Adolf, B., Bellipanni, G., Huber, V., and Bally-Cuif, L. (2004) atoh1.2 and beta3.1 are two new bHLH-encoding genes expressed in selective precursor cells of the zebrafish anterior hindbrain. Gene expression patterns : GEP. 5(1):35-41

Albadri, S., Naso, F., Thauvin, M., Gauron, C., Parolin, C., Duroure, K., Vougny, J., Fiori, J., Boga, C., Vriz, S., Calonghi, N., Del Bene, F. (2019) Redox Signaling via Lipid Peroxidation Regulates Retinal Progenitor Cell Differentiation. Developmental Cell. 50(1):73-89.e6

Amini, R., Bhatnagar, A., Schlüßler, R., Möllmert, S., Guck, J., Norden, C. (2022) Amoeboid-like migration ensures correct horizontal cell layer formation in the developing vertebrate retina. eLIFE. 11:

Antinucci, P., Folgueira, M., Bianco, I.H. (2019) Pretectal neurons control hunting behaviour. eLIFE. 8:

Baye, L.M., and Link, B.A. (2007) The disarrayed mutation results in cell cycle and neurogenesis defects during retinal development in zebrafish. BMC Developmental Biology. 7(1):28

Boije, H., Rulands, S., Dudczig, S., Simons, B.D., Harris, W.A. (2015) The Independent Probabilistic Firing of Transcription Factors: A Paradigm for Clonal Variability in the Zebrafish Retina. Developmental Cell. 34(5):532-43

Brown, N.L., Dagenais, S.L., Chen, C.M., and Glaser, T. (2002) Molecular characterization and mapping of ATOH7, a human atonal homolog with a predicted role in retinal ganglion cell development. Mammalian genome : official journal of the International Mammalian Genome Society. 13(2):95-101

Cerveny, K.L., Cavodeassi, F., Turner, K.J., de Jong-Curtain, T.A., Heath, J.K., and Wilson, S.W. (2010) The zebrafish flotte lotte mutant reveals that the local retinal environment promotes the differentiation of proliferating precursors emerging from their stem cell niche. Development (Cambridge, England). 137(13):2107-2115

Cheng, C.W., Yan, C.H., Hui, C.C., Strähle, U., and Cheng, S.H. (2006) The homeobox gene irx1a is required for the propagation of the neurogenic waves in the zebrafish retina. Mechanisms of Development. 123(3):252-263

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

Clark, B.S., Cui, S., Miesfeld, J.B., Klezovitch, O., Vasioukhin, V., and Link, B.A. (2012) Loss of Llgl1 in retinal neuroepithelia reveals links between apical domain size, Notch activity and neurogenesis. Development (Cambridge, England). 139(9):1599-1610

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

Del Bene, F., Ettwiller, L., Skowronska-Krawczyk, D., Baier, H., Matter, J.M., Birney, E., Wittbrodt, J. (2007) In vivo validation of a computationally predicted conserved Ath5 target gene set. PLoS Genetics. 3:1661-71

Del Bene, F., Wyart, C., Robles, E., Tran, A., Looger, L., Scott, E.K., Isacoff, E.Y., and Baier, H. (2010) Filtering of visual information in the tectum by an identified neural circuit. Science (New York, N.Y.). 330(6004):669-673

Dhakal, S., Stevens, C.B., Sebbagh, M., Weiss, O., Frey, R.A., Adamson, S., Shelden, E.A., Inbal, A., Stenkamp, D.L. (2015) Abnormal retinal development in cloche mutant zebrafish. Developmental Dynamics : an official publication of the American Association of Anatomists. 244(11):1439-55

Diekmann, H., and Stuermer, C.A. (2009) Zebrafish neurolin-a and -b, orthologs of ALCAM, are involved in retinal ganglion cell differentiation and retinal axon pathfinding. The Journal of comparative neurology. 513(1):38-50

Elkon, R., Milon, B., Morrison, L., Shah, M., Vijayakumar, S., Racherla, M., Leitch, C.C., Silipino, L., Hadi, S., Weiss-Gayet, M., Barras, E., Schmid, C.D., Ait-Lounis, A., Barnes, A., Song, Y., Eisenman, D.J., Eliyahu, E., Frolenkov, G.I., Strome, S.E., Durand, B., Zaghloul, N.A., Jones, S.M., Reith, W., Hertzano, R. (2015) RFX transcription factors are essential for hearing in mice. Nature communications. 6:8549

Engerer, P., Petridou, E., Williams, P.R., Suzuki, S.C., Yoshimatsu, T., Portugues, R., Misgeld, T., Godinho, L. (2021) Notch-mediated re-specification of neuronal identity during central nervous system development. Current biology : CB. 31(21):4870-4878.e5

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

Fimbel, S.M., Montgomery, J.E., Burket, C.T., and Hyde, D.R. (2007) Regeneration of inner retinal neurons after intravitreal injection of ouabain in zebrafish. The Journal of neuroscience : the official journal of the Society for Neuroscience. 27(7):1712-1724

Forbes-Osborne, M.A., Wilson, S.G., and Morris, A.C. (2013) Insulinoma-associated 1a (Insm1a) is required for photoreceptor differentiation in the zebrafish retina. Developmental Biology. 380(2):157-171

French, C.R., Erickson, T., Callander, D., Berry, K.M., Koss, R., Hagey, D.W., Stout, J., Wuennenberg-Stapleton, K., Ngai, J., Moens, C.B., and Waskiewicz, A.J. (2007) Pbx homeodomain proteins pattern both the zebrafish retina and tectum. BMC Developmental Biology. 7(1):85

Förster, D., Arnold-Ammer, I., Laurell, E., Barker, A.J., Fernandes, A.M., Finger-Baier, K., Filosa, A., Helmbrecht, T.O., Kölsch, Y., Kühn, E., Robles, E., Slanchev, K., Thiele, T.R., Baier, H., Kubo, F. (2017) Genetic targeting and anatomical registration of neuronal populations in the zebrafish brain with a new set of BAC transgenic tools. Scientific Reports. 7:5230

Gosse, N.J., Nevin, L.M., and Baier, H. (2008) Retinotopic order in the absence of axon competition. Nature. 452(7189):892-895

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

Gutiérrez, H.C., Santos-Ledo, A., Arranz, A.V., Pradas, J.M., Noguera, J.A., and Arévalo, R.A. (2013) Effects of retinoic acid exposure during zebrafish retinogenesis. Neurotoxicology and teratology. 40:35-45

He, J., Zhang, G., Almeida, A.D., Cayouette, M., Simons, B.D., and Harris, W.A. (2012) How variable clones build an invariant retina. Neuron. 75(5):786-798

Horstick, E.J., Bayleyen, Y., Burgess, H.A. (2020) Molecular and cellular determinants of motor asymmetry in zebrafish. Nature communications. 11:1170

Huang, T., Cui, J., Li, L., Hitchcock, P.F., and Li, Y. (2012) The role of microglia in the neurogenesis of zebrafish retina. Biochemical and Biophysical Research Communications. 421(2):214-220

Hörnberg, H., Wollerton-van Horck, F., Maurus, D., Zwart, M., Svoboda, H., Harris, W.A., and Holt, C.E. (2013) RNA-Binding Protein Hermes/RBPMS Inversely Affects Synapse Density and Axon Arbor Formation in Retinal Ganglion Cells In Vivo. The Journal of neuroscience : the official journal of the Society for Neuroscience. 33(25):10384-10395

Icha, J., Kunath, C., Rocha-Martins, M., Norden, C. (2016) Independent modes of ganglion cell translocation ensure correct lamination of the zebrafish retina. The Journal of cell biology. 215:259-275

Itoh, T., Inoue, S., Sun, X., Kusuda, R., Hibi, M., Shimizu, T. (2021) Cfdp1 controls the cell cycle and neural differentiation in the zebrafish cerebellum and retina. Developmental Dynamics : an official publication of the American Association of Anatomists. 250(11):1618-1633

Jusuf, P.R., Albadri, S., Paolini, A., Currie, P.D., Argenton, F., Higashijima, S., Harris, W.A., and Poggi, L. (2012) Biasing Amacrine Subtypes in the Atoh7 Lineage through Expression of Barhl2. The Journal of neuroscience : the official journal of the Society for Neuroscience. 32(40):13929-13944

Kashyap, B., Frederickson, L.C., and Stenkamp, D.L. (2007) Mechanisms for persistent microphthalmia following ethanol exposure during retinal neurogenesis in zebrafish embryos. Visual neuroscience. 24(3):409-421

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

Kelsh, R.N., Brand, M., Jiang, Y.J., Heisenberg, C.P., Lin, S., Haffter, P., Odenthal, J., Mullins, M.C., van Eeden, F.J., Furutani-Seiki, M., Granato, M., Hammerschmidt, M., Kane, D.A., Warga, R.M., Beuchle, D., Vogelsang, L., and Nüsslein-Volhard, C. (1996) Zebrafish pigmentation mutations and the processes of neural crest development. Development (Cambridge, England). 123:369-389

Koltowska, K., Apitz, H., Stamataki, D., Hirst, E.M., Verkade, H., Salecker, I., and Ober, E.A. (2013) Ssrp1a controls organogenesis by promoting cell cycle progression and RNA synthesis. Development (Cambridge, England). 140(9):1912-8

Kreiling, J.A., Creton, R., and Reinisch, C. (2007) Early embryonic exposure to polychlorinated biphenyls disrupts heat-shock protein 70 cognate expression in zebrafish. Journal of toxicology and environmental health. Part A. 70(12):1005-1013

Lei, X.D., Sun, Y., Cai, S.J., Fang, Y.W., Cui, J.L., Li, Y.H. (2016) Role of tumor necrosis factor-alpha in zebrafish retinal neurogenesis and myelination. International journal of ophthalmology. 9:831-7

Levkowitz, G., Zeller, J., Sirotkin, H.I., French, D., Schilbach, S., Hashimoto, H., Hibi, M., Talbot, W.S., and Rosenthal, A. (2003) Zinc finger protein too few controls the development of monoaminergic neurons. Nature Neuroscience. 6(1):28-33

Li, J., Liu, F., Lv, Y., Sun, K., Zhao, Y., Reilly, J., Zhang, Y., Tu, J., Yu, S., Liu, X., Qin, Y., Huang, Y., Gao, P., Jia, D., Chen, X., Han, Y., Shu, X., Luo, D., Tang, Z., Liu, M. (2021) Prpf31 is essential for the survival and differentiation of retinal progenitor cells by modulating alternative splicing. Nucleic acids research. 49(4):2027-2043

Lin, C.Y., Huang, H.Y., Lu, P.N., Lin, C.W., Lu, K.M., Tsai, H.J. (2015) Ras-Related Nuclear Protein is required for late developmental stages of retinal cells in zebrafish eyes. The International journal of developmental biology. 59:435-442

Liu, Q., Londraville, R., Marrs, J.A., Wilson, A.L., Mbimba, T., Murakami, T., Kubota, F., Zheng, W., and Fatkins, D.G. (2008) Cadherin-6 function in zebrafish retinal development. Developmental Neurobiology. 68(8):1107-1122

Lu, J., Liu, R., Miao, A., Chen, X., Xiao, W., Wang, Y., Cao, D., Pan, J., Li, L., Luo, Y. (2020) The role of cldnh during the early retinal development in zebrafish. Experimental Eye Research. 200:108207

Maddison, L.A., Lu, J., Victoroff, T., Scott, E., Baier, H., and Chen, W. (2009) A gain-of-function screen in zebrafish identifies a guanylate cyclase with a role in neuronal degeneration. Molecular genetics and genomics : MGG. 281(5):551-563

Malicki, J. and Driever, W. (1999) oko meduzy mutations affect neuronal patterning in the zebrafish retina and reveal cell-cell interactions of the retinal neuroepithelial sheet. Development (Cambridge, England). 126:1235-1246

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

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

Mearns, D.S., Donovan, J.C., Fernandes, A.M., Semmelhack, J.L., Baier, H. (2019) Deconstructing Hunting Behavior Reveals a Tightly Coupled Stimulus-Response Loop. Current biology : CB. 30(1):54-69.e9

Mirat, O., Sternberg, J.R., Severi, K.E., and Wyart, C. (2013) ZebraZoom: an automated program for high-throughput behavioral analysis and categorization. Frontiers in neural circuits. 7:107

Muto, A., Arai, K.I., and Watanabe, S. (2006) Rab11-FIP4 is predominantly expressed in neural tissues and involved in proliferation as well as in differentiation during zebrafish retinal development. Developmental Biology. 292(1):90-102

Nelson, S.M., Park, L., and Stenkamp, D.L. (2009) Retinal homeobox 1 is required for retinal neurogenesis and photoreceptor differentiation in embryonic zebrafish. Developmental Biology. 328(1):24-39

Nevin, L.M., Xiao, T., Staub, W., and Baier, H. (2011) Topoisomerase II{beta} is required for lamina-specific targeting of retinal ganglion cell axons and dendrites. Development (Cambridge, England). 138(12):2457-2465

Nishiwaki, Y., Yoshizawa, A., Kojima, Y., Oguri, E., Nakamura, S., Suzuki, S., Yuasa-Kawada, J., Kinoshita-Kawada, M., Mochizuki, T., and Masai, I. (2013) The BH3-Only SNARE BNip1 Mediates Photoreceptor Apoptosis in Response to Vesicular Fusion Defects. Developmental Cell. 25(4):374-387

Paolini, A., Duchemin, A.L., Albadri, S., Patzel, E., Bornhorst, D., González Avalos, P., Lemke, S., Machate, A., Brand, M., Sel, S., Di Donato, V., Del Bene, F., Zolessi, F.R., Ramialison, M., Poggi, L. (2015) Asymmetric inheritance of the apical domain and self-renewal of retinal ganglion cell progenitors depend on Anillin function. Development (Cambridge, England). 142(5):832-9

Pittman, A.J., Law, M.Y., and Chien, C.B. (2008) Pathfinding in a large vertebrate axon tract: isotypic interactions guide retinotectal axons at multiple choice points. Development (Cambridge, England). 135(17):2865-2871

Rai, K., Chidester, S., Zavala, C.V., Manos, E.J., James, S.R., Karpf, A.R.,Jones, D.A., and Cairns, B.R. (2007) Dnmt2 functions in the cytoplasm to promote liver, brain, and retina development in zebrafish. Genes & Development. 21(3):261-266

Ranawat, N., Masai, I. (2021) Mechanisms underlying microglial colonization of developing neural retina in zebrafish. eLIFE. 10:

Randlett, O., Wee, C.L., Naumann, E.A., Nnaemeka, O., Schoppik, D., Fitzgerald, J.E., Portugues, R., Lacoste, A.M., Riegler, C., Engert, F., Schier, A.F. (2015) Whole-brain activity mapping onto a zebrafish brain atlas. Nature Methods. 12:1039-1046

Rulands, S., Iglesias Gonzalez, A.B., Boije, H. (2018) Deterministic fate assignment of Müller glia cells in the zebrafish retina suggest a clonal backbone during development. The European journal of neuroscience. 48(12):3597-3605

Ryu, S., Holzschuh, J., Erhardt, S., Ettl, A.K., and Driever, W. (2005) Depletion of minichromosome maintenance protein 5 in the zebrafish retina causes cell-cycle defect and apoptosis. Proceedings of the National Academy of Sciences of the United States of America. 102(51):18467-18472

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

Schoppik, D., Bianco, I.H., Prober, D.A., Douglass, A.D., Robson, D.N., Li, J.M.B., Greenwood, J.S.F., Soucy, E., Engert, F., Schier, A.F. (2017) Gaze-stabilizing central vestibular neurons project asymmetrically to extraocular motoneuron pools. The Journal of neuroscience : the official journal of the Society for Neuroscience. 37(47):11353-11365

Schultz-Rogers, L.E., Thayer, M.L., Kambakam, S., Wierson, W.A., Helmer, J.A., Wishman, M.D., Wall, K.A., Greig, J.L., Forsman, J.L., Puchhalapalli, K., Nair, S., Weiss, T.J., Luiken, J.M., Blackburn, P.R., Ekker, S.C., Kool, M., McGrail, M. (2022) Rbbp4 loss disrupts neural progenitor cell cycle regulation independent of Rb and leads to Tp53 acetylation and apoptosis. Developmental Dynamics : an official publication of the American Association of Anatomists. 251(8):1267-1290

Serifi, I., Tzima, E., Soupsana, K., Karetsou, Z., Beis, D., Papamarcaki, T. (2016) The zebrafish homologs of SET/I2PP2A oncoprotein: expression patterns and insights into their physiological roles during development. The Biochemical journal. 473(24):4609-4627

Seth, A., Machingo, Q.J., Fritz, A., and Shur, B.D. (2010) Core fucosylation is required for midline patterning during zebrafish development. Developmental Dynamics : an official publication of the American Association of Anatomists. 239(12):3380-3390

Shkumatava, A., Fischer, S., Müller, F., Strähle, U., and Neumann, C.J. (2004) Sonic hedgehog, secreted by amacrine cells, acts as a short-range signal to direct differentiation and lamination in the zebrafish retina. Development (Cambridge, England). 131(16):3849-3858

Stenkamp, D.L. and Frey, R.A. (2003) Extraretinal and retinal hedgehog signaling sequentially regulate retinal differentiation in zebrafish. Developmental Biology. 258(2):349-363

Stephens, W.Z., Senecal, M., Nguyen, M., and Piotrowski, T. (2010) Loss of adenomatous polyposis coli (apc) results in an expanded ciliary marginal zone in the zebrafish eye. Developmental Dynamics : an official publication of the American Association of Anatomists. 239(7):2066-2077

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

Sun, K., Han, Y., Li, J., Yu, S., Huang, Y., Zhang, Y., Reilly, J., Tu, J., Gao, P., Jia, D., Chen, X., Hu, H., Ren, M., Li, P., Luo, J., Ren, X., Zhang, X., Shu, X., Liu, F., Liu, M., Tang, Z. (2023) The splicing factor DHX38 enables retinal development through safeguarding genome integrity. iScience. 26:108103108103

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

Uribe, R.A., and Gross, J.M. (2010) Id2a influences neuron and glia formation in the zebrafish retina by modulating retinoblast cell cycle kinetics. Development (Cambridge, England). 137(22):3763-3774

Venditti, M., Pedalino, C., Rosello, M., Fasano, G., Serafini, M., Revenu, C., Del Bene, F., Tartaglia, M., Lauri, A. (2022) A minimally invasive fin scratching protocol for fast genotyping and early selection of zebrafish embryos. Scientific Reports. 12:2259722597

Vetter, M.L. and Brown, N.L. (2001) The role of basic helix-loop-helix genes in vertebrate retinogenesis. Seminars in cell & developmental biology. 12(6):491-498

Vitorino, M., Jusuf, P.R., Maurus, D., Yukiko, Y., Higashijima, S.I., and Harris, W.A. (2009) Vsx2 in the zebrafish retina: restricted lineages through derepression. Neural Development. 4:14

Walsh, C.E., Hitchcock, P.F. (2017) Progranulin regulates neurogenesis in the developing vertebrate retina. Developmental Neurobiology. 77(9):1114-1129

Wang, Y., Chen, K., Yao, Q., Zheng, X., and Yang, Z. (2009) Phylogenetic Analysis of Zebrafish Basic Helix-Loop-Helix Transcription Factors. Journal of molecular evolution. 68(6):629-640

Weber, I.P., Ramos, A.P., Strzyz, P.J., Leung, L.C., Young, S., and Norden, C. (2014) Mitotic Position and Morphology of Committed Precursor Cells in the Zebrafish Retina. Cell Reports. 7(2):386-97

Wong, G.K., Baudet, M.L., Norden, C., Leung, L., and Harris, W.A. (2012) Slit1b-robo3 signaling and N-cadherin regulate apical process retraction in developing retinal ganglion cells. The Journal of neuroscience : the official journal of the Society for Neuroscience. 32(1):223-2238

Wycliffe, R., Plaisancie, J., Leaman, S., Santis, O., Tucker, L., Cavieres, D., Fernandez, M., Weiss-Garrido, C., Sobarzo, C., Gestri, G., Valdivia, L.E. (2020) Developmental delay during eye morphogenesis underlies optic cup and neurogenesis defects in mab21l2u517 zebrafish mutants. The International journal of developmental biology. 65(4-5-6):289-299

Xu, B., Tang, X., Jin, M., Zhang, H., Du, L., Yu, S., He, J. (2020) Unifying Developmental Programs for Embryonic and Post-Embryonic Neurogenesis in the Zebrafish Retina. Development (Cambridge, England). 147(12):

Yao, J., Zhou, J., Liu, Q., Lu, D., Wang, L., Qiao, X., and Jia, W. (2010) Atoh8, a bHLH transcription factor, is required for the development of retina and skeletal muscle in zebrafish. PLoS One. 5(6):e10945

Zhang, L., Yang, Y., Li, B., Scott, I.C., Lou, X. (2018) The DEAD box RNA helicase Ddx39ab is essential for myocyte and lens development in zebrafish. Development (Cambridge, England). 145(8)

Zolessi, F.R., Poggi, L., Wilkinson, C.J., Chien, C.B., and Harris, W.A. (2006) Polarization and orientation of retinal ganglion cells in vivo. Neural Development. 1:2

Chaigne, C., Sapède, D., Cousin, X., Sanchou, L., Blader, P., Cau, E. (2024) Contribution of the eye and of opn4xa function to circadian photoentrainment in the diurnal zebrafish. PLoS Genetics. 20:e1011172e1011172

Sun, K., Han, Y., Li, J., Yu, S., Huang, Y., Zhang, Y., Reilly, J., Tu, J., Gao, P., Jia, D., Chen, X., Hu, H., Ren, M., Li, P., Luo, J., Ren, X., Zhang, X., Shu, X., Liu, F., Liu, M., Tang, Z. (2023) The splicing factor DHX38 enables retinal development through safeguarding genome integrity. iScience. 26:108103108103

Amini, R., Bhatnagar, A., Schlüßler, R., Möllmert, S., Guck, J., Norden, C. (2022) Amoeboid-like migration ensures correct horizontal cell layer formation in the developing vertebrate retina. eLIFE. 11:

Schultz-Rogers, L.E., Thayer, M.L., Kambakam, S., Wierson, W.A., Helmer, J.A., Wishman, M.D., Wall, K.A., Greig, J.L., Forsman, J.L., Puchhalapalli, K., Nair, S., Weiss, T.J., Luiken, J.M., Blackburn, P.R., Ekker, S.C., Kool, M., McGrail, M. (2022) Rbbp4 loss disrupts neural progenitor cell cycle regulation independent of Rb and leads to Tp53 acetylation and apoptosis. Developmental Dynamics : an official publication of the American Association of Anatomists. 251(8):1267-1290

Davison, C., Zolessi, F.R. (2021) Slit2 is necessary for optic axon organization in the zebrafish ventral midline. Cells & development. 166:203677

Huang, L., Liang, H., Wang, S., Chen, S. (2021) m⁶A writer complex promotes timely differentiation and survival of retinal progenitor cells in zebrafish. Biochemical and Biophysical Research Communications. 567:171-176

Lahne, M., Brecker, M., Jones, S.E., Hyde, D.R. (2021) The Regenerating Adult Zebrafish Retina Recapitulates Developmental Fate Specification Programs. Frontiers in cell and developmental biology. 8:617923

Ranawat, N., Masai, I. (2021) Mechanisms underlying microglial colonization of developing neural retina in zebrafish. eLIFE. 10:

Angileri, K.M., Gross, J.M. (2020) dnmt1 function is required to maintain retinal stem cells within the ciliary marginal zone of the zebrafish eye. Scientific Reports. 10:11293

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

Lu, J., Liu, R., Miao, A., Chen, X., Xiao, W., Wang, Y., Cao, D., Pan, J., Li, L., Luo, Y. (2020) The role of cldnh during the early retinal development in zebrafish. Experimental Eye Research. 200:108207

Wycliffe, R., Plaisancie, J., Leaman, S., Santis, O., Tucker, L., Cavieres, D., Fernandez, M., Weiss-Garrido, C., Sobarzo, C., Gestri, G., Valdivia, L.E. (2020) Developmental delay during eye morphogenesis underlies optic cup and neurogenesis defects in mab21l2u517 zebrafish mutants. The International journal of developmental biology. 65(4-5-6):289-299

Albadri, S., Naso, F., Thauvin, M., Gauron, C., Parolin, C., Duroure, K., Vougny, J., Fiori, J., Boga, C., Vriz, S., Calonghi, N., Del Bene, F. (2019) Redox Signaling via Lipid Peroxidation Regulates Retinal Progenitor Cell Differentiation. Developmental Cell. 50(1):73-89.e6

Jurkute, N., Leu, C., Pogoda, H.M., Arno, G., Robson, A.G., Nürnberg, G., Altmüller, J., Thiele, H., Motameny, S., Toliat, M.R., Powell, K., Höhne, W., Michaelides, M., Webster, A.R., Moore, A.T., Hammerschmidt, M., Nürnberg, P., Yu-Wai-Man, P., Votruba, M. (2019) SSBP1 mutations in dominant optic atrophy with variable retinal degeneration. Annals of neurology. 86(3):368-383

Marquart, G.D., Tabor, K.M., Bergeron, S.A., Briggman, K.L., Burgess, H.A. (2019) Prepontine non-giant neurons drive flexible escape behavior in zebrafish. PLoS Biology. 17:e3000480

Richardson, R., Owen, N., Toms, M., Young, R.M., Tracey-White, D., Moosajee, M. (2019) Transcriptome profiling of zebrafish optic fissure fusion. Scientific Reports. 9:1541

Verreet, T., Weaver, C.J., Hino, H., Hibi, M., Poulain, F.E. (2019) Syntaphilin-mediated docking of mitochondria at the growth cone is dispensable for axon elongation in vivo. eNeuro. 6(5):

Cheng, X.N., Shao, M., Shi, D.L. (2018) Mutation of frizzled8a delays neural retinal cell differentiation and results in microphthalmia in zebrafish. The International journal of developmental biology. 62:285-291

Kim, J., Kim, C.Y., Oh, H., Ryu, B., Kim, U., Lee, J.M., Jung, C.R., Park, J.H. (2018) Trimethyltin chloride induces reactive oxygen species-mediated apoptosis in retinal cells during zebrafish eye development. The Science of the total environment. 653:36-44

Rulands, S., Iglesias Gonzalez, A.B., Boije, H. (2018) Deterministic fate assignment of Müller glia cells in the zebrafish retina suggest a clonal backbone during development. The European journal of neuroscience. 48(12):3597-3605

England, S.J., Campbell, P.C., Banerjee, S., Swanson, A.J., Lewis, K.E. (2017) Identification and Expression Analysis of the Complete Family of Zebrafish pkd Genes.. Frontiers in cell and developmental biology. 5:5

Schoppik, D., Bianco, I.H., Prober, D.A., Douglass, A.D., Robson, D.N., Li, J.M.B., Greenwood, J.S.F., Soucy, E., Engert, F., Schier, A.F. (2017) Gaze-stabilizing central vestibular neurons project asymmetrically to extraocular motoneuron pools. The Journal of neuroscience : the official journal of the Society for Neuroscience. 37(47):11353-11365

Seritrakul, P., Gross, J.M. (2017) Tet-mediated DNA hydroxymethylation regulates retinal neurogenesis by modulating cell-extrinsic signaling pathways. PLoS Genetics. 13:e1006987

Di Donato, V., De Santis, F., Auer, T., Testa, N., Sánchez-Iranzo, H., Mercader, N., Concordet, J.P., Del Bene, F. (2016) 2C-Cas9: a versatile tool for clonal analysis of gene function. Genome research. 26(5):681-92

Icha, J., Kunath, C., Rocha-Martins, M., Norden, C. (2016) Independent modes of ganglion cell translocation ensure correct lamination of the zebrafish retina. The Journal of cell biology. 215:259-275

Mullally, M., Albrecht, C., Horton, M., Laboissonniere, L.A., Goetz, J.J., Chowdhury, R., Manning, A., Wester, A.K., Bose, Q., Trimarchi, J.M. (2016) Expression Profiling of Developing Zebrafish Retinal Cells. Zebrafish. 13(4):272-80

Olsen, J.B., Wong, L., Deimling, S., Miles, A., Guo, H., Li, Y., Zhang, Z., Greenblatt, J.F., Emili, A., Tropepe, V. (2016) G9a and ZNF644 Physically Associate to Suppress Progenitor Gene Expression during Neurogenesis. Stem Cell Reports. 7(3):454-70

Valdivia, L.E., Lamb, D.B., Horner, W., Wierzbicki, C., Tafessu, A., Williams, A.M., Gestri, G., Krasnow, A.M., Vleeshouwer-Neumann, T.S., Givens, M., Young, R.M., Lawrence, L.M., Stickney, H.L., Hawkins, T.A., Schwarz, Q.P., Cavodeassi, F., Wilson, S.W., Cerveny, K.L. (2016) Antagonism between Gdf6a and retinoic acid pathways controls timing of retinal neurogenesis and growth of the eye in zebrafish. Development (Cambridge, England). 143(7):1087-98

Boije, H., Rulands, S., Dudczig, S., Simons, B.D., Harris, W.A. (2015) The Independent Probabilistic Firing of Transcription Factors: A Paradigm for Clonal Variability in the Zebrafish Retina. Developmental Cell. 34(5):532-43

Elkon, R., Milon, B., Morrison, L., Shah, M., Vijayakumar, S., Racherla, M., Leitch, C.C., Silipino, L., Hadi, S., Weiss-Gayet, M., Barras, E., Schmid, C.D., Ait-Lounis, A., Barnes, A., Song, Y., Eisenman, D.J., Eliyahu, E., Frolenkov, G.I., Strome, S.E., Durand, B., Zaghloul, N.A., Jones, S.M., Reith, W., Hertzano, R. (2015) RFX transcription factors are essential for hearing in mice. Nature communications. 6:8549

Lin, C.Y., Huang, H.Y., Lu, P.N., Lin, C.W., Lu, K.M., Tsai, H.J. (2015) Ras-Related Nuclear Protein is required for late developmental stages of retinal cells in zebrafish eyes. The International journal of developmental biology. 59:435-442

Randlett, O., Wee, C.L., Naumann, E.A., Nnaemeka, O., Schoppik, D., Fitzgerald, J.E., Portugues, R., Lacoste, A.M., Riegler, C., Engert, F., Schier, A.F. (2015) Whole-brain activity mapping onto a zebrafish brain atlas. Nature Methods. 12:1039-1046

Almeida, A.D., Boije, H., Chow, R.W., He, J., Tham, J., Suzuki, S.C., Harris, W.A. (2014) Spectrum of Fates: a new approach to the study of the developing zebrafish retina. Development (Cambridge, England). 141:1971-80

Imai, F., Yoshizawa, A., Matsuzaki, A., Oguri, E., Araragi, M., Nishiwaki, Y., Masai, I. (2014) Stem-loop binding protein is required for retinal cell proliferation, neurogenesis, and intraretinal axon pathfinding in zebrafish. Developmental Biology. 394(1):94-109

Weber, I.P., Ramos, A.P., Strzyz, P.J., Leung, L.C., Young, S., and Norden, C. (2014) Mitotic Position and Morphology of Committed Precursor Cells in the Zebrafish Retina. Cell Reports. 7(2):386-97

Flasse, L.C., Pirson, J.L., Stern, D.G., Von Berg, V., Manfroid, I., Peers, B., and Voz, M.L. (2013) Ascl1b and Neurod1, instead of Neurog3, control pancreatic endocrine cell fate in zebrafish. BMC Biology. 11(1):78

French, C.R., Stach, T.R., March, L.D., Lehmann, O.J., and Waskiewicz, A.J. (2013) Apoptotic and proliferative defects characterize ocular development in a microphthalmic BMP model. Investigative ophthalmology & visual science. 54(7):4636-4647

Hörnberg, H., Wollerton-van Horck, F., Maurus, D., Zwart, M., Svoboda, H., Harris, W.A., and Holt, C.E. (2013) RNA-Binding Protein Hermes/RBPMS Inversely Affects Synapse Density and Axon Arbor Formation in Retinal Ganglion Cells In Vivo. The Journal of neuroscience : the official journal of the Society for Neuroscience. 33(25):10384-10395

Konzer, A., Ruhs, A., Braun, H., Jungblut, B., Braun, T., and Krueger, M. (2013) Stable Isotope Labeling in Zebrafish Allows in Vivo Monitoring of Cardiac Morphogenesis. Molecular & cellular proteomics : MCP. 12(6):1502-12

Nishiwaki, Y., Yoshizawa, A., Kojima, Y., Oguri, E., Nakamura, S., Suzuki, S., Yuasa-Kawada, J., Kinoshita-Kawada, M., Mochizuki, T., and Masai, I. (2013) The BH3-Only SNARE BNip1 Mediates Photoreceptor Apoptosis in Response to Vesicular Fusion Defects. Developmental Cell. 25(4):374-387

Sandoval, I.T., Manos, E.J., Van Wagoner, R.M., Delacruz, R.G., Edes, K., Winge, D.R., Ireland, C.M., and Jones, D.A. (2013) Juxtaposition of chemical and mutation-induced developmental defects in zebrafish reveal a copper-chelating activity for kalihinol f. Chemistry & Biology. 20(6):753-763

Clark, B.S., Cui, S., Miesfeld, J.B., Klezovitch, O., Vasioukhin, V., and Link, B.A. (2012) Loss of Llgl1 in retinal neuroepithelia reveals links between apical domain size, Notch activity and neurogenesis. Development (Cambridge, England). 139(9):1599-1610

He, J., Zhang, G., Almeida, A.D., Cayouette, M., Simons, B.D., and Harris, W.A. (2012) How variable clones build an invariant retina. Neuron. 75(5):786-798

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

Luo, J., Uribe, R.A., Hayton, S., Calinescu, A.A., Gross, J.M., and Hitchcock, P.F. (2012) Midkine-A functions upstream of Id2a to regulate cell cycle kinetics in the developing vertebrate retina. Neural Development. 7(1):33

Zhang, Y., Yang, Y., Trujillo, C., Zhong, W., and Leung, Y.F. (2012) The Expression of irx7 in the Inner Nuclear Layer of Zebrafish Retina Is Essential for a Proper Retinal Development and Lamination. PLoS One. 7(4):e36145

Nevin, L.M., Xiao, T., Staub, W., and Baier, H. (2011) Topoisomerase II{beta} is required for lamina-specific targeting of retinal ganglion cell axons and dendrites. Development (Cambridge, England). 138(12):2457-2465

Sapetto-Rebow, B., McLoughlin, S.C., O'Shea, L.C., O'Leary, O., Willer, J.R., Alvarez, Y., Collery, R., O'Sullivan, J., Van Eeden, F., Hensey, C., and Kennedy, B.N. (2011) Maternal topoisomerase II alpha, not topoisomerase II beta, enables embryonic development of zebrafish top2a-/- mutants. BMC Developmental Biology. 11(1):71

Wagle, M., Mathur, P., and Guo, S. (2011) Corticotropin-releasing factor critical for zebrafish camouflage behavior is regulated by light and sensitive to ethanol. The Journal of neuroscience : the official journal of the Society for Neuroscience. 31(1):214-224

Cerveny, K.L., Cavodeassi, F., Turner, K.J., de Jong-Curtain, T.A., Heath, J.K., and Wilson, S.W. (2010) The zebrafish flotte lotte mutant reveals that the local retinal environment promotes the differentiation of proliferating precursors emerging from their stem cell niche. Development (Cambridge, England). 137(13):2107-2115

Del Bene, F., Wyart, C., Robles, E., Tran, A., Looger, L., Scott, E.K., Isacoff, E.Y., and Baier, H. (2010) Filtering of visual information in the tectum by an identified neural circuit. Science (New York, N.Y.). 330(6004):669-673

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

Seth, A., Machingo, Q.J., Fritz, A., and Shur, B.D. (2010) Core fucosylation is required for midline patterning during zebrafish development. Developmental Dynamics : an official publication of the American Association of Anatomists. 239(12):3380-3390

Uribe, R.A., and Gross, J.M. (2010) Id2a influences neuron and glia formation in the zebrafish retina by modulating retinoblast cell cycle kinetics. Development (Cambridge, England). 137(22):3763-3774

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

Maddison, L.A., Lu, J., Victoroff, T., Scott, E., Baier, H., and Chen, W. (2009) A gain-of-function screen in zebrafish identifies a guanylate cyclase with a role in neuronal degeneration. Molecular genetics and genomics : MGG. 281(5):551-563

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

Wang, Y., Chen, K., Yao, Q., Zheng, X., and Yang, Z. (2009) Phylogenetic Analysis of Zebrafish Basic Helix-Loop-Helix Transcription Factors. Journal of molecular evolution. 68(6):629-640

Bessa, J., Tavares, M.J., Santos, J., Kikuta, H., Laplante, M., Becker, T.S., Gómez-Skarmeta, J.L., and Casares, F. (2008) meis1 regulates cyclin D1 and c-myc expression, and controls the proliferation of the multipotent cells in the early developing zebrafish eye. Development (Cambridge, England). 135(5):799-803

Gosse, N.J., Nevin, L.M., and Baier, H. (2008) Retinotopic order in the absence of axon competition. Nature. 452(7189):892-895

Liu, Q., Londraville, R., Marrs, J.A., Wilson, A.L., Mbimba, T., Murakami, T., Kubota, F., Zheng, W., and Fatkins, D.G. (2008) Cadherin-6 function in zebrafish retinal development. Developmental Neurobiology. 68(8):1107-1122

Sherpa, T., Fimbel, S.M., Mallory, D.E., Maaswinkel, H., Spritzer, S.D., Sand, J.A., Li, L., Hyde, D.R., and Stenkamp, D.L. (2008) Ganglion cell regeneration following whole-retina destruction in zebrafish. Developmental Neurobiology. 68(2):166-181

Baye, L.M., and Link, B.A. (2007) The disarrayed mutation results in cell cycle and neurogenesis defects during retinal development in zebrafish. BMC Developmental Biology. 7(1):28

Fimbel, S.M., Montgomery, J.E., Burket, C.T., and Hyde, D.R. (2007) Regeneration of inner retinal neurons after intravitreal injection of ouabain in zebrafish. The Journal of neuroscience : the official journal of the Society for Neuroscience. 27(7):1712-1724

Kashyap, B., Frederickson, L.C., and Stenkamp, D.L. (2007) Mechanisms for persistent microphthalmia following ethanol exposure during retinal neurogenesis in zebrafish embryos. Visual neuroscience. 24(3):409-421

Rai, K., Chidester, S., Zavala, C.V., Manos, E.J., James, S.R., Karpf, A.R.,Jones, D.A., and Cairns, B.R. (2007) Dnmt2 functions in the cytoplasm to promote liver, brain, and retina development in zebrafish. Genes & Development. 21(3):261-266

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

Nadauld, L.D., Chidester, S., Shelton, D.N., Rai, K., Broadbent, T., Sandoval, I.T., Peterson, P.W., Manos, E.J., Ireland, C.M., Yost, H.J., and Jones, D.A. (2006) Dual roles for adenomatous polyposis coli in regulating retinoic acid biosynthesis and Wnt during ocular development. Proceedings of the National Academy of Sciences of the United States of America. 103(36):13409-13414

Stigloher, C., Ninkovic, J., Laplante, M., Geling, A., Tannhauser, B., Topp, S., Kikuta, H., Becker, T.S., Houart, C., and Bally-Cuif, L. (2006) Segregation of telencephalic and eye-field identities inside the zebrafish forebrain territory is controlled by Rx3. Development (Cambridge, England). 133(15):2925-2935

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

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

Poggi, L., Vitorino, M., Masai, I., and Harris, W.A. (2005) Influences on neural lineage and mode of division in the zebrafish retina in vivo. The Journal of cell biology. 171(6):991-999

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

Yamaguchi, M., Tonou-Fujimori, N., Komori, A., Maeda, R., Nojima, Y., Li, H., Okamoto, H., and Masai, I. (2005) Histone deacetylase 1 regulates retinal neurogenesis in zebrafish by suppressing Wnt and Notch signaling pathways. Development (Cambridge, England). 32(13):3027-3043

Kay, J.N., Roeser, T., Mumm, J.S., Godinho, L., Mrejeru, A., Wong, R.O., and Baier, H. (2004) Transient requirement for ganglion cells during assembly of retinal synaptic layers. Development (Cambridge, England). 131(6):1331-1342

Shkumatava, A., Fischer, S., Müller, F., Strähle, U., and Neumann, C.J. (2004) Sonic hedgehog, secreted by amacrine cells, acts as a short-range signal to direct differentiation and lamination in the zebrafish retina. Development (Cambridge, England). 131(16):3849-3858

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

Levkowitz, G., Zeller, J., Sirotkin, H.I., French, D., Schilbach, S., Hashimoto, H., Hibi, M., Talbot, W.S., and Rosenthal, A. (2003) Zinc finger protein too few controls the development of monoaminergic neurons. Nature Neuroscience. 6(1):28-33

Stenkamp, D.L. and Frey, R.A. (2003) Extraretinal and retinal hedgehog signaling sequentially regulate retinal differentiation in zebrafish. Developmental Biology. 258(2):349-363

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

Kay, J.N., Finger-Baier, K.C., Roeser, T., Staub, W., and Baier, H. (2001) Retinal ganglion cell genesis requires lakritz, a zebrafish atonal homolog. Neuron. 30(3):725-736

Easter, S.S. (2000) Let there be sight. Neuron. 27(2):193-195

Masai, I., Stemple, D.L., Okamoto, H., and Wilson, S.W. (2000) Midline signals regulate retinal neurogenesis in zebrafish. Neuron. 27(2):251-263

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

Kelsh, R.N., Brand, M., Jiang, Y.J., Heisenberg, C.P., Lin, S., Haffter, P., Odenthal, J., Mullins, M.C., van Eeden, F.J., Furutani-Seiki, M., Granato, M., Hammerschmidt, M., Kane, D.A., Warga, R.M., Beuchle, D., Vogelsang, L., and Nüsslein-Volhard, C. (1996) Zebrafish pigmentation mutations and the processes of neural crest development. Development (Cambridge, England). 123:369-389