ZFIN ID: ZDB-PERS-050502-6
Giraldez, Antonio
Email: antonio.giraldez@yale.edu
URL: http://www.yale.edu/giraldezlab
Affiliation: Giraldez Lab
Address: Yale University School of Medicine 333 Cedar Street SHMI room 142 New Haven, CT 06511 USA
Country: United States
Phone: 646 763 5605
Fax: 203 7856350


Bogoch, Y., Jamieson-Lucy, A., Vejnar, C.E., Levy, K., Giraldez, A.J., Mullins, M.C., Elkouby, Y.M. (2022) Stage Specific Transcriptomic Analysis and Database for Zebrafish Oogenesis. Frontiers in cell and developmental biology. 10:826892
Jamieson-Lucy, A.H., Kobayashi, M., James Aykit, Y., Elkouby, Y., Escobar-Aguirre, M., Vejnar, C., Giraldez, A., Mullins, M.C. (2022) A proteomics approach identifies novel resident zebrafish Balbiani body proteins Cirbpa and Cirbpb. Developmental Biology. 484:1-11
Kontur, C., Jeong, M., Cifuentes, D., Giraldez, A.J. (2020) Ythdf m6A Readers Function Redundantly during Zebrafish Development. Cell Reports. 33:108598
Vejnar, C.E., Abdelmessih, M., Takacs, C., Yartseva, V., Oikonomou, P., Christiano, R., Stoeckius, M., Lau, S., Lee, M., Beaudoin, J.D., Musaev, D., Darwich-Codore, H., Walther, T., Tavazoie, S., Cifuentes, D., Giraldez, A. (2019) Genome wide analysis of 3'-UTR sequence elements and proteins regulating mRNA stability during maternal-to-zygotic transition in zebrafish. Genome research. 29(7):1100-1114
Chan, S.H., Tang, Y., Miao, L., Darwich-Codore, H., Vejnar, C.E., Beaudoin, J.D., Musaev, D., Fernandez, J.P., Benitez, M.D.J., Bazzini, A.A., Moreno-Mateos, M.A., Giraldez, A.J. (2019) Brd4 and P300 Confer Transcriptional Competency during Zygotic Genome Activation. Developmental Cell. 49:867-881.e8
El-Brolosy, M.A., Kontarakis, Z., Rossi, A., Kuenne, C., Günther, S., Fukuda, N., Kikhi, K., Boezio, G.L.M., Takacs, C.M., Lai, S.L., Fukuda, R., Gerri, C., Giraldez, A.J., Stainier, D.Y.R. (2019) Genetic compensation triggered by mutant mRNA degradation. Nature. 568(7751):193-197
Beaudoin, J.D., Novoa, E.M., Vejnar, C.E., Yartseva, V., Takacs, C.M., Kellis, M., Giraldez, A.J. (2018) Analyses of mRNA structure dynamics identify embryonic gene regulatory programs. Nature structural & molecular biology. 25(8):677-686
Fernandez, J.P., Moreno-Mateos, M.A., Gohr, A., Miao, L., Chan, S.H., Irimia, M., Giraldez, A.J. (2018) RES complex is associated with intron definition and required for zebrafish early embryogenesis. PLoS Genetics. 14:e1007473
Fernandez, J.P., Vejnar, C.E., Giraldez, A.J., Rouet, R., Moreno-Mateos, M.A. (2018) Optimized CRISPR-Cpf1 system for genome editing in zebrafish. Methods (San Diego, Calif.). 150:11-18
Moreno-Mateos, M.A., Fernandez, J.P., Rouet, R., Vejnar, C.E., Lane, M.A., Mis, E., Khokha, M.K., Doudna, J.A., Giraldez, A.J. (2017) CRISPR-Cpf1 mediates efficient homology-directed repair and temperature-controlled genome editing. Nature communications. 8:2024
Boguraev, A.S., Christensen, H.C., Bonneau, A.R., Pezza, J.A., Nichols, N.M., Giraldez, A.J., Gray, M.M., Wagner, B.M., Aken, J.T., Foley, K.D., Copeland, D.S., Kraves, S., Alvarez Saavedra, E. (2017) Successful amplification of DNA aboard the International Space Station. NPJ microgravity. 3:26
Kasper, D.M., Moro, A., Ristori, E., Narayanan, A., Hill-Teran, G., Fleming, E., Moreno-Mateos, M., Vejnar, C.E., Zhang, J., Lee, D., Gu, M., Gerstein, M., Giraldez, A., Nicoli, S. (2017) MicroRNAs Establish Uniform Traits during the Architecture of Vertebrate Embryos. Developmental Cell. 40:552-565.e5
Yartseva, V., Takacs, C.M., Vejnar, C.E., Lee, M.T., Giraldez, A.J. (2017) RESA identifies mRNA-regulatory sequences at high resolution. Nature Methods. 14(2):201-207
Bazzini, A.A., Del Viso, F., Moreno-Mateos, M.A., Johnstone, T.G., Vejnar, C.E., Qin, Y., Yao, J., Khokha, M.K., Giraldez, A.J. (2016) Codon identity regulates mRNA stability and translation efficiency during the maternal-to-zygotic transition. The EMBO journal. 35(19):2087-2103
Reischauer, S., Stone, O.A., Villasenor, A., Chi, N., Jin, S.W., Martin, M., Lee, M.T., Fukuda, N., Marass, M., Witty, A., Fiddes, I., Kuo, T., Chung, W.S., Salek, S., Lerrigo, R., Alsiö, J., Luo, S., Tworus, D., Augustine, S.M., Mucenieks, S., Nystedt, B., Giraldez, A.J., Schroth, G.P., Andersson, O., Stainier, D.Y. (2016) Cloche is a bHLH-PAS transcription factor that drives haemato-vascular specification. Nature. 535:294-8
Johnstone, T.G., Bazzini, A.A., Giraldez, A.J. (2016) Upstream ORFs are prevalent translational repressors in vertebrates. The EMBO journal. 35:706-23
Hoffman, E.J., Turner, K.J., Fernandez, J.M., Cifuentes, D., Ghosh, M., Ijaz, S., Jain, R.A., Kubo, F., Bill, B.R., Baier, H., Granato, M., Barresi, M.J., Wilson, S.W., Rihel, J., State, M.W., Giraldez, A.J. (2016) Estrogens Suppress a Behavioral Phenotype in Zebrafish Mutants of the Autism Risk Gene, CNTNAP2. Neuron. 89(4):725-33
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
Moreno-Mateos, M.A., Vejnar, C.E., Beaudoin, J.D., Fernandez, J.P., Mis, E.K., Khokha, M.K., Giraldez, A.J. (2015) CRISPRscan: designing highly efficient sgRNAs for CRISPR-Cas9 targeting in vivo. Nature Methods. 12:982-8
Bazzini, A.A., Johnstone, T.G., Christiano, R., Mackowiak, S.D., Obermayer, B., Fleming, E.S., Vejnar, C.E., Lee, M.T., Rajewsky, N., Walther, T.C., Giraldez, A.J. (2014) Identification of small ORFs in vertebrates using ribosome footprinting and evolutionary conservation. The EMBO journal. 33:981-93
Lee, M.T., Bonneau, A.R., Giraldez, A.J. (2014) Zygotic genome activation during the maternal-to-zygotic transition. Annual Review of Cell and Developmental Biology. 30:581-613
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
Yoda, M., Cifuentes, D., Izumi, N., Sakaguchi, Y., Suzuki, T., Giraldez, A.J., Tomari, Y. (2013) Poly(A)-specific ribonuclease mediates 3'-end trimming of Argonaute2-cleaved precursor microRNAs. Cell Reports. 5:715-26
Lewellis, S.W., Nagelberg, D., Subedi, A., Staton, A., Leblanc, M., Giraldez, A., and Knaut, H. (2013) Precise SDF1-mediated cell guidance is achieved through ligand clearance and microRNA-mediated decay. The Journal of cell biology. 200(3):337-355
Stahlhut, C., Suárez, Y., Lu, J., Mishima, Y., and Giraldez, A.J. (2012) miR-1 and miR-206 regulate angiogenesis by modulating VegfA expression in zebrafish. Development (Cambridge, England). 139(23):4356-4365
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
Staton, A.A., and Giraldez, A.J. (2011) Use of target protector morpholinos to analyze the physiological roles of specific miRNA-mRNA pairs in vivo. Nature Protocols. 6(12):2035-2049
Zhu, C., Smith, T., McNulty, J., Rayla, A.L., Lakshmanan, A., Siekmann, A.F., Buffardi, M., Meng, X., Shin, J., Padmanabhan, A., Cifuentes, D., Giraldez, A.J., Look, A.T., Epstein, J.A., Lawson, N.D., and Wolfe, S.A. (2011) Evaluation and application of modularly assembled zinc-finger nucleases in zebrafish. Development (Cambridge, England). 138(20):4555-4564
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
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
Takacs, C.M., and Giraldez, A.J. (2010) MicroRNAs as genetic sculptors: Fishing for clues. Seminars in cell & developmental biology. 21(7):760-767
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
Mishima, Y., Abreu-Goodger, C., Staton, A.A., Stahlhut, C., Shou, C., Cheng, C., Gerstein, M., Enright, A.J., and Giraldez, A.J. (2009) Zebrafish miR-1 and miR-133 shape muscle gene expression and regulate sarcomeric actin organization. Genes & Development. 23(5):619-632
Choi, P.S., Zakhary, L., Choi, W.Y., Caron, S., Alvarez-Saavedra, E., Miska, E.A., McManus, M., Harfe, B., Giraldez, A.J., Horvitz, R.H., Schier, A.F., and Dulac, C. (2008) Members of the miRNA-200 Family Regulate Olfactory Neurogenesis. Neuron. 57(1):41-55
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
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
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
Le Good, J.A., Joubin, K., Giraldez, A.J., Ben-Haim, N., Beck, S., Chen, Y., Schier, A.F., and Constam, D.B. (2005) Nodal stability determines signaling range. Current biology : CB. 15(1):31-36