Akhtar, S., Patnaik, S.R., Kotapati Raghupathy, R., Al-Mubrad, T.M., Craft, J.A., Shu, X. (2015) Histological Characterization of the Dicer1 Mutant Zebrafish Retina. Journal of ophthalmology. 2015:309510

Bazzini, A.A., Lee, M.T., and Giraldez, A.J. (2012) Ribosome Profiling Shows That miR-430 Reduces Translation Before Causing mRNA Decay in Zebrafish. Science (New York, N.Y.). 336(6078):233-237

Bremer, J., Marsden, K.C., Miller, A., Granato, M. (2019) The ubiquitin ligase PHR promotes directional regrowth of spinal zebrafish axons. Communications biology. 2:195

Chen, X., Liu, M., Lou, H., Lu, Y., Zhou, M.T., Ou, R., Xu, Y., Tang, K.F. (2019) Degradation of endogenous proteins and generation of a null-like phenotype in zebrafish using Trim-Away technology. Genome biology. 20:19

Choi, W.Y., Giraldez, A.J., and Schier, A.F. (2007) Target Protectors Reveal Dampening and Balancing of Nodal Agonist and Antagonist by miR-430. Science (New York, N.Y.). 318(5848):271-274

Francia, S., Michelini, F., Saxena, A., Tang, D., de Hoon, M., Anelli, V., Mione, M., Carninci, P., and di Fagagna, F.D. (2012) Site-specific DICER and DROSHA RNA products control the DNA-damage response. Nature. 488(7410):231-235

Ghani, S., Riemke, P., Schönheit, J., Lenze, D., Stumm, J., Hoogenkamp, M., Lagendijk, A., Heinz, S., Bonifer, C., Bakkers, J., Abdelilah-Seyfried, S., Hummel, M., and Rosenbauer, F. (2011) Macrophage development from hematopoietic stem cells requires PU.1 coordinated microRNA expression. Blood. 118(8):2275-84

Giraldez, A.J., Mishima, Y., Rihel, J., Grocock, R.J., Van Dongen, S., Inoue, K., Enright, A.J., and Schier, A.F. (2006) Zebrafish MiR-430 Promotes Deadenylation and Clearance of Maternal mRNAs. Science (New York, N.Y.). 312(5770):75-79

Goudarzi, M., Strate, I., Paksa, A., Lagendijk, A.K., Bakkers, J., and Raz, E. (2013) On the robustness of germ cell migration and microRNA-mediated regulation of chemokine signaling. Nature Genetics. 45(11):1264-1265

Kretov, D.A., Folkes, L., Mora-Martin, A., Walawalkar, I.A., Imrat, ., Syedah, N., Vanuytsel, K., Moxon, S., Murphy, G.J., Cifuentes, D. (2024) The miR-144/Hmgn2 regulatory axis orchestrates chromatin organization during erythropoiesis. Nature communications. 15:38213821

Lagendijk, A.K., Goumans, M.J., Burkhard, S.B., and Bakkers, J. (2011) MicroRNA-23 Restricts Cardiac Valve Formation by Inhibiting Has2 and Extracellular Hyaluronic Acid Production. Circulation research. 109(6):649-57

Lee, M.T., Bonneau, A.R., Takacs, C.M., Bazzini, A.A., Divito, K.R., Fleming, E.S., and Giraldez, A.J. (2013) Nanog, Pou5f1 and SoxB1 activate zygotic gene expression during the maternal-to-zygotic transition. Nature. 503(7476):360-4

Li, P., Tian, Q., Hu, M., Li, W., Zhang, X., Zeng, Y. (2019) Cloning, expression, and characterization of the zebrafish Dicer and Drosha enzymes. Biochemical and Biophysical Research Communications. 514(1):200-204

Liu, W., Guan, Y., and Collodi, P. (2010) A Zebrafish Cell Culture Assay for the Identification of MicroRNA Targets. Zebrafish. 7(4):343-348

López-Bellido, R., Barreto-Valer, K., Sánchez-Simón, F.M., and Rodríguez, R.E. (2012) Cocaine Modulates the Expression of Opioid Receptors and miR-let-7d in Zebrafish Embryos. PLoS One. 7(11):e50885

Mallappa, C., Nasipak, B.T., Etheridge, L., Androphy, E.J., Jones, S.N., Sagerström, C.G., Ohkawa, Y., and Imbalzano, A.N. (2010) Myogenic microRNA expression requires ATP-dependent chromatin remodeling enzyme function. Molecular and cellular biology. 30(13):3176-3186

Mickoleit, M., Banisch, T.U., and Raz, E. (2011) Regulation of hub mRNA stability and translation by miR430 and the dead end protein promotes preferential expression in zebrafish primordial germ cells. Developmental Dynamics : an official publication of the American Association of Anatomists. 240(3):695-703

Mishima, Y., Giraldez, A.J., Takeda, Y., Fujiwara, T., Sakamoto, H., Schier, A.F., and Inoue, K. (2006) Differential Regulation of Germline mRNAs in Soma and Germ Cells by Zebrafish miR-430. Current biology : CB. 16(21):2135-2142

Moore, J.C., Sheppard, S., Shestopalov, I.A., Chen, J.K., and Lawson, N. (2013) Post-transcriptional mechanisms contribute to Etv2 repression during vascular development. Developmental Biology. 384(1):128-40

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

Ristori, E., Lopez-Ramirez, M.A., Narayanan, A., Hill-Teran, G., Moro, A., Calvo, C.F., Thomas, J.L., Nicoli, S. (2015) A Dicer-miR-107 Interaction Regulates Biogenesis of Specific miRNAs Crucial for Neurogenesis. Developmental Cell. 32(5):546-60

Shimoda, N., Yamakoshi, K., Miyake, A., and Takeda, H. (2005) Identification of a gene required for de novo DNA methylation of the zebrafish no tail gene. Developmental Dynamics : an official publication of the American Association of Anatomists. 233(4):1509-1516

Staton, A.A., Knaut, H., and Giraldez, A.J. (2011) miRNA regulation of Sdf1 chemokine signaling provides genetic robustness to germ cell migration. Nature Genetics. 43(3):204-211

Takacs, C.M., Giraldez, A.J. (2016) miR-430 regulates oriented cell division during neural tube development in zebrafish. Developmental Biology. 409(2):442-50

Weiner, A.M.J., Scampoli, N.L., Steeman, T.J., Dooley, C.M., Busch-Nentwich, E.M., Kelsh, R.N., Calcaterra, N.B. (2019) Dicer1 is required for pigment cell and craniofacial development in zebrafish. Biochimica et biophysica acta. Gene regulatory mechanisms. 1862(4):472-485

Wienholds, E., Koudijs, M.J., van Eeden, F.J., Cuppen, E., and Plasterk, R.H. (2003) The microRNA-producing enzyme Dicer1 is essential for zebrafish development. Nature Genetics. 35(3):217-218

Yu, W.X., Li, Y.K., Xu, M.F., Xu, C.J., Chen, J., Wei, Y.L., She, Z.Y. (2022) Kinesin-5 Eg5 is essential for spindle assembly, chromosome stability and organogenesis in development. Cell death discovery. 8:490490

Zhu, Z., Liu, Y., Xu, W., Liu, T., Xie, Y., Sham, K.W.Y., Sha, O., Cheng, C.H.K. (2020) Functional Characterization and Expression Analyses Show Differential Roles of Maternal and Zygotic Dgcr8 in Early Embryonic Development. Frontiers in genetics. 11:299

Boswell, C.W., Hoppe, C., Sherrard, A., Miao, L., Kojima, M.L., Martino, P., Zhao, N., Stasevich, T.J., Nicoli, S., Giraldez, A.J. (2025) Genetically encoded affinity reagents are a toolkit for visualizing and manipulating endogenous protein function in vivo. Nature communications. 16:55035503

Brown, W., Bardhan, A., Darrah, K., Tsang, M., Deiters, A. (2022) Optical Control of MicroRNA Function in Zebrafish Embryos. Journal of the American Chemical Society. 144(37):16819-16826

Zhang, X., Yang, F., Liu, F., Tian, Q., Hu, M., Li, P., Zeng, Y. (2022) Conservation of Differential Animal MicroRNA Processing by Drosha and Dicer. Frontiers in molecular biosciences. 8:730006

Kontur, C., Jeong, M., Cifuentes, D., Giraldez, A.J. (2020) Ythdf m⁶A Readers Function Redundantly during Zebrafish Development. Cell Reports. 33:108598

Liu, Y., Zhu, Z., Ho, I.H.T., Shi, Y., Li, J., Wang, X., Chan, M.T.V., Cheng, C.H.K. (2020) Genetic Deletion of miR-430 Disrupts Maternal-Zygotic Transition and Embryonic Body Plan. Frontiers in genetics. 11:853

Bremer, J., Marsden, K.C., Miller, A., Granato, M. (2019) The ubiquitin ligase PHR promotes directional regrowth of spinal zebrafish axons. Communications biology. 2:195

Laue, K., Rajshekar, S., Courtney, A.J., Lewis, Z.A., Goll, M.G. (2019) The maternal to zygotic transition regulates genome-wide heterochromatin establishment in the zebrafish embryo. Nature communications. 10:1551

Martinez, R., Vera-Chang, M.N., Haddad, M., Zon, J., Navarro-Martin, L., Trudeau, V.L., Mennigen, J.A. (2019) Developmental fluoxetine exposure in zebrafish reduces offspring basal cortisol concentration via life stage-dependent maternal transmission. PLoS One. 14:e0212577

Gallagher, T.L., Tietz, K.T., Morrow, Z.T., McCammon, J.M., Goldrich, M.L., Derr, N.L., Amacher, S.L. (2017) Pnrc2 regulates 3'UTR-mediated decay of segmentation clock-associated transcripts during zebrafish segmentation. Developmental Biology. 429(1):225-239

Takacs, C.M., Giraldez, A.J. (2016) miR-430 regulates oriented cell division during neural tube development in zebrafish. Developmental Biology. 409(2):442-50

Patil, P., Kibiryeva, N., Uechi, T., Marshall, J., O'Brien, J.E., Artman, M., Kenmochi, N., Bittel, D.C. (2015) scaRNAs Regulate Splicing and Vertebrate Heart Development. Biochimica et biophysica acta. Molecular basis of disease. 1852(8):1619-29

Andrews, O.E., Cha, D.J., Wei, C., Patton, J.G. (2014) RNAi-Mediated Gene silencing in Zebrafish Triggered by Convergent Transcription. Scientific Reports. 4:5222

Swartz, M.E., Wells, M.B., Griffin, M., McCarthy, N., Lovely, C.B., McGurk, P., Rozacky, J., and Eberhart, J.K. (2014) A Screen of Zebrafish Mutants Identifies Ethanol-Sensitive Genetic Loci. Alcoholism, clinical and experimental research. 38(3):694-703

Lee, M.T., Bonneau, A.R., Takacs, C.M., Bazzini, A.A., Divito, K.R., Fleming, E.S., and Giraldez, A.J. (2013) Nanog, Pou5f1 and SoxB1 activate zygotic gene expression during the maternal-to-zygotic transition. Nature. 503(7476):360-4

Moore, J.C., Sheppard, S., Shestopalov, I.A., Chen, J.K., and Lawson, N. (2013) Post-transcriptional mechanisms contribute to Etv2 repression during vascular development. Developmental Biology. 384(1):128-40

Bazzini, A.A., Lee, M.T., and Giraldez, A.J. (2012) Ribosome Profiling Shows That miR-430 Reduces Translation Before Causing mRNA Decay in Zebrafish. Science (New York, N.Y.). 336(6078):233-237

Goudarzi, M., Banisch, T.U., Mobin, M.B., Maghelli, N., Tarbashevich, K., Strate, I., van den Berg, J., Blaser, H., Bandemer, S., Paluch, E., Bakkers, J., Toli-Nørrelykke, I.M., and Raz, E. (2012) Identification and Regulation of a Molecular Module for Bleb-Based Cell Motility. Developmental Cell. 23(1):210-218

López-Bellido, R., Barreto-Valer, K., Sánchez-Simón, F.M., and Rodríguez, R.E. (2012) Cocaine Modulates the Expression of Opioid Receptors and miR-let-7d in Zebrafish Embryos. PLoS One. 7(11):e50885

Lagendijk, A.K., Goumans, M.J., Burkhard, S.B., and Bakkers, J. (2011) MicroRNA-23 Restricts Cardiac Valve Formation by Inhibiting Has2 and Extracellular Hyaluronic Acid Production. Circulation research. 109(6):649-57

Sander, J.D., Dahlborg, E.J., Goodwin, M.J., Cade, L., Zhang, F., Cifuentes, D., Curtin, S.J., Blackburn, J.S., Thibodeau-Beganny, S., Qi, Y., Pierick, C.J., Hoffman, E., Maeder, M.L., Khayter, C., Reyon, D., Dobbs, D., Langenau, D.M., Stupar, R.M., Giraldez, A.J., Voytas, D.F., Peterson, R.T., Yeh, J.R., Joung, J.K. (2011) Selection-free zinc-finger-nuclease engineering by context-dependent assembly (CoDA). Nature Methods. 8:67-9

Cifuentes, D., Xue, H., Taylor, D.W., Patnode, H., Mishima, Y., Cheloufim, S., Ma, E., Mane, S., Hannon, G.J., Lawson, N.D., Wolfe, S.A., and Giraldez, A.J. (2010) A novel miRNA processing pathway independent of Dicer requires Argonaute2 catalytic activity. Science (New York, N.Y.). 328(5986):1694-1698

Mallappa, C., Nasipak, B.T., Etheridge, L., Androphy, E.J., Jones, S.N., Sagerström, C.G., Ohkawa, Y., and Imbalzano, A.N. (2010) Myogenic microRNA expression requires ATP-dependent chromatin remodeling enzyme function. Molecular and cellular biology. 30(13):3176-3186

Shkumatava, A., Stark, A., Sive, H., and Bartel, D.P. (2009) Coherent but overlapping expression of microRNAs and their targets during vertebrate development. Genes & Development. 23(4):466-481

Thatcher, E.J., Paydar, I., Anderson, K.K., and Patton, J.G. (2008) Regulation of zebrafish fin regeneration by microRNAs. Proceedings of the National Academy of Sciences of the United States of America. 105(47):18384-18389

Giraldez, A.J., Mishima, Y., Rihel, J., Grocock, R.J., Van Dongen, S., Inoue, K., Enright, A.J., and Schier, A.F. (2006) Zebrafish MiR-430 Promotes Deadenylation and Clearance of Maternal mRNAs. Science (New York, N.Y.). 312(5770):75-79

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

Shimoda, N., Yamakoshi, K., Miyake, A., and Takeda, H. (2005) Identification of a gene required for de novo DNA methylation of the zebrafish no tail gene. Developmental Dynamics : an official publication of the American Association of Anatomists. 233(4):1509-1516

Wienholds, E., Koudijs, M.J., van Eeden, F.J., Cuppen, E., and Plasterk, R.H. (2003) The microRNA-producing enzyme Dicer1 is essential for zebrafish development. Nature Genetics. 35(3):217-218