale of zebrafish pectoral fin buds is determined by intercellular K+ levels and consequent Ca2+-mediated signaling via retinoic acid regulation of Rcan2 and Kcnk5b. PLoS Biology. 22:e3002565e3002565

Noble, A.R., Masek, M., Hofmann, C., Cuoco, A., Rusterholz, T.D.S., Özkoc, H., Greter, N.R., Phelps, I.G., Vladimirov, N., Kollmorgen, S., Stoeckli, E., Bachmann-Gagescu, R. (2024) Shared and unique consequences of Joubert Syndrome gene dysfunction on the zebrafish central nervous system. Biology Open. 13(11):

Umeda, K., Tanaka, K., Chowdhury, G., Nasu, K., Kuroyanagi, Y., Yamasu, K. (2024) Evolutionarily conserved roles of foxg1a in the developing subpallium of zebrafish embryos. Development, growth & differentiation. 66(3):219-234

Cotellessa, L., Marelli, F., Duminuco, P., Adamo, M., Papadakis, G.E., Bartoloni, L., Sato, N., Lang-Muritano, M., Troendle, A., Dhillo, W.S., Morelli, A., Guarnieri, G., Pitteloud, N., Persani, L., Bonomi, M., Giacobini, P., Vezzoli, V. (2023) Defective Jagged1 signaling impacts GnRH development and contributes to congenital hypogonadotropic hypogonadism. JCI insight. 8(5):

Pezzotta, A., Brioschi, L., Carbone, S., Mazzoleni, B., Bontempi, V., Monastra, F., Mauri, L., Marozzi, A., Mione, M., Pistocchi, A., Viani, P. (2023) Combined Inhibition of Hedgehog and HDAC6: In Vitro and In Vivo Studies Reveal a New Role for Lysosomal Stress in Reducing Glioblastoma Cell Viability. International Journal of Molecular Sciences. 24(6):

Sugitani, K., Mokuya, T., Homma, S., Maeda, M., Konno, A., Ogai, K. (2023) Specific Activation of Yamanaka Factors via HSF1 Signaling in the Early Stage of Zebrafish Optic Nerve Regeneration. International Journal of Molecular Sciences. 24(4):

Wu, J., Li, J., Chen, K., Liu, G., Zhou, Y., Chen, W., Zhu, X., Ni, T.T., Zhang, B., Jin, D., Li, D., Kang, L., Wu, Y., Zhu, P., Xie, P., Zhong, T.P. (2023) Atf7ip and Setdb1 interaction orchestrates the hematopoietic stem and progenitor cell state with diverse lineage differentiation. Proceedings of the National Academy of Sciences of the United States of America. 120:e2209062120e2209062120

Zhao, Y., Wang, H., He, T., Ma, B., Chen, G., Tzeng, C. (2023) Knockdown of Yap attenuates TAA-induced hepatic fibrosis by interaction with hedgehog signals. Journal of cell communication and signaling. 17(4):1335-1354

Burton, D.F., Boa-Amponsem, O.M., Dixon, M.S., Hopkins, M.J., Herbin, T.A., Toney, S., Tarpley, M., Rodriguez, B.V., Fish, E.W., Parnell, S.E., Cole, G.J., Williams, K.P. (2022) Pharmacological activation of the Sonic hedgehog pathway with a Smoothened small molecule agonist ameliorates the severity of alcohol-induced morphological and behavioral birth defects in a zebrafish model of fetal alcohol spectrum disorder. Journal of neuroscience research. 100(8):1585-1601

George, A., Lee, J., Liu, J., Kim, S., Brooks, B.P. (2022) Zebrafish model of RERE syndrome recapitulates key ophthalmic defects that are rescued by small molecule inhibitor of shh signaling. Developmental Dynamics : an official publication of the American Association of Anatomists. 252(4):495-509

Hui, S.P., Sugimoto, K., Sheng, D.Z., Kikuchi, K. (2022) Regulatory T cells regulate blastemal proliferation during zebrafish caudal fin regeneration. Frontiers in immunology. 13:981000

Li, Y., Wang, C., Zhang, L., Chen, B., Mo, Y., Zhang, J. (2022) Claudin-5a is essential for the functional formation of both zebrafish blood-brain barrier and blood-cerebrospinal fluid barrier. Fluids and barriers of the CNS. 19:40

Liu, M., Zou, X., Fu, M., Bai, X., Zhao, Y., Chen, X., Wang, X., Wang, P., Huang, S. (2022) Mild cold stress specifically disturbs clustering movement of DFCs and sequential organ left-right patterning in zebrafish. Frontiers in cell and developmental biology. 10:952844

Pezzotta, A., Gentile, I., Genovese, D., Totaro, M.G., Battaglia, C., Leung, A.Y., Fumagalli, M., Parma, M., Cazzaniga, G., Fazio, G., Alcalay, M., Marozzi, A., Pistocchi, A. (2022) HDAC6 inhibition decreases leukemic stem cell expansion driven by Hedgehog hyperactivation by restoring primary ciliogenesis. Pharmacological research. 183:106378

Thauvin, M., de Sousa, R.M., Alves, M., Volovitch, M., Vriz, S., Rampon, C. (2022) An early Shh-H2O2 reciprocal regulatory interaction controls the regenerative program during zebrafish fin regeneration. Journal of Cell Science. 135(6):

Weinstein, R., Bishop, K., Broadbridge, E., Yu, K., Carrington, B., Elkahloun, A., Zhen, T., Pei, W., Burgess, S.M., Liu, P., Bresciani, E., Sood, R. (2022) Zrsr2 Is Essential for the Embryonic Development and Splicing of Minor Introns in RNA and Protein Processing Genes in Zebrafish. International Journal of Molecular Sciences. 23(18)

Camacho-Macorra, C., Sintes, M., Tabanera, N., Grasa, I., Bovolenta, P., Cardozo, M.J. (2021) Mosmo Is Required for Zebrafish Craniofacial Formation. Frontiers in cell and developmental biology. 9:767048

Fan, X., Yang, H., Hu, L., Wang, D., Wang, R., Hao, A., Chen, X. (2021) Propofol impairs specification of retinal cell types in zebrafish by inhibiting Zisp-mediated Noggin-1 palmitoylation and trafficking. Stem Cell Research & Therapy. 12:195

Hentig, J., Cloghessy, K., Lahne, M., Jung, Y.J., Petersen, R.A., Morris, A.C., Hyde, D.R. (2021) Zebrafish Blunt-Force TBI Induces Heterogenous Injury Pathologies That Mimic Human TBI and Responds with Sonic Hedgehog-Dependent Cell Proliferation across the Neuroaxis. Biomedicines. 9(8):

Jung, J., Kim, E., Rhee, M. (2021) Kapd Is Essential for Specification of the Dopaminergic Neurogenesis in Zebrafish Embryos. Molecules and cells. 44(4):233-244

Knickmeyer, M.D., Mateo, J.L., Heermann, S. (2021) BMP Signaling Interferes with Optic Chiasm Formation and Retinal Ganglion Cell Pathfinding in Zebrafish. International Journal of Molecular Sciences. 22(9):

Li, M., Rong, X., Lu, L., Li, Y., Yao, K., Ge, W., Duan, C. (2021) IGF-2 mRNA binding protein 2 regulates primordial germ cell development in zebrafish. General and comparative endocrinology. 313:113875

Luo, Y., Wan, G., Zhou, X., Wang, Q., Zhang, Y., Bao, J., Cong, Y., Zhao, Y., Li, D. (2021) Architecture of Dispatched, a Transmembrane Protein Responsible for Hedgehog Release. Frontiers in molecular biosciences. 8:701826

Sidik, A., Dixon, G., Buckley, D.M., Kirby, H.G., Sun, S., Eberhart, J.K. (2021) Exposure to ethanol leads to midfacial hypoplasia in a zebrafish model of FASD via indirect interactions with the Shh pathway. BMC Biology. 19:134

Tschaikner, P., Regele, D., Röck, R., Salvenmoser, W., Meyer, D., Bouvier, M., Geley, S., Stefan, E., Aanstad, P. (2021) Feedback Control of the Gpr161-G_αs-PKA axis contributes to basal Hedgehog repression in zebrafish. Development (Cambridge, England). 148(4):

Vong, Y.H., Sivashanmugam, L., Leech, R., Zaucker, A., Jones, A., Sampath, K. (2021) The RNA-binding protein Igf2bp3 is critical for embryonic and germline development in zebrafish. PLoS Genetics. 17:e1009667

Wibowo, I., Utami, N., Anggraeni, T., Barlian, A., Putra, R.E., Indriani, A.D., Masadah, R., Ekawardhani, S. (2021) Propolis Can Improve Caudal Fin Regeneration in Zebrafish (Danio rerio) Induced by The Combined Administration of Alloxan and Glucose. Zebrafish. 18(4):274-281

Yi, C., Spitters, T.W., Al-Far, E.A.A., Wang, S., Xiong, T., Cai, S., Yan, X., Guan, K., Wagner, M., El-Armouche, A., Antos, C.L. (2021) A calcineurin-mediated scaling mechanism that controls a K⁺-leak channel to regulate morphogen and growth factor transcription. eLIFE. 10:

Barske, L., Fabian, P., Hirschberger, C., Jandzik, D., Square, T., Xu, P., Nelson, N., Yu, H.V., Medeiros, D.M., Gillis, J.A., Crump, J.G. (2020) Evolution of vertebrate gill covers via shifts in an ancient Pou3f3 enhancer. Proceedings of the National Academy of Sciences of the United States of America. 117(40):24876-24884

Chen, J.W., Niu, X., King, M.J., Noedl, M.T., Tabin, C.J., Galloway, J.L. (2020) The mevalonate pathway is a critical regulator of tendon cell specification. Development (Cambridge, England). 147(12):

Emerson, S.E., Stergas, H.R., Bupp-Chickering, S.O., Ebert, A.M. (2020) Shootin-1 Is Required for Nervous System Development in Zebrafish. Developmental Dynamics : an official publication of the American Association of Anatomists. 249(10):1285-1295

Farnsworth, D.R., Saunders, L.M., Miller, A.C. (2020) A single-cell transcriptome atlas for zebrafish development. Developmental Biology. 459(2):100-108

Félix, L.M., Luzio, A., Antunes, L., Coimbra, A.M., Valentim, A. (2020) Malformations and mortality in zebrafish early stages associated with elevated caspase activity after 24 h exposure to MS-222. Toxicology and applied pharmacology. 412:115385

Heng, J., Lv, P., Zhang, Y., Cheng, X., Wang, L., Ma, D., Liu, F. (2020) Rab5c-mediated endocytic trafficking regulates hematopoietic stem and progenitor cell development via Notch and AKT signaling. PLoS Biology. 18:e3000696

Jia, M., Teng, M., Tian, S., Yan, J., Meng, Z., Yan, S., Li, R., Zhou, Z., Zhu, W. (2020) Developmental toxicity and neurotoxicity of penconazole enantiomers exposure on zebrafish (Danio rerio). Environmental pollution (Barking, Essex : 1987). 267:115450

Li, G.X., Zhang, S., Liu, R., Singh, B., Singh, S., Quinn, D.I., Crump, G., Gill, P.S. (2020) Tetraspanin18 regulates angiogenesis through VEGFR2 and Notch pathways. Biology Open. 10(2):

Male, I., Ozacar, A.T., Fagan, R.R., Loring, M.D., Loring, M.D., Shen, M.C., Pace, V.A., Devine, C.A., Lawson, G.E., Lutservitz, A., Karlstrom, R.O. (2020) Hedgehog signaling regulates neurogenesis in the larval and adult zebrafish hypothalamus. eNeuro. 7(6):

Navon, D., Male, I., Tetrault, E.R., Aaronson, B., Karlstrom, R.O., Albertson, R.C. (2020) Hedgehog signaling is necessary and sufficient to mediate craniofacial plasticity in teleosts. Proceedings of the National Academy of Sciences of the United States of America. 117(32):19321-19327

Osborn, D.P.S., Li, K., Cutty, S.J., Nelson, A.C., Wardle, F.C., Hinits, Y., Hughes, S.M. (2020) Fgf-driven Tbx protein activities directly induce myf5 and myod to initiate zebrafish myogenesis. Development (Cambridge, England). 147(8):

Qiu, Y., Sun, S., Yu, X., Zhou, J., Cai, W., Qian, L. (2020) Carboxyl ester lipase is highly conserved in utilizing maternal supplied lipids during early development of zebrafish and human. Biochimica et biophysica acta. Molecular and cell biology of lipids. 1865(6):158663

Schredelseker, T., Driever, W. (2020) Conserved Genoarchitecture of the Basal Hypothalamus in Zebrafish Embryos. Frontiers in Neuroanatomy. 14:3

Scott, K., O'Rourke, R., Gillen, A., Appel, B. (2020) Prdm8 regulates pMN progenitor specification for motor neuron and oligodendrocyte fates by modulating Shh signaling response. Development (Cambridge, England). 147(16):

Soh, G.H., Pomreinke, A.P., Müller, P. (2020) Integration of Nodal and BMP Signaling by Mutual Signaling Effector Antagonism. Cell Reports. 31:107487

Tao, J., Bai, C., Chen, Y., Zhou, H., Liu, Y., Shi, Q., Pan, W., Dong, H., Li, L., Xu, H., Tanguay, R., Huang, C., Dong, Q. (2020) Environmental relevant concentrations of benzophenone-3 induced developmental neurotoxicity in zebrafish. The Science of the total environment. 721:137686

Wang, L., Yan, R., Yang, Q., Li, H., Zhang, J., Shimoda, Y., Kato, K., Yamanaka, K., An, Y. (2020) Role of GH/IGF axis in arsenite-induced developmental toxicity in zebrafish embryos. Ecotoxicology and environmental safety. 201:110820

Wu, Y., Xu, Z., Xu, X., Fan, L., Jiang, X. (2020) Exposure to Metalaxyl Disturbs the Skeletal Development of Zebrafish Embryos. Bulletin of environmental contamination and toxicology. 104(4):432-437

Zheng, S., Huang, W., Liu, C., Xiao, J., Wu, R., Wang, X., Cai, Z., Wu, K. (2020) Behavioral change and transcriptomics reveal the effects of 2, 2', 4, 4'-tetrabromodiphenyl ether exposure on neurodevelopmental toxicity to zebrafish (Danio rerio) in early life stage. The Science of the total environment. 752:141783

Zogbaum, L., Friend, P.G., Albertson, R.C. (2020) Plasticity and genetic basis of cichlid gill arch anatomy reveal novel roles for Hedgehog signaling. Molecular Ecology. 30(3):761-774

Fish, E.W., Murdaugh, L.B., Zhang, C., Boschen, K.E., Boa-Amponsem, O., Mendoza-Romero, H.N., Tarpley, M., Chdid, L., Mukhopadhyay, S., Cole, G.J., Williams, K.P., Parnell, S.E. (2019) Cannabinoids Exacerbate Alcohol Teratogenesis by a CB1-Hedgehog Interaction. Scientific Reports. 9:16057

Gu, Q., Yang, X., Lv, J., Zhang, J., Xia, B., Kim, J.D., Wang, R., Xiong, F., Meng, S., Clements, T.P., Tandon, B., Wagner, D.S., Diaz, M.F., Wenzel, P.L., Miller, Y.I., Traver, D., Cooke, J.P., Li, W., Zon, L.I., Chen, K., Bai, Y., Fang, L. (2019) AIBP-mediated cholesterol efflux instructs hematopoietic stem and progenitor cell fate. Science (New York, N.Y.). 363:1085-1088

Hu, Z., Chen, B., Zhao, Q. (2019) Hedgehog signaling regulates osteoblast differentiation in zebrafish larvae through modulation of autophagy. Biology Open. 8(5):

Li, M., Zhang, T., Jia, Y., Sun, Y., Zhang, S., Mi, P., Feng, Z., Zhao, X., Chen, D., Feng, X. (2019) Combined treatment of melatonin and sodium tanshinone IIA sulfonate reduced the neurological and cardiovascular toxicity induced by deltamethrin in zebrafish. Chemosphere. 243:125373

Liedtke, D., Orth, M., Meissler, M., Geuer, S., Knaup, S., Köblitz, I., Klopocki, E. (2019) ECM alterations in Fndc3a (Fibronectin Domain Containing Protein 3A) deficient zebrafish cause temporal fin development and regeneration defects. Scientific Reports. 9:13383

Narboux-Neme, N., Ekker, M., Levi, G., Heude, E. (2019) Posterior axis formation requires Dlx5/Dlx6 expression at the neural plate border. PLoS One. 14:e0214063

Pei, D.S., Jia, P.P., Luo, J.J., Liu, W., Strauss, P.R. (2019) AP endonuclease 1 (Apex1) influences brain development linking oxidative stress and DNA repair. Cell Death & Disease. 10:348

Pu, S.Y., Hamid, N., Ren, Y.W., Pei, D.S. (2019) Effects of phthalate acid esters on zebrafish larvae: Development and skeletal morphogenesis. Chemosphere. 246:125808

Sarmah, S., Curtis, C., Mahin, J., Farrell, M., Engler, T.A., Sanchez-Felix, M.V., Sato, M., Ma, Y.L., Chu, S., Marrs, J.A. (2019) The Glycogen Synthase Kinase-3β Inhibitor LSN 2105786 Promotes Zebrafish Fin Regeneration. Biomedicines. 7(2)

Turner, K.J., Hoyle, J., Valdivia, L.E., Cerveny, K.L., Hart, W., Mangoli, M., Geisler, R., Rees, M., Houart, C., Poole, R.J., Wilson, S.W., Gestri, G. (2019) Abrogation of Stem Loop Binding Protein (Slbp) function leads to a failure of cells to transition from proliferation to differentiation, retinal coloboma and midline axon guidance deficits. PLoS One. 14:e0211073

Wu, Y., Li, W., Yuan, M., Liu, X. (2019) The synthetic pyrethroid deltamethrin impairs zebrafish (Danio rerio) swim bladder development. The Science of the total environment. 701:134870

Zhu, W., Xu, X., Wang, X., Liu, J. (2019) Reprogramming histone modification patterns to coordinate gene expression in early zebrafish embryos. BMC Genomics. 20:248

Ata, H., Ekstrom, T.L., Martínez-Gálvez, G., Mann, C.M., Dvornikov, A.V., Schaefbauer, K.J., Ma, A.C., Dobbs, D., Clark, K.J., Ekker, S.C. (2018) Robust Activation of Microhomology-mediated End Joining for Precision Gene Editing Applications. PLoS Genetics. 14:e1007652

Dancevic, C.M., Gibert, Y., Berger, J., Smith, A.D., Liongue, C., Stupka, N., Ward, A.C., McCulloch, D.R. (2018) The ADAMTS5 Metzincin Regulates Zebrafish Somite Differentiation. International Journal of Molecular Sciences. 19(3)

Félix, L.M., Ana, L., Maria, T., Luís, A., Manuela, M., Coimbra, A.M., Ana, V. (2018) MS-222 short exposure induced developmental and behavioural alterations in zebrafish embryos. Reproductive toxicology (Elmsford, N.Y.). 81:122-131

Guo, X., Zhang, S., Lu, S., Zheng, B., Xie, P., Chen, J., Li, G., Liu, C., Wu, Q., Cheng, H., Sang, N. (2018) Perfluorododecanoic acid exposure induced developmental neurotoxicity in zebrafish embryos. Environmental pollution (Barking, Essex : 1987). 241:1018-1026

Jiang, F., Liu, J., Zeng, X., Yu, L., Liu, C., Wang, J. (2018) Tris (2-butoxyethyl) phosphate affects motor behavior and axonal growth in zebrafish (Danio rerio) larvae. Aquatic toxicology (Amsterdam, Netherlands). 198:215-223

Kim, J., Oh, H., Ryu, B., Kim, U., Lee, J.M., Jung, C.R., Kim, C.Y., Park, J.H. (2018) Triclosan affects axon formation in the neural development stages of zebrafish embryos (Danio rerio). Environmental pollution (Barking, Essex : 1987). 236:304-312

Knickmeyer, M.D., Mateo, J.L., Eckert, P., Roussa, E., Rahhal, B., Zuniga, A., Krieglstein, K., Wittbrodt, J., Heermann, S. (2018) TGFβ-facilitated optic fissure fusion and the role of bone morphogenetic protein antagonism. Open Biology. 8(3)

Lalonde, R.L., Akimenko, M.A. (2018) Effects of fin fold mesenchyme ablation on fin development in zebrafish. PLoS One. 13:e0192500

Murciano, C., Cazorla-Vázquez, S., Gutiérrez, J., Hijano, J.A., Ruiz-Sánchez, J., Mesa-Almagro, L., Martín-Reyes, F., Fernández, T.D., Marí-Beffa, M. (2018) Widening control of fin inter-rays in zebrafish and inferences about actinopterygian fins. Journal of anatomy. 232(5):783-805

Ranski, A.H., Kramer, A.C., Morgan, G.W., Perez, J.L., Thummel, R. (2018) Characterization of retinal regeneration in adult zebrafish following multiple rounds of phototoxic lesion. PeerJ. 6:e5646

Romero, M.M.G., McCathie, G., Jankun, P., Roehl, H.H. (2018) Damage-induced reactive oxygen species enable zebrafish tail regeneration by repositioning of Hedgehog expressing cells. Nature communications. 9:4010

Shi, Q., Wang, M., Shi, F., Yang, L., Guo, Y., Feng, C., Liu, J., Zhou, B. (2018) Developmental neurotoxicity of triphenyl phosphate in zebrafish larvae. Aquatic toxicology (Amsterdam, Netherlands). 203:80-87

Sun, L., Gu, L., Tan, H., Liu, P., Gao, G., Tian, L., Chen, H., Lu, T., Qian, H., Fu, Z., Pan, X. (2018) Effects of 17α‑ethinylestradiol on caudal fin regeneration in zebrafish larvae. The Science of the total environment. 653:10-22

Wang, Z., Nakayama, Y., Tsuda, S., Yamasu, K. (2018) The role of gastrulation brain homeobox 2 (gbx2) in the development of the ventral telencephalon in zebrafish embryos. Differentiation; research in biological diversity. 99:28-40

Wu, Y., Yang, Q., Chen, M., Zhang, Y., Zuo, Z., Wang, C. (2018) Fenbuconazole exposure impacts the development of zebrafish embryos. Ecotoxicology and environmental safety. 158:293-299

Xu, P., Balczerski, B., Ciozda, A., Louie, K., Oralova, V., Huysseune, A., Crump, J.G. (2018) Fox proteins are modular competency factors for facial cartilage and tooth specification. Development (Cambridge, England). 145(12)

Zhao, W., Hu, N., Ding, D., Long, D., Li, S., Li, G., Zhang, H. (2018) Developmental toxicity and apoptosis in zebrafish embryos induced by low-dose γ-ray irradiation. Environmental science and pollution research international. 26(4):3869-3881

Albuixech-Crespo, B., López-Blanch, L., Burguera, D., Maeso, I., Sánchez-Arrones, L., Moreno-Bravo, J.A., Somorjai, I., Pascual-Anaya, J., Puelles, E., Bovolenta, P., Garcia-Fernàndez, J., Puelles, L., Irimia, M., Ferran, J.L. (2017) Molecular regionalization of the developing amphioxus neural tube challenges major partitions of the vertebrate brain. PLoS Biology. 15:e2001573

Armstrong, B.E., Henner, A., Stewart, S., Stankunas, K. (2017) Shh promotes direct interactions between epidermal cells and osteoblast progenitors to shape regenerated zebrafish bone. Development (Cambridge, England). 144:1165-1176

Burton, D., Zhang, C., Boa-Amponsem, O., Mackinnon, S., Cole, G.J. (2017) Long-term behavioral change as a result of acute ethanol exposure in zebrafish: Evidence for a role for sonic hedgehog but not retinoic acid signaling. Neurotoxicology and teratology. 61:66-73

Cheng, R., Jia, Y., Dai, L., Liu, C., Wang, J., Li, G., Yu, L. (2017) Tris(1,3-dichloro-2-propyl) phosphate disrupts axonal growth, cholinergic system and motor behavior in early life zebrafish. Aquatic toxicology (Amsterdam, Netherlands). 192:7-15

García-Lecea, M., Gasanov, E., Jedrychowska, J., Kondrychyn, I., Teh, C., You, M.S., Korzh, V. (2017) Development of Circumventricular Organs in the Mirror of Zebrafish Enhancer-Trap Transgenics. Frontiers in Neuroanatomy. 11:114

Gong, J., Wang, X., Zhu, C., Dong, X., Zhang, Q., Wang, X., Duan, X., Qian, F., Shi, Y., Gao, Y., Zhao, Q., Chai, R., Liu, D. (2017) Insm1a Regulates Motor Neuron Development in Zebrafish. Frontiers in molecular neuroscience. 10:274

Hui, S.P., Sheng, D.Z., Sugimoto, K., Gonzalez-Rajal, A., Nakagawa, S., Hesselson, D., Kikuchi, K. (2017) Zebrafish Regulatory T Cells Mediate Organ-Specific Regenerative Programs. Developmental Cell. 43:659-672.e5

Kim, H.T., Lee, M.S., Jeong, Y.M., Ro, H., Kim, D.I., Shin, Y.H., Kim, J.E., Hwang, K.S., Choi, J.H., Bahn, M., Lee, J.J., Lee, S.H., Bae, Y.K., Lee, J.S., Choi, J.K., Kim, N.S., Yeo, C.Y., Kim, C.H. (2017) Ottogi Inhibits Wnt/β-catenin Signaling by Regulating Cell Membrane Trafficking of Frizzled8. Scientific Reports. 7:13278

Miles, L.B., Darido, C., Kaslin, J., Heath, J.K., Jane, S.M., Dworkin, S. (2017) Mis-expression of grainyhead-like transcription factors in zebrafish leads to defects in enveloping layer (EVL) integrity, cellular morphogenesis and axial extension. Scientific Reports. 7:17607

Piatek, M.J., Henderson, V., Fearn, A., Chaudhry, B., Werner, A. (2017) Ectopically expressed Slc34a2a sense-antisense transcripts cause a cerebellar phenotype in zebrafish embryos depending on RNA complementarity and Dicer. PLoS One. 12:e0178219

Roberson, S., Halpern, M.E. (2017) Convergence of signaling pathways underlying habenular formation and axonal outgrowth. Development (Cambridge, England). 144(14):2652-2662

Shitasako, S., Ito, Y., Ito, R., Ueda, Y., Shimizu, Y., Ohshima, T. (2017) Wnt and Shh signals regulate neural stem cell proliferation and differentiation in the optic tectum of adult zebrafish. Developmental Neurobiology. 77(10):1206-1220

Thomas, J.L., Morgan, G.W., Dolinski, K.M., Thummel, R. (2017) Characterization of the pleiotropic roles of Sonic Hedgehog during retinal regeneration in adult zebrafish. Experimental Eye Research. 166:106-115

Wei, S., Ning, G., Li, L., Yan, Y., Yang, S., Cao, Y., Wang, Q. (2017) A GEF activity-independent function for nuclear Net1 in Nodal/Smad2 signal transduction and mesendoderm formation. Journal of Cell Science. 130(18):3072-3082

Wu, Q., Yan, W., Cheng, H., Liu, C., Hung, T.C., Guo, X., Li, G. (2017) Parental transfer of microcystin-LR induced transgenerational effects of developmental neurotoxicity in zebrafish offspring. Environmental pollution (Barking, Essex : 1987). 231:471-478

Zhang, S., Xu, J., Kuang, X., Li, S., Li, X., Chen, D., Zhao, X., Feng, X. (2017) Biological impacts of glyphosate on morphology, embryo biomechanics and larval behavior in zebrafish (Danio rerio). Chemosphere. 181:270-280

Banerji, R., Eble, D.M., Iovine, M.K., Skibbens, R.V. (2016) Esco2 regulates cx43 expression during skeletal regeneration in the zebrafish fin. Developmental Dynamics : an official publication of the American Association of Anatomists. 245(1):7-21

Burdine, R.D., Grimes, D.T. (2016) Antagonistic interactions in the zebrafish midline prior to the emergence of asymmetric gene expression are important for left-right patterning. Philosophical transactions of the Royal Society of London. Series B, Biological sciences. 371(1710)

Chen, J., Zhu, R.F., Li, F.F., Liang, Y.L., Wang, C., Qin, Y.W., Huang, S., Zhao, X.X., Jing, Q. (2016) MicroRNA-126a Directs Lymphangiogenesis Through Interacting With Chemokine and Flt4 Signaling in Zebrafish. Arteriosclerosis, Thrombosis, and Vascular Biology. 36(12):2381-2393

Davey, C.F., Mathewson, A.W., Moens, C.B. (2016) PCP Signaling between Migrating Neurons and their Planar-Polarized Neuroepithelial Environment Controls Filopodial Dynamics and Directional Migration. PLoS Genetics. 12:e1005934

Felix, L.M., Serafim, C., Valentim, A.M., Antunes, L.M., Campos, S., Matos, M., Coimbra, A.M. (2016) Embryonic stage-dependent teratogenicity of ketamine in zebrafish (Danio rerio). Chemical Research in Toxicology. 29(8):1298-309

Gonsar, N., Coughlin, A., Clay-Wright, J.A., Borg, B.R., Kindt, L.M., Liang, J.O. (2016) Temporal and spatial requirements for Nodal-induced anterior mesendoderm and mesoderm in anterior neurulation. Genesis (New York, N.Y. : 2000). 54(1):3-18

Hauptmann, G., Lauter, G., Söll, I. (2016) Detection and signal amplification in Zebrafish RNA FISH. Methods (San Diego, Calif.). 98:50-9

Hudish, L.I., Galati, D.F., Ravanelli, A.M., Pearson, C.G., Huang, P., Appel, B. (2016) miR-219 regulates neural progenitors by dampening apical Par protein-dependent Hedgehog signaling. Development (Cambridge, England). 143(13):2292-304

Jin, Y., Zhu, Z., Wang, Y., Yang, E., Feng, X., Fu, Z. (2016) The fungicide imazalil induces developmental abnormalities and alters locomotor activity during early developmental stages in zebrafish. Chemosphere. 153:455-461

Konantz, M., Alghisi, E., Müller, J.S., Lenard, A., Esain, V., Carroll, K.J., Kanz, L., North, T.E., Lengerke, C. (2016) Evi1 regulates Notch activation to induce zebrafish hematopoietic stem cell emergence. The EMBO journal. 35(21):2315-2331

Li, L., Shi, H., Zhang, M., Guo, X., Tong, F., Zhang, W., Zhou, J., Wang, H., Yang, S. (2016) Upregulation of metastasis-associated PRL-3 initiates chordoma in zebrafish. International Journal of Oncology. 48(4):1541-52

Monteiro, R., Pinheiro, P., Joseph, N., Peterkin, T., Koth, J., Repapi, E., Bonkhofer, F., Kirmizitas, A., Patient, R. (2016) Transforming Growth Factor β Drives Hemogenic Endothelium Programming and the Transition to Hematopoietic Stem Cells. Developmental Cell. 38(4):358-70

Muthukumarasamy, K.M., Handore, K.L., Kakade, D.N., Shinde, M.V., Ranjan, S., Kumar, N., Sehrawat, S., Sachidanandan, C., Reddy, D.S. (2016) Identification of noreremophilane-based inhibitors of angiogenesis using zebrafish assays. Organic & biomolecular chemistry. 14(5):1569-78

Nakamura, T., Gehrke, A.R., Lemberg, J., Szymaszek, J., Shubin, N.H. (2016) Digits and fin rays share common developmental histories. Nature. 537(7619):225-228

San, B., Chrispijn, N.D., Wittkopp, N., van Heeringen, S.J., Lagendijk, A.K., Aben, M., Bakkers, J., Ketting, R.F., Kamminga, L.M. (2016) Normal formation of a vertebrate body plan and loss of tissue maintenance in the absence of ezh2. Scientific Reports. 6:24658

Sun, L., Xu, W., Peng, T., Chen, H., Ren, L., Tan, H., Xiao, D., Qian, H., Fu, Z. (2016) Developmental exposure of zebrafish larvae to organophosphate flame retardants causes neurotoxicity. Neurotoxicology and teratology. 55:16-22

Wang, X., Yang, L., Wang, Q., Guo, Y., Li, N., Ma, M., Zhou, B. (2016) The neurotoxicity of DE-71: effects on neural development and impairment of serotonergic signaling in zebrafish larvae. Journal of applied toxicology : JAT. 36(12):1605-1613

Zampedri, C., Tinoco-Cuellar, M., Carrillo-Rosas, S., Diaz-Tellez, A., Ramos-Balderas, J.L., Pelegri, F., Maldonado, E. (2016) Zebrafish P54 RNA helicases are cytoplasmic granule residents that are required for development and stress resilience. Biology Open. 5(10):1473-1484

Zhu, B., Wang, Q., Shi, X., Guo, Y., Xu, T., Zhou, B. (2016) Effect of combined exposure to lead and decabromodiphenyl ether on neurodevelopment of zebrafish larvae. Chemosphere. 144:1646-1654

Affaticati, P., Yamamoto, K., Rizzi, B., Bureau, C., Peyriéras, N., Pasqualini, C., Demarque, M., Vernier, P. (2015) Identification of the optic recess region as a morphogenetic entity in the zebrafish forebrain. Scientific Reports. 5:8738

Bhatia, S., Gordon, C.T., Foster, R.G., Melin, L., Abadie, V., Baujat, G., Vazquez, M.P., Amiel, J., Lyonnet, S., Heyningen, V.V., Kleinjan, D.A. (2015) Functional Assessment of Disease-Associated Regulatory Variants In Vivo Using a Versatile Dual Colour Transgenesis Strategy in Zebrafish. PLoS Genetics. 11:e1005193

Chatterjee, P., Padmanarayana, M., Abdullah, N., Holman, C.L., LaDu, J., Tanguay, R.L., Johnson, C.P. (2015) Otoferlin Deficiency In Zebrafish Results In Defects In Balance And Hearing: Rescue Of The Balance And Hearing Phenotype With Full-length And Truncated Forms Of Mouse Otoferlin. Molecular and cellular biology. 35(6):1043-54

Fontaine, R., Affaticati, P., Bureau, C., Colin, I., Demarque, M., Dufour, S., Vernier, P., Yamamoto, K., Pasqualini, C. (2015) The Dopaminergic Neurons Controlling Anterior Pituitary Functions: Anatomy and Ontogenesis in Zebrafish. Endocrinology. 156(8):2934-48

Graf, M., Teo Qi-Wen, E.R., Viktor Sarusie, M., Rajaei, F., Winkler, C. (2015) Dmrt5 controls corticotrope and gonadotrope differentiation in the zebrafish pituitary. Molecular endocrinology (Baltimore, Md.). 29(2):187-99

Helker, C.S., Schuermann, A., Pollmann, C., Chng, S.C., Kiefer, F., Reversade, B., Herzog, W. (2015) The hormonal peptide Elabela guides angioblasts to the midline during vasculogenesis. eLIFE. 4

Jin, Y., Liu, Z., Peng, T., Fu, Z. (2015) The toxicity of chlorpyrifos on the early life stage of zebrafish: a survey on the endpoints at development, locomotor behavior, oxidative stress and immunotoxicity. Fish & shellfish immunology. 43(2):405-14

Li, P., Lahvic, J.L., Binder, V., Pugach, E.K., Riley, E.B., Tamplin, O.J., Panigrahy, D., Bowman, T.V., Barrett, F.G., Heffner, G.C., McKinney-Freeman, S., Schlaeger, T.M., Daley, G.Q., Zeldin, D.C., Zon, L.I. (2015) Epoxyeicosatrienoic acids enhance embryonic haematopoiesis and adult marrow engraftment. Nature. 523:468-71

Ma, Y., Liu, X., Liu, Z., Wei, S., Shang, H., Xue, Y., Cao, Y., Meng, A., Wang, Q. (2015) The Chromatin Remodeling Protein Bptf Promotes Posterior Neuroectodermal Fate by Enhancing Smad2-Activated wnt8a Expression. The Journal of neuroscience : the official journal of the Society for Neuroscience. 35:8493-506

Moreno-Ayala, R., Schnabel, D., Salas-Vidal, E., Lomelí, H. (2015) PIAS-like protein Zimp7 is required for the restriction of the Zebrafish organizer and mesoderm development. Developmental Biology. 403(1):89-100

Powell, D.R., Williams, J.S., Hernandez-Lagunas, L., Salcedo, E., O'Brien, J.H., Bruk Artinger, K. (2015) Cdon promotes neural crest migration by regulating N-cadherin localization. Developmental Biology. 407(2):289-99

Thorimbert, V., König, D., Marro, J., Ruggiero, F., Jaźwińska, A. (2015) Bone morphogenetic protein signaling promotes morphogenesis of blood vessels, wound epidermis, and actinotrichia during fin regeneration in zebrafish. FASEB journal : official publication of the Federation of American Societies for Experimental Biology. 29(10):4299-312

Wang, J., Cao, J., Dickson, A.L., Poss, K.D. (2015) Epicardial regeneration is guided by cardiac outflow tract and Hedgehog signalling. Nature. 522(7555):226-30

Yang, X., Gu, Q., Lin, L., Li, S., Zhong, S., Li, Q., Cui, Z. (2015) Nucleoporin 62-like protein activates canonical Wnt signaling through facilitating the nuclear import of β-catenin in zebrafish. Molecular and cellular biology. 35(7):1110-24

Zhang, C., Anderson, A., Cole, G.J. (2015) Analysis of crosstalk between retinoic acid and sonic hedgehog pathways following ethanol exposure in embryonic zebrafish. Birth defects research. Part A, Clinical and molecular teratology. 103(12):1046-57

Aigler, S.R., Jandzik, D., Hatta, K., Uesugi, K., Stock, D.W. (2014) Selection and constraint underlie irreversibility of tooth loss in cypriniform fishes. Proceedings of the National Academy of Sciences of the United States of America. 111(21):7707-12

Apschner, A., Huitema, L.F., Ponsioen, B., Peterson-Maduro, J., Schulte-Merker, S. (2014) Pathological mineralization in a zebrafish enpp1 mutant exhibits features of Generalized Arterial Calcification of Infancy (GACI) and Pseudoxanthoma Elasticum (PXE). Disease models & mechanisms. 7(7):811-22

Beasley, A., Graham, C., Otter, R., and Elrod-Erickson, M. (2014) A molecular method for assessing the effects of potential contaminants on the rate of zebrafish (Danio rerio) development. Environmental toxicology and chemistry. 33(1):238-42

Bontems, F., Fish, R.J., Borlat, I., Lembo, F., Chocu, S., Chalmel, F., Borg, J.P., Pineau, C., Neerman-Arbez, M., Bairoch, A., and Lane, L. (2014) C2orf62 and TTC17 Are Involved in Actin Organization and Ciliogenesis in Zebrafish and Human. PLoS One. 9(1):e86476

Cardozo, M.J., Sánchez-Arrones, L., Sandonis, A., Sánchez-Camacho, C., Gestri, G., Wilson, S.W., Guerrero, I., Bovolenta, P. (2014) Cdon acts as a Hedgehog decoy receptor during proximal-distal patterning of the optic vesicle. Nature communications. 5:4272

De Felice, E., Porreca, I., Alleva, E., De Girolamo, P., Ambrosino, C., Ciriaco, E., Germanà, A., Sordino, P. (2014) Localization of BDNF expression in the developing brain of zebrafish. Journal of anatomy. 224:564-74

Fontenille, L., Rouquier, S., Lutfalla, G., Giorgi, D. (2014) Microtubule-associated protein 9 (Map9/Asap) is required for the early steps of zebrafish development. Cell cycle (Georgetown, Tex.). 13(7):1101-14

Kang, N., Won, M., Rhee, M., Ro, H. (2014) Siah Ubiquitin Ligases Modulate Nodal Signaling during Zebrafish Embryonic Development. Molecules and cells. 37(5):389-98

Kim, H., Kim, J., Jeong, J., Han, S., Kim, K. (2014) Akap12 is essential for the morphogenesis of muscles involved in zebrafish locomotion. Differentiation; research in biological diversity. 88(4-5):106-16

Klarić, T., Lardelli, M., Key, B., Koblar, S., Lewis, M. (2014) Activity-dependent expression of neuronal PAS domain-containing protein 4 (npas4a) in the developing zebrafish brain. Frontiers in Neuroanatomy. 8:148

Kujawski, S., Lin, W., Kitte, F., Börmel, M., Fuchs, S., Arulmozhivarman, G., Vogt, S., Theil, D., Zhang, Y., Antos, C.L. (2014) Calcineurin regulates coordinated outgrowth of zebrafish regenerating fins. Developmental Cell. 28:573-87

Le Guen, L., Karpanen, T., Schulte, D., Harris, N.C., Koltowska, K., Roukens, G., Bower, N.I., van Impel, A., Stacker, S.A., Achen, M.G., Schulte-Merker, S., and Hogan, B.M. (2014) Ccbe1 regulates Vegfc-mediated induction of Vegfr3 signaling during embryonic lymphangiogenesis. Development (Cambridge, England). 141(6):1239-1249

Liu, C.L., Kwok, H.F., Cheng, L., Ko, C.H., Wong, C.W., Ho, T.W., Leung, P.C., Fung, K.P., and Lau, C.B. (2014) Molecular mechanisms of angiogenesis effect of active sub-fraction from root of Rehmannia glutinosa by zebrafish sprout angiogenesis-guided fractionation. Journal of ethnopharmacology. 151(1):565-575

Menelaou, E., Udvadia, A.J., Tanguay, R.L., Svoboda, K.R. (2014) Activation of α2A-containing nicotinic acetylcholine receptors mediates nicotine-induced motor output in embryonic zebrafish. The European journal of neuroscience. 40(1):2225-2240

Miyake, A., Chitose, T., Kamei, E., Murakami, A., Nakayama, Y., Konishi, M., Itoh, N. (2014) Fgf16 Is Required for Specification of GABAergic Neurons and Oligodendrocytes in the Zebrafish Forebrain. PLoS One. 9:e110836

Pillai-Kastoori, L., Wen, W., Wilson, S.G., Strachan, E., Lo-Castro, A., Fichera, M., Musumeci, S.A., Lehmann, O.J., Morris, A.C. (2014) Sox11 Is Required to Maintain Proper Levels of Hedgehog Signaling during Vertebrate Ocular Morphogenesis. PLoS Genetics. 10:e1004491

Samarut, E., Gaudin, C., Hughes, S., Gillet, B., de Bernard, S., Jouve, P.E., Buffat, L., Allot, A., Lecompte, O., Berekelya, L., Rochette-Egly, C., and Laudet, V. (2014) Retinoic acid receptor subtype-specific transcriptotypes in the early zebrafish embryo. Molecular endocrinology (Baltimore, Md.). 28(2):260-272

Superina, S., Borovina, A., and Ciruna, B. (2014) Analysis of maternal-zygotic ugdh mutants reveals divergent roles for HSPGs in vertebrate embryogenesis and provides new insight into the initiation of left-right asymmetry. Developmental Biology. 387(2):154-166

Tu, C.F., Tsao, K.C., Lee, S.J., Yang, R.B. (2014) SCUBE3 (Signal Peptide-CUB-EGF Domain-containing Protein 3) Modulates Fibroblast Growth Factor Signaling during Fast Muscle Development. The Journal of biological chemistry. 289(27):18928-18942

Xu, P.F., Houssin, N., Ferri-Lagneau, K.F., Thisse, B., Thisse, C. (2014) Construction of a vertebrate embryo from two opposing morphogen gradients. Science (New York, N.Y.). 344:87-9

Zhai, G., Gu, Q., He, J., Lou, Q., Chen, X., Jin, X., Bi, E., and Yin, Z. (2014) Sept6 Is Required for Ciliogenesis in Kupffer's Vesicle, the Pronephros, and the Neural Tube during Early Embryonic Development. Molecular and cellular biology. 34(7):1310-1321

Arrington, C.B., Peterson, A.G., and Yost, H.J. (2013) Sdc2 and Tbx16 regulate Fgf2-dependent epithelial cell morphogenesis in the ciliated organ of asymmetry. Development (Cambridge, England). 140(19):4102-4109

Cantu, J.A., Flowers, G.P., and Topczewski, J. (2013) Notum homolog plays a novel role in primary motor innervation. The Journal of neuroscience : the official journal of the Society for Neuroscience. 33(5):2177-2187

Chitramuthu, B.P., and Bennett, H.P. (2013) High Resolution Whole Mount In Situ Hybridization within Zebrafish Embryos to Study Gene Expression and Function. Journal of visualized experiments : JoVE. (80):e50644

Corallo, D., Schiavinato, A., Trapani, V., Moro, E., Argenton, F., and Bonaldo, P. (2013) Emilin3 is required for notochord sheath integrity and interacts with Scube2 to regulate notochord-derived Hedgehog signals. Development (Cambridge, England). 140(22):4594-4601

Gordon, K., Schulte, D., Brice, G., Simpson, M.A., Roukens, M.G., van Impel, A.W., Connell, F., Kalidas, K., Jeffery, S., Mortimer, P.S., Mansour, S., Schulte-Merker, S., and Ostergaard, P. (2013) Mutation in Vascular Endothelial Growth Factor-C, a Ligand for Vascular Endothelial Growth Factor Receptor-3, Is Associated With Autosomal Dominant Milroy-Like Primary Lymphedema. Circulation research. 112(6):956-60

Gu, Q., Yang, X., He, X., Li, Q., and Cui, Z. (2013) Generation and characterization of a transgenic zebrafish expressing the reverse tetracycline transactivator. Journal of genetics and genomics = Yi chuan xue bao. 40(10):523-531

Jayashankar, V., Nguyen, M.J., Carr, B.W., Zheng, D.C., Rosales, J.B., Rosales, J.B., and Weiser, D.C. (2013) Protein Phosphatase 1 beta Paralogs Encode the Zebrafish Myosin Phosphatase Catalytic Subunit. PLoS One. 8(9):e75766

Ketley, A., Warren, A., Holmes, E., Gering, M., Aboobaker, A.A., and Brook, J.D. (2013) The miR-30 MicroRNA Family Targets smoothened to Regulate Hedgehog Signalling in Zebrafish Early Muscle Development. PLoS One. 8(6):e65170

Kondrychyn, I., Teh, C., Sin, M., and Korzh, V. (2013) Stretching morphogenesis of the roof plate and formation of the central canal. PLoS One. 8(2):e56219

Liao, W.H., Cheng, C.H., Hung, K.S., Chiu, W.T., Chen, G.D., Hwang, P.P., Hwang, S.P., Kuan, Y.S., and Huang, C.J. (2013) Protein tyrosine phosphatase receptor type O (Ptpro) regulates cerebellar formation during zebrafish development through modulating Fgf signaling. Cellular and molecular life sciences : CMLS. 70(13):2367-81

Maurya, A.K., Ben, J., Zhao, Z., Lee, R.T., Niah, W., Ng, A.S., Iyu, A., Yu, W., Elworthy, S., van Eeden, F.J., and Ingham, P.W. (2013) Positive and negative regulation of Gli activity by Kif7 in the zebrafish embryo. PLoS Genetics. 9(12):e1003955

Nakayama, Y., Kikuta, H., Kanai, M., Yoshikawa, K., Kawamura, A., Kobayashi, K., Wang, Z., Khan, A., Kawakami, K., and Yamasu, K. (2013) Gbx2 functions as a transcriptional repressor to regulate the specification and morphogenesis of the mid-hindbrain junction in a dosage- and stage-dependent manner. Mechanisms of Development. 130(11-12):532-52

Pascoal, S., Esteves de Lima, J., Leslie, J.D., Hughes, S.M., and Saúde, L. (2013) Notch signalling is required for the formation of structurally stable muscle fibres in zebrafish. PLoS One. 8(6):e68021

Sheehan-Rooney, K., Swartz, M.E., Lovely, C.B., Dixon, M.J., and Eberhart, J.K. (2013) Bmp and Shh Signaling Mediate the Expression of satb2 in the Pharyngeal Arches. PLoS One. 8(3):e59533

Shinya, M., Kobayashi, K., Masuda, A., Tokumoto, M., Ozaki, Y., Saito, K., Kawasaki, T., Sado, Y., and Sakai, N. (2013) Properties of gene knockdown system by vector-based siRNA in zebrafish. Development, growth & differentiation. 55(9):755-765

Sylvester, J.B., Rich, C.A., Yi, C., Peres, J.N., Houart, C., and Streelman, J.T. (2013) Competing signals drive telencephalon diversity. Nature communications. 4:1745

Ton, Q.V., and Iovine, M.K. (2013) Identification of an evx1-Dependent Joint-Formation Pathway during FIN Regeneration. PLoS One. 8(11):e81240

Tsao, K.C., Tu, C.F., Lee, S.J., and Yang, R.B. (2013) Zebrafish scube1 [signal peptide-CUB (complement protein C1r/C1s, Uegf, and Bmp1)-EGF domain-containing protein 1] Is Involved in Primitive Hematopoiesis. The Journal of biological chemistry. 288(7):5017-5026

Williams, L.M., Timme-Laragy, A.R., Goldstone, J.V., McArthur, A.G., Stegeman, J.J., Smolowitz, R.M., and Hahn, M.E. (2013) Developmental expression of the Nfe2-related factor (Nrf) transcription factor family in the zebrafish, Danio rerio. PLoS One. 8(10):e79574

Ye, D., and Lin, F. (2013) S1pr2/Gα₁₃ signaling controls myocardial migration by regulating endoderm convergence. Development (Cambridge, England). 140(4):789-799

Azevedo, A.S., Sousa, S., Jacinto, A., and Saude, L. (2012) An amputation resets positional information to a proximal identity in the regenerating zebrafish caudal fin. BMC Developmental Biology. 12(1):24

Boggetti, B., Jasik, J., Takamiya, M., Strähle, U., Reugels, A.M., and Campos-Ortega, J.A. (2012) NBP, a zebrafish homolog of human Kank3, is a novel Numb interactor essential for epidermal integrity and neurulation. Developmental Biology. 365(1):164-174

Cadwalader, E.L., Condic, M.L., and Yost, H.J. (2012) 2-O-sulfotransferase regulates Wnt signaling, cell adhesion and cell cycle during zebrafish epiboly. Development (Cambridge, England). 139(7):1296-1305

Cha, Y.R., Fujita, M., Butler, M., Isogai, S., Kochhan, E., Siekmann, A.F., and Weinstein, B.M. (2012) Chemokine Signaling Directs Trunk Lymphatic Network Formation along the Preexisting Blood Vasculature. Developmental Cell. 22(4):824-836

Clendenon, S.G., Sarmah, S., Shah, B., Liu, Q., and Marrs, J.A. (2012) Zebrafish cadherin-11 participates in retinal differentiation and retinotectal axon projection during visual system development. Developmental Dynamics : an official publication of the American Association of Anatomists. 241(3):442-454

Freitas, R., Gómez-Marín, C., Wilson, J.M., Casares, F., and Gómez-Skarmeta, J.L. (2012) Hoxd13 contribution to the evolution of vertebrate appendages. Developmental Cell. 23(6):1219-1229

Garnaas, M.K., Cutting, C.C., Meyers, A., Kelsey, P.B., Harris, J.M., North, T.E., and Goessling, W. (2012) Rargb regulates organ laterality in a zebrafish model of right atrial isomerism. Developmental Biology. 372(2):178-189

Hofmeister, W., Devine, C.A., Rothnagel, J.A., and Key, B. (2012) Frizzled-3a and slit2 genetically interact to modulate midline axon crossing in the telencephalon. Mechanisms of Development. 129(5-8):109-124

Hörndli C.S., and Chien, C.B. (2012) Sonic hedgehog is indirectly required for intraretinal axon pathfinding by regulating chemokine expression in the optic stalk. Development (Cambridge, England). 139(14):2604-2613

Johnson, J.L., Hall, T.E., Dyson, J.M., Sonntag, C., Ayers, K., Berger, S., Gautier, P., Mitchell, C., Hollway, G.E., and Currie, P.D. (2012) Scube activity is necessary for Hedgehog signal transduction in vivo. Developmental Biology. 368(2):193-202

Lai, S.L., Yao, W.L., Tsao, K.C., Houben, A.J., Albers, H.M., Ovaa, H., Moolenaar, W.H., and Lee, S.J. (2012) Autotaxin/Lpar3 signaling regulates Kupffer's vesicle formation and left-right asymmetry in zebrafish. Development (Cambridge, England). 139(23):4439-4448

Lo Sardo, V., Zuccato, C., Gaudenzi, G., Vitali, B., Ramos, C., Tartari, M., Myre, M.A., Walker, J.A., Pistocchi, A., Conti, L., Valenza, M., Drung, B., Schmidt, B., Gusella, J., Zeitlin, S., Cotelli, F., and Cattaneo, E. (2012) An evolutionary recent neuroepithelial cell adhesion function of huntingtin implicates ADAM10-Ncadherin. Nature Neuroscience. 15(5):713-721

Mattes, B., Weber, S., Peres, J., Chen, Q., Davidson, G., Houart, C., and Scholpp, S. (2012) Wnt3 and Wnt3a are required for induction of the mid-diencephalic organizer in the caudal forebrain. Neural Development. 7(1):12

Richardson, J., Shono, T., Okabe, M., and Graham, A. (2012) The presence of an embryonic opercular flap in amniotes. Proceedings. Biological sciences. 279(1727):224-9

Schuff, M., Siegel, D., Philipp, M., Bundschu,. K., Heymann, N., Donow, C., and Knöchel, W. (2012) Characterization of Danio rerio Nanog and Functional Comparison to Xenopus Vents. Stem cells and development. 21(8):1225-1238

Simms, R.J., Hynes, A.M., Eley, L., Inglis, D., Chaudhry, B., Dawe, H.R., and Sayer, J.A. (2012) Modelling a ciliopathy: Ahi1 knockdown in model systems reveals an essential role in brain, retinal, and renal development. Cellular and molecular life sciences : CMLS. 69(6):993-1009

Umasankar, P.K., Sanker, S., Thieman, J.R., Chakraborty, S., Wendland, B., Tsang, M., and Traub, L.M. (2012) Distinct and separable activities of the endocytic clathrin-coat components Fcho1/2 and AP-2 in developmental patterning. Nature cell biology. 14(5):488-501

Wong, K.S., Rehn, K., Palencia-Desai, S., Kohli, V., Hunter, W., Uhl, J.D., Rost, M.S., and Sumanas, S. (2012) Hedgehog signaling is required for differentiation of endocardial progenitors in zebrafish. Developmental Biology. 361(2):377-91

Zeng, L., and Childs, S.J. (2012) The smooth muscle microRNA miR-145 regulates gut epithelial development via a paracrine mechanism. Developmental Biology. 367(2):178-186

Zhang, L., Huang, H., Zhou, F., Schimmel, J., Pardo, C.G., Zhang, T., Barakat, T.S., Sheppard, K.A., Mickanin, C., Porter, J.A., Vertegaal, A.C., van Dam, H., Gribnau, J., Lu, C.X., and Ten Dijke, P. (2012) RNF12 Controls Embryonic Stem Cell Fate and Morphogenesis in Zebrafish Embryos by Targeting Smad7 for Degradation. Molecular Cell. 46(5):650-661

Bhattacharya, P., Yan, Y.L., Postlethwait, J., and Rubin, D. (2011) Evolution of the vertebrate pth2 (tip39) gene family and the regulation of PTH type 2 receptor (pth2r) and its endogenous ligand pth2 by hedgehog signaling in zebrafish development. The Journal of endocrinology. 211(2):187-200

Chalasani, K., and Brewster, R.M. (2011) N-cadherin-mediated cell adhesion restricts cell proliferation in the dorsal neural tube. Molecular biology of the cell. 22(9):1505-1515

Chun, C.Z., Remadevi, I., Schupp, M.O., Samant, G.V., Pramanik, K., Wilkinson, G.A., and Ramchandran, R. (2011) Fli+ etsrp+ Hemato-Vascular Progenitor Cells Proliferate at the Lateral Plate Mesoderm during Vasculogenesis in Zebrafish. PLoS One. 6(2):e14732

Curtin, E., Hickey, G., Kamel, G., Davidson, A.J., and Liao, E.C. (2011) Zebrafish wnt9a is expressed in pharyngeal ectoderm and is required for palate and lower jaw development. Mechanisms of Development. 128(1-2):104-115

Dente, L., Gestri, G., Tsang, M., Kudoh, T., Wilson, S.W., Dawid, I.B., and Andreazzoli, M. (2011) Cloning and developmental expression of zebrafish pdzrn3. The International journal of developmental biology. 55(10-12):989-993

Feijoo, C.G., Oñate, M.G., Milla, L.A., and Palma, V.A. (2011) Sonic hedgehog (Shh)-Gli signaling controls neural progenitor cell division in the developing tectum in zebrafish. The European journal of neuroscience. 33(4):589-598

Gongal, P.A., March, L.D., Holly, V.L., Pillay, L.M., Berry-Wynne, K.M., Kagechika, H., and Waskiewicz, A.J. (2011) Hmx4 regulates Sonic hedgehog signaling through control of retinoic acid synthesis during forebrain patterning. Developmental Biology. 355(1):55-64

Hsu, L.S., Liang, C.J., Tseng, C.Y., Yeh, C.W., and Tsai, J.N. (2011) Zebrafish Cyclin-Dependent Protein Kinase-Like 1 (zcdkl1): Identification and Functional Characterization. International Journal of Molecular Sciences. 12(6):3606-3617

Jacobs, N.L., Albertson, R.C., and Wiles, J.R. (2011) Using Whole Mount in situ Hybridization to Link Molecular and Organismal Biology. Journal of visualized experiments : JoVE. (49)

Jung, I.H., Jung, D.E., Park, Y.N., Song, S.Y., and Park, S.W. (2011) Aberrant hedgehog ligands induce progressive pancreatic fibrosis by paracrine activation of myofibroblasts and ductular cells in transgenic zebrafish. PLoS One. 6(12):e27941

Kashyap, B., Frey, R.A., and Stenkamp, D.L. (2011) Ethanol-Induced Microphthalmia is Not Mediated by Changes in Retinoic Acid or Sonic Hedgehog Signaling During Retinal Neurogenesis. Alcoholism, clinical and experimental research. 35(9):1644-61

Kur, E., Christa, A., Veth, K.N., Gajera, C.R., Andrade-Navarro, M.A., Zhang, J., Willer, J.R., Gregg, R.G., Abdelilah-Seyfried, S., Bachmann, S., Link, B.A., Hammes, A., and Willnow, T.E. (2011) Loss of Lrp2 in zebrafish disrupts pronephric tubular clearance but not forebrain development. Developmental Dynamics : an official publication of the American Association of Anatomists. 240(6):1567-1577

Lauter, G., Söll, I., and Hauptmann, G. (2011) Multicolor fluorescent in situ hybridization to define abutting and overlapping gene expression in the embryonic zebrafish brain. Neural Development. 6:10

Li, J., Zhang, X., Lu, J., Zhang, J., Ruan, T., Zhou, Q., Jiang, G., and Liang, Y. (2011) Impaired gas bladder inflation in zebrafish exposed to a novel heterocyclic brominated flame retardant tris(2,3-dibromopropyl) isocyanurate. Environmental science & technology. 45(22):9750-7

Lindeman, L.C., Andersen, I.S., Reiner, A.H., Li, N., Aanes, H., Ostrup, O., Winata, C., Mathavan, S., Muller, F., Aleström, P., and Collas, P. (2011) Prepatterning of Developmental Gene Expression by Modified Histones before Zygotic Genome Activation. Developmental Cell. 21(6):993-1004

Noche, R.R., Lu, P.N., Goldstein-Kral, L., Glasgow, E., and Liang, J.O. (2011) Circadian rhythms in the pineal organ persist in zebrafish larvae that lack ventral brain. BMC Neuroscience. 12:7

Osborn, D.P., Li, K., Hinits, Y., and Hughes, S.M. (2011) Cdkn1c drives muscle differentiation through a positive feedback loop with Myod. Developmental Biology. 350(2):464-475

Pikulkaew, S., Benato, F., Celeghin, A., Zucal, C., Skobo, T., Colombo, L., and Dalla Valle , L. (2011) The knockdown of maternal glucocorticoid receptor mRNA alters embryo development in zebrafish. Developmental Dynamics : an official publication of the American Association of Anatomists. 240(4):874-889

Sun, S., Gui, Y., Jiang, Q., and Song, H. (2011) Dihydrofolate reductase is required for the development of heart and outflow tract in zebrafish. Acta biochimica et biophysica Sinica. 43(12):957-969

Wang, G., Cadwallader, A.B., Jang, D.S., Tsang, M., Yost, H.J., and Amack, J.D. (2011) The Rho kinase Rock2b establishes anteroposterior asymmetry of the ciliated Kupffer's vesicle in zebrafish. Development (Cambridge, England). 138(1):45-54

Yee, N.S., Zhou, W., and Liang, I.C. (2011) Transient receptor potential ion channel Trpm7 regulates exocrine pancreatic epithelial proliferation by Mg2+-sensitive Socs3a signaling in development and cancer. Disease models & mechanisms. 4(2):240-254

Yoshizawa, A., Nakahara, Y., Izawa, T., Ishitani, T., Tsutsumi, M., Kuroiwa, A., Itoh, M., and Kikuchi, Y. (2011) Zebrafish Dmrta2 regulates neurogenesis in the telencephalon. Genes to cells : devoted to molecular & cellular mechanisms. 16(11):1097-1109

Zhang, J., Peterson, S.M., Weber, G.J., Zhu, X., Zheng, W., and Freeman, J.L. (2011) Decreased axonal density and altered expression profiles of axonal guidance genes underlying lead (Pb) neurodevelopmental toxicity at early embryonic stages in the zebrafish. Neurotoxicology and teratology. 33(6):715-20

Aamar, E., and Dawid, I.B. (2010) Sox17 and chordin are required for formation of Kupffer's vesicle and left-right asymmetry determination in zebrafish. Developmental Dynamics : an official publication of the American Association of Anatomists. 239(11):2980-2988

Camarata, T., Snyder, D., Schwend, T., Klosowiak, J., Holtrup, B., and Simon, H.G. (2010) Pdlim7 is required for maintenance of the mesenchymal/epidermal Fgf signaling feedback loop during zebrafish pectoral fin development. BMC Developmental Biology. 10:104

Chaplin, N., Tendeng, C., and Wingate, R.J. (2010) Absence of an external germinal layer in zebrafish and shark reveals a distinct, anamniote ground plan of cerebellum development. The Journal of neuroscience : the official journal of the Society for Neuroscience. 30(8):3048-3057

Gates, K.P., Mentzer, L., Karlstrom, R.O., and Sirotkin, H.I. (2010) The transcriptional repressor REST/NRSF modulates hedgehog signaling. Developmental Biology. 340(2):293-305

Ito, T., Ando, H., Suzuki, T., Ogura, T., Hotta, K., Imamura, Y., Yamaguchi, Y., and Handa, H. (2010) Identification of a primary target of thalidomide teratogenicity. Science (New York, N.Y.). 327(5971):1345-1350

Kano, S., Xiao, J.H., Osorio, J., Ekker, M., Hadzhiev, Y., Muller, F., Casane, D., Magdelenat, G., and Retaux, S. (2010) Two lamprey hedgehog genes share non-coding regulatory sequences and expression patterns with gnathostome hedgehogs. PLoS One. 5(10):e13332

Lang, M., Hadzhiev, Y., Siegel, N., Amemiya, C.T., Parada, C., Strähle, U., Becker, M.B., Muller, F., and Meyer, A. (2010) Conservation of shh cis-regulatory architecture of the coelacanth is consistent with its ancestral phylogenetic position. EvoDevo. 1(1):11

Lopes, S.S., Lourenço, R., Pacheco, L., Moreno, N., Kreiling, J., and Saude, L. (2010) Notch signalling regulates left-right asymmetry through ciliary length control. Development (Cambridge, England). 137(21):3625-3632

Okuda, Y., Ogura, E., Kondoh, H., and Kamachi, Y. (2010) B1 SOX coordinate cell specification with patterning and morphogenesis in the early zebrafish embryo. PLoS Genetics. 6:e1000936

Prykhozhij, S.V. (2010) In the Absence of Sonic Hedgehog, p53 Induces Apoptosis and Inhibits Retinal Cell Proliferation, Cell-Cycle Exit and Differentiation in Zebrafish. PLoS One. 5(10):e13549

Sarmah, B., and Wente, S.R. (2010) Inositol hexakisphosphate kinase-2 acts as an effector of the vertebrate Hedgehog pathway. Proceedings of the National Academy of Sciences of the United States of America. 107(46):19921-19926

Sun, H., Li, D., Chen, S., Liu, Y., Liao, X., Deng, W., Li, N., Zeng, M., Tao, D., and Ma, Y. (2010) Zili Inhibits TGF-beta Signaling by Interacting with Smad4. The Journal of biological chemistry. 285(6):4243-4250

Walczak-Sztulpa, J., Eggenschwiler, J., Osborn, D., Brown, D.A., Emma, F., Klingenberg, C., Hennekam, R.C., Torre, G., Garshasbi, M., Tzschach, A., Szczepanska, M., Krawczynski, M., Zachwieja, J., Zwolinska, D., Beales, P.L., Ropers, H.H., Latos-Bielenska, A., and Kuss, A.W. (2010) Cranioectodermal Dysplasia, Sensenbrenner Syndrome, Is a Ciliopathy Caused by Mutations in the IFT122 Gene. American journal of human genetics. 86(6):949-956

Yamamoto, M., Morita, R., Mizoguchi, T., Matsuo, H., Isoda, M., Ishitani, T., Chitnis, A.B., Matsumoto, K., Crump, J.G., Hozumi, K., Yonemura, S., Kawakami, K., and Itoh, M. (2010) Mib-Jag1-Notch signalling regulates patterning and structural roles of the notochord by controlling cell-fate decisions. Development (Cambridge, England). 137(15):2527-2537

Aanstad, P., Santos, N., Corbit, K.C., Scherz, P.J., Trinh, L.A., Salvenmoser, W., Huisken, J., Reiter, J.F., and Stainier, D.Y. (2009) The Extracellular Domain of Smoothened Regulates Ciliary Localization and Is Required for High-Level Hh Signaling. Current biology : CB. 19(12):1034-1039

Chakraborty, A., Uechi, T., Higa, S., Torihara, H., and Kenmochi, N. (2009) Loss of ribosomal protein L11 affects zebrafish embryonic development through a p53-dependent apoptotic response. PLoS One. 4(1):e4152

Chow, E.S., Hui, M.N., Cheng, C.W., and Cheng, S.H. (2009) Cadmium affects retinogenesis during zebrafish embryonic development. Toxicology and applied pharmacology. 235(1):68-76

Danesin, C., Peres, J.N., Johansson, M., Snowden, V., Cording, A., Papalopulu, N., and Houart, C. (2009) Integration of telencephalic Wnt and hedgehog signaling center activities by Foxg1. Developmental Cell. 16(4):576-587

Dixon Fox, M., and Bruce, A.E. (2009) Short- and long-range functions of Goosecoid in zebrafish axis formation are independent of Chordin, Noggin 1 and Follistatin-like 1b. Development (Cambridge, England). 136(10):1675-1685

Elsen, G.E., Choi, L.Y., Prince, V.E., and Ho, R.K. (2009) The autism susceptibility gene met regulates zebrafish cerebellar development and facial motor neuron migration. Developmental Biology. 335(1):78-92

Feijoo, C.G., Saldias, M.P., De la Paz, J.F., Gómez-Skarmeta, J.L., and Allende, M.L. (2009) Formation of posterior cranial placode derivatives requires the Iroquois transcription factor irx4a. Molecular and cellular neurosciences. 40(3):328-337

Gehrig, J., Reischl, M., Kalmar, E., Ferg, M., Hadzhiev, Y., Zaucker, A., Song, C., Schindler, S., Liebel, U., and Muller, F. (2009) Automated high-throughput mapping of promoter-enhancer interactions in zebrafish embryos. Nature Methods. 6(12):911-916

Haga, Y., Dominique, V.J. 3rd, and Du, S.J. (2009) Analyzing notochord segmentation and intervertebral disc formation using the twhh:gfp transgenic zebrafish model. Transgenic Research. 18(5):669-683

Huang, P., and Schier, A.F. (2009) Dampened Hedgehog signaling but normal Wnt signaling in zebrafish without cilia. Development (Cambridge, England). 136(18):3089-3098

Kastenhuber, E., Kern U., Bonkowsky, J.L., Chien, C.B., Driever, W., and Schweitzer, J. (2009) Netrin-DCC, Robo-Slit, and heparan sulfate proteoglycans coordinate lateral positioning of longitudinal dopaminergic diencephalospinal axons. The Journal of neuroscience : the official journal of the Society for Neuroscience. 29(28):8914-8926

Kwon, H.J., and Riley, B.B. (2009) Mesendodermal signals required for otic induction: Bmp-antagonists cooperate with Fgf and can facilitate formation of ectopic otic tissue. Developmental Dynamics : an official publication of the American Association of Anatomists. 238(6):1582-1594

Loucks, E.J., and Ahlgren, S.C. (2009) Deciphering the role of Shh signaling in axial defects produced by ethanol exposure. Birth defects research. Part A, Clinical and molecular teratology. 85(6):556-567

Mao, J., McGlinn, E., Huang, P., Tabin, C.J., and McMahon, A.P. (2009) Fgf-dependent Etv4/5 activity is required for posterior restriction of Sonic Hedgehog and promoting outgrowth of the vertebrate limb. Developmental Cell. 16(4):600-606

Mich, J.K., Blaser, H., Thomas, N.A., Firestone, A.J., Yelon, D., Raz, E., and Chen, J.K. (2009) Germ cell migration in zebrafish is cyclopamine-sensitive but Smoothened-independent. Developmental Biology. 328(2):342-354

Neugebauer, J.M., Amack, J.D., Peterson, A.G., Bisgrove, B.W., and Yost, H.J. (2009) FGF signalling during embryo development regulates cilia length in diverse epithelia. Nature. 458(7238):651-654

Paridaen, J.T., Danesin, C., Elas, A.T., van de Water, S., Houart, C., and Zivkovic, D. (2009) Apc1 is required for maintenance of local brain organizers and dorsal midbrain survival. Developmental Biology. 331(2):101-112

Paulus, J.D., Willer, G.B., Willer, J.R., Gregg, R.G., and Halloran, M.C. (2009) Muscle contractions guide Rohon-Beard peripheral sensory axons. The Journal of neuroscience : the official journal of the Society for Neuroscience. 29(42):13190-13201

Reimer, M.M., Kuscha, V., Wyatt, C., Sörensen, I., Frank, R.E., Knüwer, M., Becker, T., and Becker, C.G. (2009) Sonic hedgehog is a polarized signal for motor neuron regeneration in adult zebrafish. The Journal of neuroscience : the official journal of the Society for Neuroscience. 29(48):15073-15082

Sanek, N.A., Taylor, A.A., Nyholm, M.K., and Grinblat, Y. (2009) Zebrafish zic2a patterns the forebrain through modulation of Hedgehog-activated gene expression. Development (Cambridge, England). 136(22):3791-3800

Schwend, T., and Ahlgren, S.C. (2009) Zebrafish con/disp1 reveals multiple spatiotemporal requirements for Hedgehog-signaling in craniofacial development. BMC Developmental Biology. 9:59

Tiso, N., Filippi, A., Benato, F., Negrisolo, E., Modena, N., Vaccari, E., Driever, W., and Argenton, F. (2009) Differential expression and regulation of olig genes in zebrafish. The Journal of comparative neurology. 515(3):378-396

White, Y.A., Kyle, J.T., and Wood, A.W. (2009) Targeted Gene Knockdown in Zebrafish Reveals Distinct Intraembryonic Functions for Insulin-Like Growth Factor II Signaling. Endocrinology. 150(9):4366-4375

Winata, C.L., Korzh, S., Kondrychyn, I., Zheng, W., Korzh, V., and Gong, Z. (2009) Development of zebrafish swimbladder: the requirement of Hedgehog signaling in specification and organization of the three tissue layers. Developmental Biology. 331(2):222-236

Zou, S., Kamei, H., Modi, Z., and Duan, C. (2009) Zebrafish IGF genes: gene duplication, conservation and divergence, and novel roles in midline and notochord development. PLoS One. 4(9):e7026

Bergeron, S.A., Milla, L.A., Villegas, R., Shen, M.C., Burgess, S.M., Allende, M.L., Karlstrom, R.O., and Palma, V. (2008) Expression profiling identifies novel Hh/Gli-regulated genes in developing zebrafish embryos. Genomics. 91(2):165-177

de Campos-Baptista, M.I., Holtzman, N.G., Yelon, D., and Schier, A.F. (2008) Nodal signaling promotes the speed and directional movement of cardiomyocytes in zebrafish. Developmental Dynamics : an official publication of the American Association of Anatomists. 237(12):3624-3633

Eaton, J.L., Holmqvist, B., and Glasgow, E. (2008) Ontogeny of vasotocin-expressing cells in zebrafish: Selective requirement for the transcriptional regulators orthopedia and single-minded 1 in the preoptic area. Developmental Dynamics : an official publication of the American Association of Anatomists. 237(4):995-1005

Elsen, G.E., Choi, L.Y., Millen, K.J., Grinblat, Y., and Prince, V.E. (2008) Zic1 and Zic4 regulate zebrafish roof plate specification and hindbrain ventricle morphogenesis. Developmental Biology. 314(2):376-392

Gongal, P.A., and Waskiewicz, A.J. (2008) Zebrafish model of Holoprosencephaly demonstrates a key role for TGIF in regulating retinoic acid metabolism. Human molecular genetics. 17(4):525-538

Harris, M.P., Rohner, N., Schwarz, H., Perathoner, S., Konstantinidis, P., and Nüsslein-Volhard, C. (2008) Zebrafish eda and edar mutants reveal conserved and ancestral roles of ectodysplasin signaling in vertebrates. PLoS Genetics. 4(10):e1000206

Hawkins, T.A., Cavodeassi, F., Erdelyi, F., Szabo, G., and Lele, Z. (2008) The small molecule Mek1/2 inhibitor U0126 disrupts the chordamesoderm to notochord transition in zebrafish. BMC Developmental Biology. 8(1):42

Kishimoto, N., Cao, Y., Park, A., and Sun, Z. (2008) Cystic kidney gene seahorse regulates cilia-mediated processes and Wnt pathways. Developmental Cell. 14(6):954-961

Krens, S.F., He, S., Lamers, G.E., Meijer, A.H., Bakkers, J., Schmidt, T., Spaink, H.P., and Snaar-Jagalska, B.E. (2008) Distinct functions for ERK1 and ERK2 in cell migration processes during zebrafish gastrulation. Developmental Biology. 319(2):370-383

Leucht, C., Stigloher, C., Wizenmann, A., Klafke, R., Folchert, A., and Bally-Cuif, L. (2008) MicroRNA-9 directs late organizer activity of the midbrain-hindbrain boundary. Nature Neuroscience. 11(6):641-648

Lokmane, L., Haumaitre, C., Garcia-Villalba, P., Anselme, I., Schneider-Maunoury, S., and Cereghini, S. (2008) Crucial role of vHNF1 in vertebrate hepatic specification. Development (Cambridge, England). 135(16):2777-2786

Minehata, K.I., Kawahara, A., and Suzuki, T. (2008) meis1 regulates the development of endothelial cells in zebrafish. Biochemical and Biophysical Research Communications. 374(4):647-652

Nicoli, S., Tobia, C., Gualandi, L., De Sena, G., and Presta, M. (2008) Calcitonin receptor-like receptor guides arterial differentiation in Zebrafish. Blood. 111(10):4965-4972

Park, S.W., Davison, J.M., Rhee, J., Hruban, R.H., Maitra, A., and Leach, S.D. (2008) Oncogenic KRAS Induces Progenitor Cell Expansion and Malignant Transformation in Zebrafish Exocrine Pancreas. Gastroenterology. 134(7):2080-2090

Pistocchi, A., Gaudenzi, G., Carra, S., Bresciani, E., Del Giacco, L., and Cotelli, F. (2008) Crucial role of zebrafish prox1 in hypothalamic catecholaminergic neurons development. BMC Developmental Biology. 8:27

Prykhozhij, S.V., and Neumann, C.J. (2008) Distinct roles of Shh and Fgf signaling in regulating cell proliferation during zebrafish pectoral fin development. BMC Developmental Biology. 8(1):91

Rastegar, S., Hess, I., Dickmeis, T., Nicod, J.C., Ertzer, R., Hadzhiev, Y., Thies, W.G., Scherer, G., and Strähle, U. (2008) The words of the regulatory code are arranged in a variable manner in highly conserved enhancers. Developmental Biology. 318(2):366-377

Reynaud, C., Baas, D., Gleyzal, C., Le Guellec, D., and Sommer, P. (2008) Morpholino knockdown of lysyl oxidase impairs zebrafish development, and reflects some aspects of copper metabolism disorders. Matrix biology : journal of the International Society for Matrix Biology. 27(6):547-560

Schneider, I., Houston, D.W., Rebagliati, M.R., and Slusarski, D.C. (2008) Calcium fluxes in dorsal forerunner cells antagonize {beta}-catenin and alter left-right patterning. Development (Cambridge, England). 135(1):75-84

Tayeh, M.K., Yen, H.J., Beck, J.S., Searby, C.C., Westfall, T.A., Griesbach, H., Sheffield, V.C., and Slusarski, D.C. (2008) Genetic interaction between Bardet-Biedl syndrome genes and implications for limb patterning. Human molecular genetics. 17(13):1956-1967

Veien, E.S., Rosenthal, J.S., Kruse-Bend, R.C., Chien, C.B., and Dorsky, R.I. (2008) Canonical Wnt signaling is required for the maintenance of dorsal retinal identity. Development (Cambridge, England). 135(24):4101-4111

Amack, J.D., Wang, X., and Yost, H.J. (2007) Two T-box genes play independent and cooperative roles to regulate morphogenesis of ciliated Kupffer's vesicle in zebrafish. Developmental Biology. 310(2):196-210

Bennett, J.T., Stickney, H.L., Choi, W.Y., Ciruna, B., Talbot, W.S., and Schier, A.F. (2007) Maternal nodal and zebrafish embryogenesis. Nature. 450(7167):E1-E4

Cheng, C.W., Yan, C.H., Choy, S.W., Hui, M.N., Hui, C.C., and Cheng, S.H. (2007) Zebrafish homologue irx1a is required for the differentiation of serotonergic neurons. Developmental Dynamics : an official publication of the American Association of Anatomists. 236(9):2661-2667

Dworkin, S., Heath, J.K., Dejong-Curtain, T.A., Hogan, B.M., Lieschke, G.J., Malaterre, J., Ramsay, R.G., and Mantamadiotis, T. (2007) CREB activity modulates neural cell proliferation, midbrain-hindbrain organization and patterning in zebrafish. Developmental Biology. 307(1):127-141

Ertzer, R., Muller, F., Hadzhiev, Y., Rathnam, S., Fischer, N., Rastegar, S., and Strähle, U. (2007) Cooperation of sonic hedgehog enhancers in midline expression. Developmental Biology. 301(2):578-589

Gourronc, F., Ahmad, N., Nedza, N., Eggleston, T., and Rebagliati, M. (2007) Nodal activity around Kupffer's vesicle depends on the T-box transcription factors notail and spadetail and on notch signaling. Developmental Dynamics : an official publication of the American Association of Anatomists. 236(8):2131-2146

Hammond, C.L., Hinits, Y., Osborn, D.P., Minchin, J.E., Tettamanti, G., and Hughes, S.M. (2007) Signals and myogenic regulatory factors restrict pax3 and pax7 expression to dermomyotome-like tissue in zebrafish. Developmental Biology. 302(2):504-521

Hellemont, R.V., Blomme, T., Van de Peer, Y., and Marchal, K. (2007) Divergence of regulatory sequences in duplicated fish genes. Genome dynamics. 3:81-100

Isken, A., Holzschuh, J., Lampert, J.M., Fischer, L., Oberhauser, V., Palczewski, K., and von Lintig, J. (2007) Sequestration of retinyl esters is essential for retinoid signaling in the zebrafish embryo. The Journal of biological chemistry. 282(2):1144-1151

Lee, H.C., Tsai, J.N., Liao, P.Y., Tsai, W.Y., Lin, K.Y., Chuang, C.C., Sun, C.K., Chang, W.C., and Tsai, H.J. (2007) Glycogen synthase kinase 3alpha and 3beta have distinct functions during cardiogenesis of zebrafish embryo. BMC Developmental Biology. 7(1):93

Li, Z., Korzh, V., and Gong, Z. (2007) Localized rbp4 expression in the yolk syncytial layer plays a role in yolk cell extension and early liver development. BMC Developmental Biology. 7(1):117

Maves, L., Waskiewicz, A.J., Paul, B., Cao, Y., Tyler, A., Moens, C.B., and Tapscott, S.J. (2007) Pbx homeodomain proteins direct Myod activity to promote fast-muscle differentiation. Development (Cambridge, England). 134(18):3371-3382

Nyholm, M.K., Wu, S.F., Dorsky, R.I., and Grinblat, Y. (2007) The zebrafish zic2a-zic5 gene pair acts downstream of canonical Wnt signaling to control cell proliferation in the developing tectum. Development (Cambridge, England). 134(4):735-746

Schafer, M., Kinzel, D., and Winkler, C. (2007) Discontinuous organization and specification of the lateral floor plate in zebrafish. Developmental Biology. 301(1):117-129

Scholpp, S., Foucher, I., Staudt, N., Peukert, D., Lumsden, A., and Houart, C. (2007) Otx1l, Otx2 and Irx1b establish and position the ZLI in the diencephalon. Development (Cambridge, England). 134(17):3167-3176

Stock, D.W. (2007) Zebrafish dentition in comparative context. The Journal of experimental biology. 308(5):523-549

Takeuchi, J.K., Lickert, H., Bisgrove, B.W., Sun, X., Yamamoto, M., Chawengsaksophak, K., Hamada, H., Yost, H.J., Rossant, J., and Bruneau, B.G. (2007) Baf60c is a nuclear Notch signaling component required for the establishment of left-right asymmetry. Proceedings of the National Academy of Sciences of the United States of America. 104(3):846-851

Wang, N., Sun, Y.H., Liu, J., Wang, Y.P., and Zhu, Z.Y. (2007) Molecular characterization of common carp (Cyprinus carpio) Sonic Hedgehog and discovery of its maternal expression. Development genes and evolution. 217(4):299-305

Yeyati, P.L., Bancewicz, R.M., Maule, J., and van Heyningen, V. (2007) Hsp90 Selectively Modulates Phenotype in Vertebrate Development. PLoS Genetics. 3(3):e43

Avaron, F., Hoffman, L., Guay, D., and Akimenko, M.A. (2006) Characterization of two new zebrafish members of the hedgehog family: Atypical expression of a zebrafish indian hedgehog gene in skeletal elements of both endochondral and dermal origins. Developmental Dynamics : an official publication of the American Association of Anatomists. 235(2):478-489

Bayliss, P.E., Bellavance, K.L., Whitehead, G.G., Abrams, J.M., Aegerter, S., Robbins, H.S., Cowan, D.B., Keating, M.T., O'reilly, T., Wood, J.M., Roberts, T.M., and Chan, J. (2006) Chemical modulation of receptor signaling inhibits regenerative angiogenesis in adult zebrafish. Nature Chemical Biology. 2(5):265-273

Del Giacco, L., Sordino, P., Pistocchi, A., Andreakis, N., Tarallo, R., Di Benedetto, B., and Cotelli, F. (2006) Differential regulation of the zebrafish orthopedia1 gene during fate determination of diencephalic neurons. BMC Developmental Biology. 6:50

Eberhart, J.K., Swartz, M.E., Crump, J.G., and Kimmel, C.B. (2006) Early Hedgehog signaling from neural to oral epithelium organizes anterior craniofacial development. Development (Cambridge, England). 133(6):1069-1077

Feng, X., Adiarte, E.G., and Devoto, S.H. (2006) Hedgehog acts directly on the zebrafish dermomyotome to promote myogenic differentiation. Developmental Biology. 300(2):736-746

Gulati-Leekha, A., and Goldman, D. (2006) A reporter-assisted mutagenesis screen using α1-tubulin-GFP transgenic zebrafish uncovers missteps during neuronal development and axonogenesis. Developmental Biology. 296(1):29-47

Ho, D.M., Chan, J., Bayliss, P., and Whitman, M. (2006) Inhibitor-resistant type I receptors reveal specific requirements for TGF-beta signaling in vivo. Developmental Biology. 295(2):730-742

Hsu, H.J., Liang, M.R., Chen, C.T., and Chung, B.C. (2006) Pregnenolone stabilizes microtubules and promotes zebrafish embryonic cell movement. Nature. 439(7075):480-483

Leskow, F.C., Holloway, B.A., Wang, H., Mullins, M.C., and Kazanietz, M.G. (2006) The zebrafish homologue of mammalian chimerin Rac-GAPs is implicated in epiboly progression during development. Proceedings of the National Academy of Sciences of the United States of America. 103(14):5373-5378

Nakada, C., Satoh, S., Tabata, Y., Arai, K., and Watanabe, S. (2006) Transcriptional repressor foxl1 regulates central nervous system development by suppressing shh expression in zebra fish. Molecular and cellular biology. 26(19):7246-7257

Nomura, R., Kamei, E., Hotta, Y., Konishi, M., Miyake, A., and Itoh, N. (2006) Fgf16 is essential for pectoral fin bud formation in zebrafish. Biochemical and Biophysical Research Communications. 347(1):340-346

Ochi, H., Pearson, B.J., Chuang, P.T., Hammerschmidt, M., and Westerfield, M. (2006) Hhip regulates zebrafish muscle development by both sequestering Hedgehog and modulating localization of Smoothened. Developmental Biology. 297(1):127-140

Paulus, J.D., and Halloran, M.C. (2006) Zebrafish bashful/laminin-alpha1 mutants exhibit multiple axon guidance defects. Developmental Dynamics : an official publication of the American Association of Anatomists. 235(1):213-224

Pogoda, H.M., von der Hardt, S., Herzog, W., Kramer, C., Schwarz, H., and Hammerschmidt, M. (2006) The proneural gene ascl1a is required for endocrine differentiation and cell survival in the zebrafish adenohypophysis. Development (Cambridge, England). 133(6):1079-1089

Ryu, S., Holzschuh, J., Mahler, J., and Driever, W. (2006) Genetic analysis of dopaminergic system development in zebrafish. Journal of neural transmission. Supplementum. 70:61-66

Smith, A., Avaron, F., Guay, D., Padhi, B.K., and Akimenko, M.A. (2006) Inhibition of BMP signaling during zebrafish fin regeneration disrupts fin growth and scleroblast differentiation and function. Developmental Biology. 299(2):438-454

Sun, Z., Jin, P., Tian, T., Gu, Y., Chen, Y.G., and Meng, A. (2006) Activation and roles of ALK4/ALK7-mediated maternal TGFbeta signals in zebrafish embryo. Biochemical and Biophysical Research Communications. 345(2):694-703

Teraoka, H., Dong, W., Okuhara, Y., Iwasa, H., Shindo, A., Hill, A.J., Kawakami, A., and Hiraga, T. (2006) Impairment of lower jaw growth in developing zebrafish exposed to 2,3,7,8-tetrachlorodibenzo-p-dioxin and reduced hedgehog expression. Aquatic toxicology (Amsterdam, Netherlands). 78(2):103-113

Wang, X., Yang, N., Uno, E., Roeder, R.G., and Guo, S. (2006) A subunit of the mediator complex regulates vertebrate neuronal development. Proceedings of the National Academy of Sciences of the United States of America. 103(46):17284-17289

Zhu, S., Liu, L., Korzh, V., Gong, Z., and Low, B.C. (2006) RhoA acts downstream of Wnt5 and Wnt11 to regulate convergence and extension movements by involving effectors Rho Kinase and Diaphanous: Use of zebrafish as an in vivo model for GTPase signaling. Cellular Signalling. 18(3):359-372

Bardet, P.L., Horard, B., Laudet, V., and Vanacker, J.M. (2005) The ERRalpha orphan nuclear receptor controls morphogenetic movements during zebrafish gastrulation. Developmental Biology. 281(1):102-111

Bingham, S.M., Toussaint, G., and Chandrasekhar, A. (2005) Neuronal development and migration in zebrafish hindbrain explants. Journal of Neuroscience Methods. 149(1):42-49

Clements, W.K., and Kimelman, D. (2005) LZIC regulates neuronal survival during zebrafish development. Developmental Biology. 283(2):322-334

Dutta, S., Dietrich, J.E., Aspock, G., Burdine, R.D., Schier, A., Westerfield, M., and Varga, Z.M. (2005) pitx3 defines an equivalence domain for lens and anterior pituitary placode. Development (Cambridge, England). 132(7):1579-1590

Essner, J.J., Amack, J.D., Nyholm, M.K., Harris, E.B., and Yost, H.J. (2005) Kupffer's vesicle is a ciliated organ of asymmetry in the zebrafish embryo that initiates left-right development of the brain, heart and gut. Development (Cambridge, England). 132(6):1247-1260

Formstone, C.J., and Mason, I. (2005) Combinatorial activity of Flamingo proteins directs convergence and extension within the early zebrafish embryo via the planar cell polarity pathway. Developmental Biology. 282(2):320-335

Ghiselli, G., and Farber, S.A. (2005) D-glucuronyl C5-epimerase acts in dorso-ventral axis formation in zebrafish. BMC Developmental Biology. 5:19

Gore, A.V., Maegawa, S., Cheong, A., Gilligan, P.C., Weinberg, E.S., and Sampath, K. (2005) The zebrafish dorsal axis is apparent at the four-cell stage. Nature. 438(7070):1030-1035

Ingham, P.W., and Kim, H.R. (2005) Hedgehog signalling and the specification of muscle cell identity in the Zebrafish embryo. Experimental cell research. 306(2):336-342

Kawakami, A., Nojima, Y., Toyoda, A., Takahoko, M., Satoh, M., Tanaka, H., Wada, H., Masai, I., Terasaki, H., Sakaki, Y., Takeda, H., and Okamoto, H. (2005) The zebrafish-secreted matrix protein you/scube2 is implicated in long-range regulation of hedgehog signaling. Current biology : CB. 15(5):480-488

Ke, Z., Emelyanov, A., Lim, S.E., Korzh, V., and Gong, Z. (2005) Expression of a novel zebrafish zinc finger gene, gli2b, is affected in Hedgehog and Notch signaling related mutants during embryonic development. Developmental Dynamics : an official publication of the American Association of Anatomists. 232(2):479-486

Lecaudey, V., Anselme, I., Dildrop, R., Ruther, U., and Schneider-Maunoury, S. (2005) Expression of the zebrafish Iroquois genes during early nervous system formation and patterning. The Journal of comparative neurology. 492(3):289-302

Lin, F., Sepich, D.S., Chen, S., Topczewski, J., Yin, C., Solnica-Krezel, L., and Hamm, H. (2005) Essential roles of G{alpha}12/13 signaling in distinct cell behaviors driving zebrafish convergence and extension gastrulation movements. The Journal of cell biology. 169(5):777-787

Masai, I., Yamaguchi, M., Tonou-Fujimori, N., Komori, A., and Okamoto, H. (2005) The hedgehog-PKA pathway regulates two distinct steps of the differentiation of retinal ganglion cells: the cell-cycle exit of retinoblasts and their neuronal maturation. Development (Cambridge, England). 132(7):1539-1553

Miyake, A., Nakayama, Y., Konishi, M., and Itoh, N. (2005) Fgf19 regulated by Hh signaling is required for zebrafish forebrain development. Developmental Biology. 288(1):259-275

Nixon, S.J., Wegner, J., Ferguson, C., Méry, P.F., Hancock, J.F., Currie, P.D., Key, B., Westerfield, M., and Parton, R.G. (2005) Zebrafish as a model for caveolin-associated muscle disease; caveolin-3 is required for myofibril organization and muscle cell patterning. Human molecular genetics. 14(13):1727-1743

Norton, W.H., Mangoli, M., Lele, Z., Pogoda, H.M., Diamond, B., Mercurio, S., Russell, C., Teraoka, H., Stickney, H.L., Rauch, G.J., Heisenberg, C.P., Houart, C., Schilling, T.F., Frohnhoefer, H.G., Rastegar, S., Neumann, C.J., Gardiner, R.M., Strähle, U., Geisler, R., Rees, M., Talbot, W.S., and Wilson, S.W. (2005) Monorail/Foxa2 regulates floorplate differentiation and specification of oligodendrocytes, serotonergic raphe neurones and cranial motoneurones. Development (Cambridge, England). 132(4):645-658

Perkins, B.D., Nicholas, C.S., Baye, L.M., Link, B.A., and Dowling, J.E. (2005) dazed gene is necessary for late cell type development and retinal cell maintenance in the zebrafish retina. Developmental Dynamics : an official publication of the American Association of Anatomists. 233(2):680-694

Saito, R., Tabata, Y., Muto, A., Arai, K., and Watanabe, S. (2005) Melk-like kinase plays a role in hematopoiesis in the zebra fish. Molecular and cellular biology. 25(15):6682-6693

Schäfer, M., Kinzel, D., Neuner, C., Schartl, M., Volff, J.N., and Winkler, C. (2005) Hedgehog and retinoid signalling confines nkx2.2b expression to the lateral floor plate of the zebrafish trunk. Mechanisms of Development. 122(1):43-56

Sheela, S.G., Lee, W.C., Lin, W.W., and Chung, B.C. (2005) Zebrafish ftz-f1a (nuclear receptor 5a2) functions in skeletal muscle organization. Developmental Biology. 286(2):377-390

Sumanas, S., Zhang, B., Dai, R., and Lin, S. (2005) 15-Zinc finger protein Bloody Fingers is required for zebrafish morphogenetic movements during neurulation. Developmental Biology. 283(1):85-96

Tyurina, O.V., Guner, B., Popova, E., Feng, J., Schier, A.F., Kohtz, J.D., and Karlstrom, R.O. (2005) Zebrafish Gli3 functions as both an activator and a repressor in Hedgehog signaling. Developmental Biology. 277(2):537-556

Woods, I.G., and Talbot, W.S. (2005) The you Gene Encodes an EGF-CUB Protein Essential for Hedgehog Signaling in Zebrafish. PLoS Biology. 3(3):e66

Yan, Y.L., Willoughby, J., Liu, D., Crump, J.G., Wilson, C., Miller, C.T., Singer, A., Kimmel, C., Westerfield, M., and Postlethwait, J.H. (2005) A pair of Sox: distinct and overlapping functions of zebrafish sox9 co-orthologs in craniofacial and pectoral fin development. Development (Cambridge, England). 132(5):1069-1083

Cheesman, S.E., Layden, M.J., Von Ohlen, T., Doe, C.Q., and Eisen, J.S. (2004) Zebrafish and fly Nkx6 proteins have similar CNS expression patterns and regulate motoneuron formation. Development (Cambridge, England). 131(21):5221-5232

Coutinho, P., Parsons, M.J., Thomas, K.A., Hirst, E.M., Saude, L., Campos, I., Williams, P.H., Stemple, D.L. (2004) Differential Requirements for COPI Transport during Vertebrate Early Development. Developmental Cell. 7(4):547-558

Dosch, R., Wagner, D.S., Mintzer, K.A., Runke, G., Wiemelt, A.P., and Mullins, M.C. (2004) Maternal Control of Vertebrate Development before the Midblastula Transition; Mutants from the Zebrafish I. Developmental Cell. 6(6):771-780

Hashimoto, H., Rebagliati, M., Ahmad, N., Muraoka, O., Kurokawa, T., Hibi, M., and Suzuki, T. (2004) The Cerberus/Dan-family protein Charon is a negative regulator of Nodal signaling during left-right patterning in zebrafish. Development (Cambridge, England). 131(8):1741-1753

Kapsimali, M., Caneparo, L., Houart, C., and Wilson, S.W. (2004) Inhibition of Wnt/Axin/{beta}-catenin pathway activity promotes ventral CNS midline tissue to adopt hypothalamic rather than floorplate identity. Development (Cambridge, England). 131(23):5923-5933

Li, Q., Shirabe, K., and Kuwada, J,Y. (2004) Chemokine signaling regulates sensory cell migration in zebrafish. Developmental Biology. 269(1):123-136

Mawdsley, D.J., Cooper, H.M., Hogan, B.M., Cody, S.H., Lieschke, G.J., and Heath, J.K. (2004) The Netrin receptor Neogenin is required for neural tube formation and somitogenesis in zebrafish. Developmental Biology. 269(1):302-315

Nakano, Y., Kim, H.R., Kawakami, A., Roy, S., Schier, A.F., and Ingham, P.W. (2004) Inactivation of dispatched 1 by the chameleon mutation disrupts Hedgehog signalling in the zebrafish embryo. Developmental Biology. 269(2):381-392

Papasani, M.R., Gensure, R.C., Yan, Y.L., Gunes, Y., Postlethwait, J.H., Ponugoti, B., John, M.R., Jüppner, H., and Rubin, D.A. (2004) Identification and characterization of the zebrafish and fugu genes encoding tuberoinfundibular peptide 39 (TIP39). Endocrinology. 145(11):5294-5304

Peterson, R.T., Shaw, S.Y., Peterson, T.A., Milan, D.J., Zhong, T.P., Schreiber, S.L., MacRae, C.A., and Fishman, M.C. (2004) Chemical suppression of a genetic mutation in a zebrafish model of aortic coarctation. Nat. Biotechnol.. 22(5):595-599

Sekimizu, K., Nishioka, N., Sasaki, H., Takeda, H., Karlstrom, R.O., and Kawakami, A. (2004) The zebrafish iguana locus encodes Dzip1, a novel zinc-finger protein required for proper regulation of Hedgehog signaling. Development (Cambridge, England). 131(11):2521-2532

Sire, J.Y., and Akimenko, M.A. (2004) Scale development in fish: a review, with description of sonic hedgehog (shh) expression in the zebrafish (Danio rerio). The International journal of developmental biology. 48(2-3):233-246

Stadler, J.A., Shkumatava, A., and Neumann, C.J. (2004) The role of hedgehog signaling in the development of the zebrafish visual system. Developmental neuroscience. 26(5-6):346-351

Wilbanks, A.M., Fralish, G.B., Kirby, M.L., Barak, L.S., Li, Y.X., and Caron, M.G. (2004) Beta-arrestin 2 regulates zebrafish development through the hedgehog signaling pathway. Science (New York, N.Y.). 306(5705):2264-2267

Albert, S., Müller, F., Fischer, N., Biellmann, D., Neumann, C., Blader, P., and Strähle, U. (2003) Cyclops-independent floor plate differentiation in zebrafish embryos. Developmental Dynamics : an official publication of the American Association of Anatomists. 226(1):59-66

Bink, R.J., Habuchi, H., Lele, Z., Dolk, E., Joore, J., Rauch, G.J., Geisler, R., Wilson, S.W., den Hertog, J., Kimata, K., and Zivkovic, D. (2003) Heparan sulfate 6-O-sulfotransferase is essential for muscle development in zebrafish. The Journal of biological chemistry. 278(33):31118-31127

Das, T., Payer, B., Cayouette, M., and Harris, W.A. (2003) In vivo time-lapse imaging of cell divisions during neurogenesis in the developing zebrafish retina. Neuron. 37(4):597-609

Gregg, R.G., Willer, G.B., Fadool, J.M., Dowling, J.E., and Link, B.A. (2003) Positional cloning of the young mutation identifies an essential role for the Brahma chromatin remodeling complex in mediating retinal cell differentiation. Proceedings of the National Academy of Sciences of the United States of America. 100(11):6535-6540

Herzog, W., Zeng, X., Lele, Z., Sonntag, C., Ting, J.W., Chang, C.Y., and Hammerschmidt, M. (2003) Adenohypophysis formation in the zebrafish and its dependence on sonic hedgehog. Developmental Biology. 254(1):36-49

Hsu, H.-J., Lin, G., and Chung, B.-C. (2003) Parallel early development of zebrafish interrenal glands and pronephros: differential control by wt1 and ff1b. Development (Cambridge, England). 130(10):2107-2116

Kunwar, P.S., Zimmerman, S., Bennett, J.T., Chen, Y., Whitman, M., and Schier, A.F. (2003) Mixer/Bon and FoxH1/Sur have overlapping and divergent roles in Nodal signaling and mesendoderm induction. Development (Cambridge, England). 130(23):5589-5599

Lampert, J.M., Holzschuh, J., Hessel, S., Driever, W., Vogt, K., and von Lintig, J. (2003) Provitamin A conversion to retinal via the beta,beta-carotene-15,15'-oxygenase (bcox) is essential for pattern formation and differentiation during zebrafish embryogenesis. Development (Cambridge, England). 130(10):2173-2186

Mayer, A.N. and Fishman, M.C. (2003) nil per os encodes a conserved RNA recognition motif protein required for morphogenesis and cytodifferentiation of digestive organs in zebrafish. Development (Cambridge, England). 130(17):3917-3928

Sbrogna, J.L., Barresi, M.J., and Karlstrom, R.O. (2003) Multiple roles for Hedgehog signaling in zebrafish pituitary development. Developmental Biology. 254(1):19-35

Smith, D.G., Wilburn, C., and McCarthy, R.A. (2003) Methoprene photolytic compounds disrupt zebrafish development, producing phenocopies of mutants in the sonic hedgehog signaling pathway. Marine biotechnology (New York, N.Y.). 5(2):201-212

Tallafuss, A., Adolf, B., and Bally-Cuif, L. (2003) Selective control of neuronal cluster size at the forebrain/midbrain boundary by signaling from the prechordal plate. Developmental Dynamics : an official publication of the American Association of Anatomists. 227(4):524-535

Ungos, J.M., Karlstrom, R.O., and Raible, D.W. (2003) Hedgehog signaling is directly required for the development of zebrafish dorsal root ganglia neurons. Development (Cambridge, England). 130(22):5351-5362

Walshe, J. and Mason, I. (2003) Unique and combinatorial functions of Fgf3 and Fgf8 during zebrafish forebrain development. Development (Cambridge, England). 130(18):4337-4349

Ahn, D.-G., Kourakis, M.J., Rohde, L.A., Silver, L.M., and Ho, R.K. (2002) T-box gene tbx5 is essential for formation of the pectoral limb bud. Nature. 417(6890):754-758

Culverwell, J. and Karlstrom, R.O. (2002) Making the connection: retinal axon guidance in the zebrafish. Seminars in cell & developmental biology. 13(6):497-506

Feldman, B., Concha, M.L., Saude, L., Parsons, M.J., Adams, R.J., Wilson, S.W., and Stemple, D.L. (2002) Lefty antagonism of squint is essential for normal gastrulation. Current biology : CB. 12(24):2129-2135

Hauptmann, G., Söll, I., and Gerster, T. (2002) The early embryonic zebrafish forebrain is subdivided into molecularly distinct transverse and longitudinal domains. Brain research bulletin. 57(3-4):371-375

Jessen, J.R., Topczewski, J., Bingham, S., Sepich, D.S., Marlow, F., Chandrasekhar, A., and Solnica-Krezel, L. (2002) Zebrafish trilobite identifies new roles for Strabismus in gastrulation and neuronal movements. Nature cell biology. 4(8):610-615

Lawson, N.D., Vogel, A.M., and Weinstein, B.M. (2002) sonic hedgehog and vascular endothelial growth factor act upstream of the Notch pathway during arterial endothelial differentiation. Developmental Cell. 3(1):127-136

Liao, E.C., Trede, N.S., Ransom, D., Zapata, A., Kieran, M., and Zon, L.I. (2002) Non-cell autonomous requirement for the bloodless gene in primitive hematopoiesis of zebrafish. Development (Cambridge, England). 129(3):649-659

Mathieu, J., Barth, A., Rosa, F.M., Wilson, S.W., and Peyriéras, N. (2002) Distinct and cooperative roles for Nodal and Hedgehog signals during hypothalamic development. Development (Cambridge, England). 129(13):3055-3065

Müller, F., Blader, P., and Strähle, U. (2002) Search for enhancers: teleost models in comparative genomic and transgenic analysis of cis regulatory elements. BioEssays : news and reviews in molecular, cellular and developmental biology. 24(6):564-572

Ng, J.K., Kawakami, Y., Büscher, D., Raya, A., Itoh, T., Koth, C.M., Rodriguez-Esteban, C., Rodríguez-León, J., Garrity, D.M., Fishman, M.C., and Izpisúa Belmonte, J.C. (2002) The limb identity gene Tbx5 promotes limb initiation by interacting with Wnt2b and Fgf10. Development (Cambridge, England). 129(22):5161-5170

Quint, E., Smith, A., Avaron, F., Laforest, L., Miles, J., Gaffield, W., and Akimenko, M.-A. (2002) Bone patterning is altered in the regenerating zebrafish caudal fin after ectopic expression of sonic hedgehog and bmp2b or exposure to cyclopamine. Proceedings of the National Academy of Sciences of the United States of America. 99(13):8713-8718

Reim, G. and Brand, M. (2002) spiel-ohne-grenzen/pou2 mediates regional competence to respond to Fgf8 during zebrafish early neural development. Development (Cambridge, England). 129(4):917-933

Strausberg,R.L., Feingold,E.A., Grouse,L.H., Derge,J.G., Klausner,R.D., Collins,F.S., Wagner,L., Shenmen,C.M., Schuler,G.D., Altschul,S.F., Zeeberg,B., Buetow,K.H., Schaefer,C.F., Bhat,N.K., Hopkins,R.F., Jordan,H., Moore,T., Max,S.I., Wang,J., Hsieh,F., Diatchenko,L., Marusina,K., Farmer,A.A., Rubin,G.M., Hong,L., Stapleton,M., Soares,M.B., Bonaldo,M.F., Casavant,T.L., Scheetz,T.E., Brownstein,M.J., Usdin,T.B., Toshiyuki,S., Carninci,P., Prange,C., Raha,S.S., Loquellano,N.A., Peters,G.J., Abramson,R.D., Mullahy,S.J., Bosak,S.A., McEwan,P.J., McKernan,K.J., Malek,J.A., Gunaratne,P.H., Richards,S., Worley,K.C., Hale,S., Garcia,A.M., Gay,L.J., Hulyk,S.W., Villalon,D.K., Muzny,D.M., Sodergren,E.J., Lu,X., Gibbs,R.A., Fahey,J., Helton,E., Ketteman,M., Madan,A., Rodrigues,S., Sanchez,A., Whiting,M., Madan,A., Young,A.C., Shevchenko,Y., Bouffard,G.G., Blakesley,R.W., Touchman,J.W., Green,E.D., Dickson,M.C., Rodriguez,A.C., Grimwood,J., Schmutz,J., Myers,R.M., Butterfield,Y.S., Krzywinski,M.I., Skalska,U., Smailus,D.E., Schnerch,A., Schein,J.E., Jones,S.J., and Marra,M.A. (2002) Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Proceedings of the National Academy of Sciences of the United States of America. 99(26):16899-903

Bertrand, C., Chatonnet, A., Takke, C., Yan, Y.-L., Postlethwait, J., Toutant, J.P., and Cousin, X. (2001) Zebrafish Acetylcholinesterase Is Encoded by a Single Gene Localized on Linkage Group 7: Gene structure and polymorphism; molecular forms and expression pattern during development. The Journal of biological chemistry. 276(1):464-474

Chen, W., Burgess, S., and Hopkins, N. (2001) Analysis of the zebrafish smoothened mutant reveals conserved and divergent functions of hedgehog activity. Development (Cambridge, England). 128(12):2385-2396

Coutelle, O., Blagden, C.S., Hampson, R., Halai, C., Rigby, P.W.J., and Hughes, S.M. (2001) Hedgehog signalling is required for maintenance of myf5 and myoD expression and timely terminal differentiation in zebrafish adaxial myogenesis. Developmental Biology. 236(1):136-150

Du, S.J. and Dienhart, M. (2001) Gli2 mediation of Hedgehog signals in slow muscle induction in zebrafish. Differentiation; research in biological diversity. 67(3):84-91

Etheridge, L.A., Wu, T., Liang, J.O., Ekker, S.C., and Halpern, M.E. (2001) Floor plate develops upon depletion of tiggy-winkle and sonic hedgehog. Genesis (New York, N.Y. : 2000). 30(3):164-169

Hjorth, J.T. and Key, B. (2001) Are pioneer axons guided by regulatory gene expression domains in the zebrafish forebrain? High-resolution analysis of the patterning of the zebrafish brain during axon tract formation. Developmental Biology. 229(2):271-286

Kikuchi, Y., Agathon, A., Alexander, J., Thisse, C., Waldron, S., Yelon, D., Thisse, B., and Stainier, D.Y. (2001) casanova encodes a novel Sox-related protein necessary and sufficient for early endoderm formation in zebrafish. Genes & Development. 15(12):1493-1505

Lewis, K.E. and Eisen, J.S. (2001) Hedgehog signaling is required for primary motoneuron induction in zebrafish. Development (Cambridge, England). 128(18):3485-3495

Pujic, Z. and Malicki, J. (2001) Mutation of the zebrafish glass onion locus causes early cell-nonautonomous loss of neuroepithelial integrity followed by severe neuronal patterning defects in the retina. Developmental Biology. 234(2):454-469

Roy, S., Qiao, T., Wolff, C., and Ingham, P.W. (2001) Hedgehog signaling pathway is essential for pancreas specification in the zebrafish embryo. Current biology : CB. 11(17):1358-1363

Solnica-Krezel, L. and Driever, W. (2001) The role of the homeodomain protein Bozozok in zebrafish axis formation. The International journal of developmental biology. 45(1):299-310

Topczewski, J., Sepich, D.S., Myers, D.C., Walker, C., Amores, A., Lele, Z., Hammerschmidt, M., Postlethwait, J., and Solnica-Krezel, L. (2001) The zebrafish glypican Knypek controls cell polarity during gastrulation movements of convergent extension. Developmental Cell. 1(2):251-264

Yoder, J.A., Mueller, M.G., Wei, S., Corliss, B.C., Prather, D.M., Willis, T., Litman, R.T., Djeu, J.Y., and Litman, G.W. (2001) Immune-type receptor genes in zebrafish share genetic and functional properties with genes encoded by the mammalian leukocyte receptor cluster. Proceedings of the National Academy of Sciences of the United States of America. 98(12):6771-6776

Begemann, G. and Ingham, P.W. (2000) Developmental regulation of Tbx5 in zebrafish embryogenesis. Mechanisms of Development. 90(2):299-304

Brown, L.A., Rodaway, A.R.F., Schilling, T.F., Jowett, T., Ingham, P.W., Patient, R.K., and Sharrocks, A.D. (2000) Insights into early vasculogenesis revealed by expression of the ETS-domain transcription factor Fli-1 in wild-type and mutant zebrafish embryos. Mechanisms of Development. 90(2):237-252

Grandel, H., Draper, B.W., and Schulte-Merker, S. (2000) dackel acts in the ectoderm of the zebrafish pectoral fin bud to maintain AER signaling. Development (Cambridge, England). 127(19):4169-4178

Kelsh, R.N. and Eisen, J.S. (2000) The zebrafish colourless gene regulates development of non-ectomesenchymal neural crest derivatives. Development (Cambridge, England). 127(3):515-525

Kikuchi, Y., Trinh, L.A., Reiter, J.F., Alexander, J., Yelon, D., and Stainier, D.Y.R. (2000) The zebrafish bonnie and clyde gene encodes a Mix family homeodomain protein that regulates the generation of endodermal precursors. Genes & Development. 14(10):1279-1289

Li, Y.X., Farrell, M.J., Liu, R., Mohanty, N., and Kirby, M.L. (2000) Double-stranded RNA injection produces null phenotypes in zebrafish. Developmental Biology. 217(2):394-405

Liu, A., Majumdar, A., Schauerte, H.E., Haffter, P., and Drummond, I.A. (2000) Zebrafish wnt4b expression in the floor plate is altered in sonic hedgehog and gli-2 mutants. Mechanisms of Development. 91(1-2):409-413

Miller, C.T., Schilling, T.F., Lee, K., Parker, J., and Kimmel, C.B. (2000) sucker encodes a zebrafish Endothelin-1 required for ventral pharyngeal arch development. Development (Cambridge, England). 127(17):3815-3828

Nasevicius, A. and Ekker, S.C. (2000) Effective targeted gene 'knockdown' in zebrafish. Nature Genetics. 26(2):216-220

Nguyen, V.H., Trout, J., Connors, SA.., Andermann, P., Weinberg, E., and Mullins, M.C. (2000) Dorsal and intermediate neuronal cell types of the spinal cord are established by a BMP signaling pathway. Development (Cambridge, England). 127(6):1209-1220

Piotrowski, T. and Nüsslein-Volhard, C. (2000) The endoderm plays an important role in patterning the segmented pharyngeal region in zebrafish (Danio rerio). Developmental Biology. 225(2):339-356

Saude, L., Woolley, K., Martin, P., Driever, W., and Stemple, D.L. (2000) Axis-inducing activities and cell fates of the zebrafish organizer. Development (Cambridge, England). 127(16):3407-3417

Shinya, M., Eschbach, C., Clark, M., Lehrach, H., and Furutani-Seiki, M. (2000) Zebrafish Dkk1, induced by the pre-MBT Wnt signaling, is secreted from the prechordal plate and patterns the anterior neural plate. Mechanisms of Development. 98(1-2):3-17

Stickney, H.L., Barresi, M.J.F., and Devoto, S.H. (2000) Somite development in zebrafish. Developmental Dynamics : an official publication of the American Association of Anatomists. 219(3):287-303

Yelon, D., Ticho, B., Halpern, M.E., Ruvinsky, I., Ho, R.K., Silver, L.M., and Stainier, D.Y. (2000) The bHLH transcription factor Hand2 plays parallel roles in zebrafish heart and pectoral fin development. Development (Cambridge, England). 127(12):2573-2582

Alexander, J., Rothenberg, M., Henry, G.L., and Stainier, D.Y.R. (1999) casanova plays an early and essential role in endoderm formation in zebrafish. Developmental Biology. 215(2):343-357

Barth, K.A., Kishimoto, Y., Rohr, K.B., Seydler, C., Schulte-Merker, S., and Wilson, S.W. (1999) Bmp activity establishes a gradient of positional information throughout the entire neural plate. Development (Cambridge, England). 126(22):4977-4987

Chandrasekhar, A., Schauerte, H.E., Haffter, P., and Kuwada, J.Y. (1999) The zebrafish detour gene is essential for cranial but not spinal motor neuron induction. Development (Cambridge, England). 126(12):2727-2737

Delot, E., Kataoka, H., Goutel, C., Yan, Y.L., Postlethwait, J., Wittbrodt, J., and Rosa, F.M. (1999) The BMP-related protein Radar: a maintenance factor for dorsal neuroectoderm cells?. Mechanisms of Development. 85(1-2):15-25

Gates, M.A., Kim, L., Egan, E.S., Cardozo, T., Sirotkin, H.I., Dougan, S.T., Lashkari, D., Abagyan, R., Schier, A.F., and Talbot, W.S. (1999) A genetic linkage map for zebrafish: comparative analysis and localization of genes and expressed sequences. Genome research. 9(4):334-347

Karlstrom, R.O., Talbot, W.S., and Schier, A.F. (1999) Comparative synteny cloning of zebrafish you-too: mutations in the Hedgehog target gli2 affect ventral forebrain patterning. Genes & Development. 13:388-393

Lele, Z., Hartson, S.D., Martin, C.C., Whitesell, L., Matts, R.L., and Krone, P.H. (1999) Disruption of zebrafish somite development by pharmacologic inhibition of hsp90. Developmental Biology. 210(1):56-70

Lewis, K.E., Currie, P.D., Roy, S., Schauerte, H., Haffter, P., and Ingham, P.W. (1999) Control of muscle cell-type specification in the zebrafish embryo by hedgehog signalling. Developmental Biology. 216(2):469-480

Meng, A., Moore, B., Tang, H., Yuan, B., and Lin, S. (1999) A Drosophila doublesex-related gene, terra, is involved in somitogenesis in vertebrates. Development (Cambridge, England). 126:1259-1268

Mizuno, T., Yamaha, E., Kuroiwa, A., and Takeda, H. (1999) Removal of vegetal yolk causes dorsal deficencies and impairs dorsal-inducing ability of the yolk cell in zebrafish. Mechanisms of Development. 81(1-2):51-63

Neuhauss, S.C.F., Biehlmaier, O., Seeliger, M.W., Das, T., Kohler, K., Harris, W.A., and Baier, H. (1999) Genetic disorders of vision revealed by a behavioral screen of 400 essential loci in zebrafish. The Journal of neuroscience : the official journal of the Society for Neuroscience. 19(19):8603-8615

Rohr, K.B., Schulte-Merker, S., and Tautz, D. (1999) Zebrafish zic1 expression in brain and somites is affected by BMP and hedgehog signalling. Mechanisms of Development. 85(1-2):147-159

Shinya, M., Furutani-Seiki, M., Kuroiwa, A., and Takeda, H. (1999) Mosaic analysis with oep mutant reveals a repressive interaction between floor-plate and non-floor-plate mutant cells in the zebrafish neural tube. Development, growth & differentiation. 41(2):135-142

van der Sar, A.M., de Fockert, J., Betist, M., Zivkovic, D., and den Hertog, J. (1999) Pleiotropic effects of zebrafish protein-tyrosine phosphatase-1B on early embryonic development. The International journal of developmental biology. 43(8):785-794

Wang, J.M., Prefontaine, G.G., Lemieux, M.E., Pope, L., Akimenko, M.A., and Hache, R.J. (1999) Developmental effects of ectopic expression of the glucocorticoid receptor DNA binding domain are alleviated by an amino acid substitution that interferes with homeodomain binding. Molecular and cellular biology. 19(10):7106-7122

Amacher, S.L. and Kimmel, C.B. (1998) Promoting notochord fate and repressing muscle development in zebrafish axial mesoderm. Development (Cambridge, England). 125:1397-1406

Kitazawa, S., Kitazawa, R., Tamada, H., and Maeda, S. (1998) Promoter structure of human sonic hedgehog gene. BBA Gene Structure and Expression. 1443:358-363

Koos, D.S. and Ho, R.K. (1998) The nieuwkoid gene characterizes and mediates a Nieuwkoop-center-like activity in the zebrafish. Current biology : CB. 8:1199-1206

Lauderdale, J.D., Pasquali, S.K., Fazel, R., van Eeden, F.J., Schauerte, H.E., Haffter, P., and Kuwada, J.Y. (1998) Regulation of netrin-1a expression by hedgehog proteins. Molecular and cellular neurosciences. 11:194-205

Nasevicius, A., Hyatt, T., Kim, H., Guttman, J., Walsh, E., Sumanas, S., Wang, Y.S., and Ekker, S.C. (1998) Evidence for a fizzled-mediated wnt pathway required for zebrafish dorsal mesoderm formation. Development (Cambridge, England). 125:4283-4292

Peyriéras, N., Strähle, U., and Rosa, F. (1998) Conversion of zebrafish blastomeres to an endodermal fate by TGF-ß-related signaling. Current biology : CB. 8:783-786

Rebagliati, M.R., Toyama, R., Haffter, P., Dawid, I.B. (1998) cyclops encodes a nodal-related factor involved in midline signaling. Proceedings of the National Academy of Sciences of the United States of America. 95:9932-9937

Schauerte, H.E., van Eeden, F.J.M., Fricke, C., Odenthal, J., Strähle, U., Haffter, P. (1998) Sonic hedgehog is not required for the induction of medial floor plate cells in the zebrafish. Development (Cambridge, England). 125:2983-2993

Beattie, C.E., Hatta, K., Halpern, M.E., Liu, H., Eisen, J.S., and Kimmel, C.B. (1997) Temporal separation in the specification of primary and secondary motoneurons in zebrafish. Developmental Biology. 187(2):171-182

Bruneau, S., Mourrain, P., and Rosa, F.M. (1997) Expression of contact, a new zebrafish DVR member, marks mesenchymal cell lineages in the developing pectoral fins and head and is regulated by retinoic acid. Mechanisms of Development. 65(1-2):163-173

Chen, J.-N., van Eeden, F.J.M., Warren, K.S., Chin, A., Nüsslein-Volhard, C., Haffter, P., and Fishman, M.C. (1997) Left-right pattern of cardiac BMP4 may drive asymmetry of the heart in zebrafish. Development (Cambridge, England). 124(21):4373-4382

Fürthauer, M., Thisse, C., and Thisse, B. (1997) A role for FGF-8 in the dorsoventral patterning of the zebrafish gastrula. Development (Cambridge, England). 124(21):4253-4264

Heisenberg, C.P. and Nüsslein-Volhard, C. (1997) The function of silberblick in the positioning of the eye anlage in the zebrafish embryo. Developmental Biology. 184(1):85-94

Strähle, U., Fischer, N., and Blader, P. (1997) Expression and regulation of a netrin homologue in the zebrafish embryo. Mechanisms of Development. 62(2):147-160

Brand, M., Heisenberg, C.P., Warga, R.M., Pelegri, F., Karlstrom, R.O., Beuchle, D., Picker, A., Jiang, Y.J., Furutani-Seiki, M., van Eeden, F.J., Granato, M., Haffter, P., Hammerschmidt, M., Kane, D.A., Kelsh, R.N., Mullins, M.C., Odenthal, J., and Nüsslein-Volhard, C. (1996) Mutations affecting development of the midline and general body shape during zebrafish embryogenesis. Development (Cambridge, England). 123:129-142

Concordet, J.P., Lewis, K.E., Moore, J.W., Goodrich, L.V., Johnson, R.L., Scott, M.P., and Ingham, P.W. (1996) Spatial regulation of a zebrafish patched homologue reflects the roles of sonic hedgehog and protein kinase A in neural tube and somite patterning. Development (Cambridge, England). 122(9):2835-2846

Ekker, M., Speevak, M.D., Martin, C.C., Joly, L., Giroux, G., and Chevrette, M. (1996) Stable transfer of zebrafish chromosome segments into mouse cells. Genomics. 33:57-64

Granato, M., van Eeden, F.J., Schach, U., Trowe, T., Brand, M., Furutani-Seiki, M., Haffter, P., Hammerschmidt, M., Heisenberg, C.P., Jiang, Y.J., Kane, D.A., Kelsh, R.N., Mullins, M.C., Odenthal, J., and Nüsslein-Volhard, C. (1996) Genes controlling and mediating locomotion behavior of the zebrafish embryo and larva. Development (Cambridge, England). 123:399-413

Hammerschmidt, M., Bitgood, M.J., and McMahon, A.P. (1996) Protein kinase A is a common negative regulator of Hedgehog signaling in the vertebrate embryo. Genes & Development. 10:647-658

Hammerschmidt, M., Pelegri, F., Mullins, M.C., Kane, D.A., van Eeden, F.J., Granato, M., Brand, M., Furutani-Seiki, M., Haffter, P., Heisenberg, C.P., Jiang, Y.J., Kelsh, R.N., Odenthal, J., Warga, R.M., and Nüsslein-Volhard, C. (1996) dino and mercedes, two genes regulating dorsal development in the zebrafish embryo. Development (Cambridge, England). 123:95-102

Heisenberg, C.P., Brand, M., Jiang, Y.J., Warga, R.M., Beuchle, D., van Eeden, F.J., Furutani-Seiki, M., Granato, M., Haffter, P., Hammerschmidt, M., Kane, D.A., Kelsh, R.N., Mullins, M.C., Odenthal, J., and Nüsslein-Volhard, C. (1996) Genes involved in forebrain development in the zebrafish, Danio rerio. Development (Cambridge, England). 123:191-203

Odenthal, J., Haffter, P., Vogelsang, E., Brand, M., van Eeden, F.J., Furutani-Seiki, M., Granato, M., Hammerschmidt, M., Heisenberg, C.P., Jiang, Y.J., Kane, D.A., Kelsh, R.N., Mullins, M.C., Warga, R.M., Allende, M.L., Weinberg, E.S., and Nüsslein-Volhard, C. (1996) Mutations affecting the formation of the notochord in the zebrafish, Danio rerio. Development (Cambridge, England). 123:103-115

Solnica-Krezel, L., Stemple, D.L., Mountcastle-Shah, E., Rangini, Z., Neuhauss, S.C., Malicki, J., Schier, A.F., Stainier, D.Y., Zwartkruis, F., Abdelilah, S., and Driever, W. (1996) Mutations affecting cell fates and cellular rearrangements during gastrulation in zebrafish. Development (Cambridge, England). 123:67-80

Strähle, U., Blader, P., and Ingham, P.W. (1996) Expression of axial and sonic hedgehog in wildtype and midline defective zebrafish embryos. The International journal of developmental biology. 40(5):929-940

van Eeden, F.J., Granato, M., Schach, U., Brand, M., Furutani-Seiki-, M., Haffter, P., Hammerschmidt, M., Heisenberg, C.P., Jiang, Y.J., Kane, D.A., Kelsh, R.N., Mullins, M.C., Odenthal, J., Warga, R.M., Allende, M.L., Weinberg, E.S., and Nüsslein-Volhard, C. (1996) Mutations affecting somite formation and patterning in the zebrafish, Danio rerio. Development (Cambridge, England). 123:153-164

Zardoya, R., Abouheif, E., and Meyer, A. (1996) Evolutionary analyses of hedgehog and Hoxd-10 genes in fish species closely related to the zebrafish. Proceedings of the National Academy of Sciences of the United States of America. 93:13036-13041

Barth, K.A. and Wilson, S.W. (1995) Expression of zebrafish nk2.2 is influenced by sonic hedgehog/vertebrate hedgehog-1 and demarcates a zone of neuronal differentiation in the embryonic forebrain. Development (Cambridge, England). 121:1755-1768

Macdonald, R., Barth, K.A., Xu, Q.L., Holder, N., Mikkola, I., and Wilson, S.W. (1995) Midline signalling is required for Pax gene regulation and patterning of the eyes. Development (Cambridge, England). 121:3267-3278

Talbot, W.S., Trevarrow, B., Halpern, M.E., Melby, A.E., Farr, G., Postlethwait, J.H., Jowett, T., Kimmel, C.B., and Kimelman, D. (1995) A homeobox gene essential for zebrafish notochord development. Nature. 378:150-157

Yan, Y.L., Hatta, K., Riggleman, B., and Postlethwait, J.H. (1995) Expression of a type II collagen gene in the zebrafish embryonic axis. Developmental Dynamics : an official publication of the American Association of Anatomists. 203:363-376

Krauss, S., Concordet, J.P., and Ingham, P.W. (1993) A functionally conserved homolog of the Drosophila segment polarity gene hh is expressed in tissues with polarizing activity in zebrafish embryos. Cell. 75(7):1431-1444