Abe, K., Shimada, A., Tayama, S., Nishikawa, H., Kaneko, T., Tsuda, S., Karaiwa, A., Matsui, T., Ishitani, T., Takeda, H. (2019) Horizontal Boundary Cells, a Special Group of Somitic Cells, Play Crucial Roles in the Formation of Dorsoventral Compartments in Teleost Somite. Cell Reports. 27:928-939.e4
|
Antinucci, P., Dumitrescu, A., Deleuze, C., Morley, H.J., Leung, K., Hagley, T., Kubo, F., Baier, H., Bianco, I.H., Wyart, C. (2020) A calibrated optogenetic toolbox of stable zebrafish opsin lines. eLIFE. 9:
|
|
|
|
|
Berg, R.D., Levitte, S., O'Sullivan, M.P., O'Leary, S.M., Cambier, C.J., Cameron, J., Takaki, K.K., Moens, C.B., Tobin, D.M., Keane, J., Ramakrishnan, L. (2016) Lysosomal Disorders Drive Susceptibility to Tuberculosis by Compromising Macrophage Migration. Cell. 165:139-152
|
|
|
Cai, A.Q., Radtke, K., Linville, A., Lander, A.D., Nie, Q., and Schilling, T.F. (2012) Cellular retinoic acid-binding proteins are essential for hindbrain patterning and signal robustness in zebrafish. Development (Cambridge, England). 139(12):2150-2155
|
|
Cardeira-da-Silva, J., Bensimon-Brito, A., Tarasco, M., Brandão, A.S., Rosa, J.T., Borbinha, J., Almeida, P.J., Jacinto, A., Cancela, M.L., Gavaia, P.J., Stainier, D.Y.R., Laizé, V. (2022) Fin ray branching is defined by TRAP+ osteolytic tubules in zebrafish. Proceedings of the National Academy of Sciences of the United States of America. 119:e2209231119e2209231119
|
Chan, K.Y., Yan, C.S., Roan, H.Y., Hsu, S.C., Tseng, T.L., Hsiao, C.D., Hsu, C.P., Chen, C.H. (2022) Skin cells undergo asynthetic fission to expand body surfaces in zebrafish. Nature. 605(7908):119-125
|
Chen, A., Chiu, C.N., Mosser, E.A., Kahn, S., Spence, R., Prober, D.A. (2016) QRFP and Its Receptors Regulate Locomotor Activity and Sleep in Zebrafish. The Journal of neuroscience : the official journal of the Society for Neuroscience. 36(6):1823-40
|
Chen, C.H., Puliafito, A., Cox, B.D., Primo, L., Fang, Y., Di Talia, S., Poss, K.D. (2016) Multicolor Cell Barcoding Technology for Long-Term Surveillance of Epithelial Regeneration in Zebrafish. Developmental Cell. 36:668-80
|
|
|
|
Cook, Z.T., Brockway, N.L., Tobias, Z.J.C., Pajarla, J., Boardman, I.S., Ippolito, H., Nkombo-Nkoula, S., Weissman, T.A. (2018) Combining near-infrared fluorescence with Brainbow to visualize expression of specific genes within a multicolor context. Molecular biology of the cell. 30(4):491-505
|
de Oliveira, S., Houseright, R.A., Graves, A.L., Golenberg, N., Korte, B.G., Miskolci, V., Huttenlocher, A. (2018) Metformin modulates innate immune-mediated inflammation and early progression of NAFLD-associated hepatocellular carcinoma in zebrafish. Journal of hepatology. 70(4):710-721
|
|
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
|
|
|
Fan, J., Hale, V.L., Lelieveld, L.T., Whitworth, L.J., Busch-Nentwich, E.M., Troll, M., Edelstein, P.H., Cox, T.M., Roca, F.J., Aerts, J.M.F.G., Ramakrishnan, L. (2023) Gaucher disease protects against tuberculosis. Proceedings of the National Academy of Sciences of the United States of America. 120:e2217673120e2217673120
|
Fernandes, A.M., Mearns, D.S., Donovan, J.C., Larsch, J., Helmbrecht, T.O., Kölsch, Y., Laurell, E., Kawakami, K., Dal Maschio, M., Baier, H. (2020) Neural circuitry for stimulus selection in the zebrafish visual system. Neuron. 109(5):805-822.e6
|
|
|
Ge, J., Dong, Z., Li, J., Xu, Z., Song, W., Bao, J., Liang, D., Li, J., Li, K., Jia, W., Zhao, M., Cai, Y., Yang, J., Pan, J., and Zhao, Q. (2012) Isolation of yellow catfish beta-actin promoter and generation of transgenic yellow catfish expressing enhanced yellow fluorescent protein. Transgenic Research. 21(5):995-1004
|
Geurtzen, K., López-Delgado, A.C., Duseja, A., Kurzyukova, A., Knopf, F. (2022) Laser-mediated osteoblast ablation triggers a pro-osteogenic inflammatory response regulated by reactive oxygen species and glucocorticoid signaling in zebrafish. Development (Cambridge, England). 149(8)
|
|
Gross-Thebing, T., Yigit, S., Pfeiffer, J., Reichman-Fried, M., Bandemer, J., Ruckert, C., Rathmer, C., Goudarzi, M., Stehling, M., Tarbashevich, K., Seggewiss, J., Raz, E. (2017) The Vertebrate Protein Dead End Maintains Primordial Germ Cell Fate by Inhibiting Somatic Differentiation. Developmental Cell. 43:704-715.e5
|
Guilbeault, N.C., Guerguiev, J., Martin, M., Tate, I., Thiele, T.R. (2021) BonZeb: open-source, modular software tools for high-resolution zebrafish tracking and analysis. Scientific Reports. 11:8148
|
|
He, X., Chen, W., Liu, Z., Yu, G., Chen, Y., Cai, Y.J., Sun, L., Xu, W., Zhong, L., Gao, C., Chen, J., Zhang, M., Yang, S., Yao, Y., Zhang, Z., Ma, F., Zhang, C.C., Lu, H.P., Yu, B., Cheng, T.L., Qiu, J., Sheng, Q., Zhou, H.M., Lv, Z.R., Yan, J., Zhou, Y., Qiu, Z., Cui, Z., Zhang, X., Meng, A., Sun, Q., Yang, Y. (2020) Efficient and risk-reduced genome editing using double nicks enhanced by bacterial recombination factors in multiple species. Nucleic acids research. 48(10):e57
|
He, X., Yan, Y.L., Eberhart, J.K., Herpin, A., Wagner, T.U., Schartl, M., and Postlethwait, J.H. (2011) miR-196 regulates axial patterning and pectoral appendage initiation. Developmental Biology. 357(2):463-77
|
Hu, P., Tian, M., Bao, J., Xing, G., Gu, X., Gao, X., Linney, E., and Zhao, Q. (2008) Retinoid regulation of the zebrafish cyp26a1 promoter. Developmental Dynamics : an official publication of the American Association of Anatomists. 237(12):3798-3808
|
Hughes, S.M., Escaleira, R.C., Wanders, K., Koth, J., Wilkinson, D.G., Xu, Q. (2022) Clonal behaviour of myogenic precursor cells throughout the vertebrate lifespan. Biology Open. 11(8):
|
|
|
|
Kochhan, E., Lenard, A., Ellertsdottir, E., Herwig, L., Affolter, M., Belting, H.G., and Siekmann, A.F. (2013) Blood Flow Changes Coincide with Cellular Rearrangements during Blood Vessel Pruning in Zebrafish Embryos. PLoS One. 8(10):e75060
|
Kubo, F., Hablitzel, B., Dal Maschio, M., Driever, W., Baier, H., Arrenberg, A.B. (2014) Functional architecture of an optic flow-responsive area that drives horizontal eye movements in zebrafish. Neuron. 81:1344-59
|
Lacoste, A.M., Schoppik, D., Robson, D.N., Haesemeyer, M., Portugues, R., Li, J.M., Randlett, O., Wee, C.L., Engert, F., Schier, A.F. (2015) A Convergent and Essential Interneuron Pathway for Mauthner-Cell-Mediated Escapes. Current biology : CB. 25(11):1526-34
|
|
|
Linville, A., Radtke, K., Waxman, J.S., Yelon, D., and Schilling, T.F. (2009) Combinatorial roles for zebrafish retinoic acid receptors in the hindbrain, limbs and pharyngeal arches. Developmental Biology. 325(1):60-70
|
|
Lovett-Barron, M., Chen, R., Bradbury, S., Andalman, A.S., Wagle, M., Guo, S., Deisseroth, K. (2020) Multiple convergent hypothalamus-brainstem circuits drive defensive behavior. Nature Neuroscience. 23(8):959-967
|
Lupo, G., Gestri, G., O'Brien, M., Denton, R.M., Chandraratna, R.A., Ley, S.V., Harris, W.A., and Wilson, S.W. (2011) Retinoic acid receptor signaling regulates choroid fissure closure through independent mechanisms in the ventral optic cup and periocular mesenchyme. Proceedings of the National Academy of Sciences of the United States of America. 108(21):8698-8703
|
Mackin, R.D., Frey, R.A., Gutierrez, C., Farre, A.A., Kawamura, S., Mitchell, D.M., Stenkamp, D.L. (2019) Endocrine regulation of multichromatic color vision. Proceedings of the National Academy of Sciences of the United States of America. 116(34):16882-16891
|
Madigan, C.A., Cambier, C.J., Kelly-Scumpia, K.M., Scumpia, P.O., Cheng, T.Y., Zailaa, J., Bloom, B.R., Moody, D.B., Smale, S.T., Sagasti, A., Modlin, R.L., Ramakrishnan, L. (2017) A Macrophage Response to Mycobacterium leprae Phenolic Glycolipid Initiates Nerve Damage in Leprosy. Cell. 170:973-985.e10
|
Marisca, R., Hoche, T., Agirre, E., Hoodless, L.J., Barkey, W., Auer, F., Castelo-Branco, G., Czopka, T. (2020) Functionally distinct subgroups of oligodendrocyte precursor cells integrate neural activity and execute myelin formation. Nature Neuroscience. 23(3):363-374
|
|
McPherson, A.D., Barrios, J.P., Luks-Morgan, S.J., Manfredi, J.P., Bonkowsky, J.L., Douglass, A.D., Dorsky, R.I. (2016) Motor Behavior Mediated by Continuously Generated Dopaminergic Neurons in the Zebrafish Hypothalamus Recovers after Cell Ablation. Current biology : CB. 26(2):263-9
|
|
Miyasaka, N., Arganda-Carreras, I., Wakisaka, N., Masuda, M., Sümbül, U., Seung, H.S., Yoshihara, Y. (2014) Olfactory projectome in the zebrafish forebrain revealed by genetic single-neuron labelling. Nature communications. 5:3639
|
Miyasaka, N., Morimoto, K., Tsubokawa, T., Higashijima, S., Okamoto, H., and Yoshihara, Y. (2009) From the olfactory bulb to higher brain centers: genetic visualization of secondary olfactory pathways in zebrafish. The Journal of neuroscience : the official journal of the Society for Neuroscience. 29(15):4756-4767
|
Mohamed, G.A., Cheng, R.K., Ho, J., Krishnan, S., Mohammad, F., Claridge-Chang, A., Jesuthasan, S. (2017) Optical inhibition of larval zebrafish behaviour with anion channelrhodopsins. BMC Biology. 15:103
|
|
Mu, Y., Bennett, D.V., Rubinov, M., Narayan, S., Yang, C.T., Tanimoto, M., Mensh, B.D., Looger, L.L., Ahrens, M.B. (2019) Glia Accumulate Evidence that Actions Are Futile and Suppress Unsuccessful Behavior. Cell. 178(1):27-43.e19
|
|
Pagán, A.J., Lee, L.J., Edwards-Hicks, J., Moens, C.B., Tobin, D.M., Busch-Nentwich, E.M., Pearce, E.L., Ramakrishnan, L. (2022) mTOR-regulated mitochondrial metabolism limits mycobacterium-induced cytotoxicity. Cell. 185(20):3720-3738.e13
|
Pagán, A.J., Yang, C.T., Cameron, J., Swaim, L.E., Ellett, F., Lieschke, G.J., Ramakrishnan, L. (2015) Myeloid Growth Factors Promote Resistance to Mycobacterial Infection by Curtailing Granuloma Necrosis through Macrophage Replenishment. Cell Host & Microbe. 18:15-26
|
Pantoja, C., Hoagland, A., Carroll, E.C., Karalis, V., Conner, A., Isacoff, E.Y. (2016) Neuromodulatory Regulation of Behavioral Individuality in Zebrafish. Neuron. 91(3):587-601
|
|
Pestel, J., Ramadass, R., Gauvrit, S., Helker, C., Herzog, W., Stainier, D.Y. (2016) Real-time 3D visualization of cellular rearrangements during cardiac valve formation. Development (Cambridge, England). 143:2217-27
|
Petrie, T.A., Strand, N.S., Tsung-Yang, C., Rabinowitz, J.S., Moon, R.T. (2014) Macrophages modulate adult zebrafish tail fin regeneration. Development (Cambridge, England). 141:2581-91
|
|
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
|
Reuter, H., Perner, B., Wahl, F., Rohde, L., Koch, P., Groth, M., Buder, K., Englert, C. (2022) Aging Activates the Immune System and Alters the Regenerative Capacity in the Zebrafish Heart. Cells. 11(3):
|
|
|
|
Roh-Johnson, M., Shah, A.N., Stonick, J.A., Poudel, K.R., Kargl, J., Yang, G.H., di Martino, J., Hernandez, R.E., Gast, C.E., Zarour, L.R., Antoku, S., Houghton, A.M., Bravo-Cordero, J.J., Wong, M.H., Condeelis, J., Moens, C.B. (2017) Macrophage-Dependent Cytoplasmic Transfer during Melanoma Invasion In Vivo. Developmental Cell. 43:549-562.e6
|
|
Salem, V., Silva, L.D., Suba, K., Georgiadou, E., Neda Mousavy Gharavy, S., Akhtar, N., Martin-Alonso, A., Gaboriau, D.C.A., Rothery, S.M., Stylianides, T., Carrat, G., Pullen, T.J., Singh, S.P., Hodson, D.J., Leclerc, I., Shapiro, A.M.J., Marchetti, P., Briant, L.J.B., Distaso, W., Ninov, N., Rutter, G.A. (2019) Leader β-cells coordinate Ca2+ dynamics across pancreatic islets in vivo. Nature metabolism. 1:615-629
|
Salgado-Almario, J., Vicente, M., Molina, Y., Martinez-Sielva, A., Vincent, P., Domingo, B., Llopis, J. (2022) Simultaneous imaging of calcium and contraction in the beating heart of zebrafish larvae. Theranostics. 12:1012-1029
|
|
Sharrock, A.V., Mulligan, T.S., Hall, K.R., Williams, E.M., White, D.T., Zhang, L., Emmerich, K., Matthews, F., Nimmagadda, S., Washington, S., Le, K.D., Meir-Levi, D., Cox, O.L., Saxena, M.T., Calof, A.L., Lopez-Burks, M.E., Lander, A.D., Ding, D., Ji, H., Ackerley, D.F., Mumm, J.S. (2022) NTR 2.0: a rationally engineered prodrug-converting enzyme with substantially enhanced efficacy for targeted cell ablation. Nature Methods. 19:205-215
|
|
|
Singh, S.P., Chawla, P., Hnatiuk, A., Kamel, M., Silva, L.D., Spanjaard, B., Eski, S.E., Janjuha, S., Olivares-Chauvet, P., Kayisoglu, O., Rost, F., Bläsche, J., Kränkel, A., Petzold, A., Kurth, T., Reinhardt, S., Junker, J.P., Ninov, N. (2022) A single-cell atlas of de novo β-cell regeneration reveals the contribution of hybrid β/δ-cells to diabetes recovery in zebrafish. Development (Cambridge, England). 149(2)
|
Singh, S.P., Janjuha, S., Chaudhuri, S., Reinhardt, S., Kränkel, A., Dietz, S., Eugster, A., Bilgin, H., Korkmaz, S., Zararsız, G., Ninov, N., Reid, J.E. (2018) Machine learning based classification of cells into chronological stages using single-cell transcriptomics. Scientific Reports. 8:17156
|
Singh, S.P., Janjuha, S., Hartmann, T., Kayisoglu, Ö., Konantz, J., Birke, S., Murawala, P., Alfar, E.A., Murata, K., Eugster, A., Tsuji, N., Morrissey, E.R., Brand, M., Ninov, N. (2017) Different developmental histories of beta-cells generate functional and proliferative heterogeneity during islet growth. Nature communications. 8:664
|
|
|
|
|
|
Troconis, E.L., Ordoobadi, A.J., Sommers, T.F., Aziz-Bose, R., Carter, A.R., Trapani, J.G. (2017) Intensity-dependent timing and precision of startle response latency in larval zebrafish. The Journal of physiology. 595(1):265-282
|
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
|
Vogrin, A.J., Bower, N.I., Gunzburg, M.J., Roufail, S., Okuda, K.S., Paterson, S., Headey, S.J., Stacker, S.A., Hogan, B.M., Achen, M.G. (2019) Evolutionary Differences in the Vegf/Vegfr Code Reveal Organotypic Roles for the Endothelial Cell Receptor Kdr in Developmental Lymphangiogenesis. Cell Reports. 28:2023-2036.e4
|
Wee, C.L., Nikitchenko, M., Wang, W.C., Luks-Morgan, S.J., Song, E., Gagnon, J.A., Randlett, O., Bianco, I.H., Lacoste, A.M.B., Glushenkova, E., Barrios, J.P., Schier, A.F., Kunes, S., Engert, F., Douglass, A.D. (2019) Zebrafish oxytocin neurons drive nocifensive behavior via brainstem premotor targets. Nature Neuroscience. 22(9):1477-1492
|
White, D.T., Sengupta, S., Saxena, M.T., Xu, Q., Hanes, J., Ding, D., Ji, H., Mumm, J.S. (2017) Immunomodulation-accelerated neuronal regeneration following selective rod photoreceptor cell ablation in the zebrafish retina. Proceedings of the National Academy of Sciences of the United States of America. 114(18):E3719-E3728
|
|
|
|
Yin, J., Brocher, J., Linder, B., Hirmer, A., Sundaramurthi, H., Fischer, U., and Winkler, C. (2012) The 1D4 antibody labels outer segments of long double cone but not rod photoreceptors in zebrafish. Investigative ophthalmology & visual science. 53(8):4943-4951
|
|
|