ZFIN

ZFIN ID: ZDB-GENE-980526-102

ZFIN ID: ZDB-GENE-980526-102

CITATIONS (86 total)

Gene Name:	SRY-box transcription factor 19a
Gene Symbol:	sox19a

Gao, M., Veil, M., Rosenblatt, M., Riesle, A.J., Gebhard, A., Hass, H., Buryanova, L., Yampolsky, L.Y., Grüning, B., Ulianov, S.V., Timmer, J., Onichtchouk, D. (2022) Pluripotency factors determine gene expression repertoire at zygotic genome activation. Nature communications. 13:788

Michel, L., Palma, K., Cerda, M., Lagadec, R., Mayeur, H., Fuentès, M., Besseau, L., Martin, P., Magnanou, E., Blader, P., Concha, M.L., Mazan, S. (2022) Diversification of habenular organization and asymmetries in teleosts: Insights from the Atlantic salmon and European eel. Frontiers in cell and developmental biology. 10:1015074

Okada, K., Aoki, K., Tabei, T., Sugio, K., Imai, K., Bonkohara, Y., Kamachi, Y. (2022) Key sequence features of CRISPR RNA for dual-guide CRISPR-Cas9 ribonucleoprotein complexes assembled with wild-type or HiFi Cas9. Nucleic acids research. 50(5):2854-2871

Ogita, Y., Tamura, K., Mawaribuchi, S., Takamatsu, N., Ito, M. (2021) Independent pseudogenizations and losses of sox15 during amniote diversification following asymmetric ohnolog evolution. BMC ecology and evolution. 21:134

Scott, K., O'Rourke, R., Winkler, C.C., Kearns, C.A., Appel, B. (2021) Temporal single-cell transcriptomes of zebrafish spinal cord pMN progenitors reveal distinct neuronal and glial progenitor populations. Developmental Biology. 479:37-50

Yuikawa, T., Ikeda, M., Tsuda, S., Saito, S., Yamasu, K. (2021) Involvement of Oct4-type transcription factor Pou5f3 in posterior spinal cord formation in zebrafish embryos. Development, growth & differentiation. 63(6):306-322

Zafar, I., Iftikhar, R., Ahmad, S.U., Rather, M.A. (2021) Genome wide identification, phylogeny, and synteny analysis of sox gene family in common carp (Cyprinus carpio). Biotechnology reports (Amsterdam, Netherlands). 30:e00607

Huang, X., Wu, C., Gong, K., Chen, Q., Gu, Q., Qin, H., Zhao, C., Yu, T., Yang, L., Fu, W., Wang, Y., Qin, Q., Liu, S. (2020) Sox Gene Family Revealed Genetic Variations in Autotetraploid Carassius auratus. Frontiers in genetics. 11:804

Pálfy, M., Schulze, G., Valen, E., Vastenhouw, N.L. (2020) Chromatin accessibility established by Pou5f3, Sox19b and Nanog primes genes for activity during zebrafish genome activation. PLoS Genetics. 16:e1008546

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):

Wang, B., Dong, J., Xiao, H., Li, Y., Jin, Y., Cui, M., Zhang, S.Q., Fan, S.J. (2020) Metformin fights against radiation-induced early developmental toxicity. The Science of the total environment. 732:139274

Ye, Z., Kimelman, D. (2020) hox13 genes are required for mesoderm formation and axis elongation during early zebrafish development. Development (Cambridge, England). 147(22):

Li, X., Zhou, W., Li, X., Gao, M., Ji, S., Tian, W., Ji, G., Du, J., Hao, A. (2019) SOX19b regulates the premature neuronal differentiation of neural stem cells through EZH2-mediated histone methylation in neural tube development of zebrafish. Stem Cell Research & Therapy. 10:389

Sharma, P., Saraswathy, V.M., Xiang, L., Fürthauer, M. (2019) Notch-mediated inhibition of neurogenesis is required for zebrafish spinal cord morphogenesis. Scientific Reports. 9:9958

Wagner, D.E., Weinreb, C., Collins, Z.M., Briggs, J.A., Megason, S.G., Klein, A.M. (2018) Single-cell mapping of gene expression landscapes and lineage in the zebrafish embryo. Science (New York, N.Y.). 360(6392):981-987

Wong, K.L., Akiyama, R., Bessho, Y., Matsui, T. (2018) ERK Activity Dynamics during Zebrafish Embryonic Development. International Journal of Molecular Sciences. 20(1)

Joseph, S.R., Pálfy, M., Hilbert, L., Kumar, M., Karschau, J., Zaburdaev, V., Shevchenko, A., Vastenhouw, N.L. (2017) Competition between histone and transcription factor binding regulates the onset of transcription in zebrafish embryos. eLIFE. 6

Praveen Kumar, M.K., Shyama, S.K., Kashif, S., Dubey, S.K., Avelyno, D., Sonaye, B.H., Kadam Samit, B., Chaubey, R.C. (2017) Effects of gamma radiation on the early developmental stages of Zebrafish (Danio rerio). Ecotoxicology and environmental safety. 142:95-101

Stapel, L.C., Zechner, C., Vastenhouw, N.L. (2017) Uniform gene expression in embryos is achieved by temporal averaging of transcription noise. Genes & Development. 31(16):1635-1640

Veil, M., Schaechtle, M.A., Gao, M., Kirner, V., Buryanova, L., Grethen, R., Onichtchouk, D. (2017) Maternal Nanog is critical for the zebrafish embryo architecture and for cell viability during gastrulation. Development (Cambridge, England). 145(1)

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

Stapel, L.C., Lombardot, B., Broaddus, C., Kainmueller, D., Jug, F., Myers, E.W., Vastenhouw, N.L. (2016) Automated detection and quantification of single RNAs at cellular resolution in zebrafish embryos. Development (Cambridge, England). 143(3):540-6

Diotel, N., Viales, R.R., Armant, O., März, M., Ferg, M., Rastegar, S., Strähle, U. (2015) Comprehensive expression map of transcription regulators in the adult zebrafish telencephalon reveals distinct neurogenic niches. The Journal of comparative neurology. 523(8):1202-21

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

Wang, Y., Lu, Y., Zhang, Y., Ning, Z., Li, Y., Zhao, Q., Lu, H., Huang, R., Xia, X., Feng, Q., Liang, X., Liu, K., Zhang, L., Lu, T., Huang, T., Fan, D., Weng, Q., Zhu, C., Lu, Y., Li, W., Wen, Z., Zhou, C., Tian, Q., Kang, X., Shi, M., Zhang, W., Jang, S., Du, F., He, S., Liao, L., Li, Y., Gui, B., He, H., Ning, Z., Yang, C., He, L., Luo, L., Yang, R., Luo, Q., Liu, X., Li, S., Huang, W., Xiao, L., Lin, H., Han, B., Zhu, Z. (2015) The draft genome of the grass carp (Ctenopharyngodon idellus) provides insights into its evolution and vegetarian adaptation. Nature Genetics. 47(6):625-31

Zhang, H., Wang, X., Lv, K., Gao, S., Wang, G., Fan, C., Zhang, X.A., Yan, J. (2015) Time Point-based Integrative Analyses of Deep-transcriptome Identify Four Signal Pathways in Blastemal Regeneration of Zebrafish Lower Jaw. Stem cells (Dayton, Ohio). 33(3):806-18

Amemiya, C.T., Alfoldi, J., Lee, A.P., Fan, S., Philippe, H., MacCallum, I., Braasch, I., Manousaki, T., Schneider, I., Rohner, N., Organ, C., Chalopin, D., Smith, J.J., Robinson, M., Dorrington, R.A., Gerdol, M., Aken, B., Biscotti, M.A., Barucca, M., Baurain, D., Berlin, A.M., Blatch, G.L., Buonocore, F., Burmester, T., Campbell, M.S., Canapa, A., Cannon, J.P., Christoffels, A., de Moro, G., Edkins, A.L., Fan, L., Fausto, A.M., Feiner, N., Forconi, M., Gamieldien, J., Gnerre, S., Gnirke, A., Goldstone, J.V., Haerty, W., Hahn, M.E., Hesse, U., Hoffmann, S., Johnson, J., Karchner, S.I., Karaku, S., Lara, M., Levin, J.Z., Litman, G.W., Mauceli, E., Miyake, T., Mueller, M.G., Nelson, D.R., Nitsche, A., Olmo, E., Ota, T., Pallavicini, A., Panji, S., Picone, B., Ponting, C.P., Prohaska, S.J., Przybylski, D., Saha, N.R., Ravi, V., Ribeiro, F.J., Sauka-Spengler, T., Scapigliati, G., Searle, S.M.J., Sharpe, T., Simakov, O., Stadler, P.F., Stegeman, J.J., Sumiyama, K., Tabbaa, D., Tafer, H., Turner-Maier, J., van Heusden, P., White, S., Williams, L., Yandell, M., Brinkmann, H., Volff, J.N., Tabin, C.J., Shubin, N., Schartl, M., Jaffe, D.B., Postlethwait, J.H., Venkatesh, B., Palma, F.D., Lander, E.S., Meyer, A., and Lindblad-Toh, K. (2013) The African coelacanth genome provides insights into tetrapod evolution. Nature. 496:311-316

Kuo, C.L., Lam, C.M., Hewitt, J.E., and Scotting, P.J. (2013) Formation of the Embryonic Organizer Is Restricted by the Competitive Influences of Fgf Signaling and the SoxB1 Transcription Factors. PLoS One. 8(2):e57698

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

Leichsenring, M., Maes, J., Mössner, R., Driever, W., and Onichtchouk, D. (2013) Pou5f1 transcription factor controls zygotic gene activation in vertebrates. Science (New York, N.Y.). 341(6149):1005-1009

Winata, C.L., Kondrychyn, I., Kumar, V., Srinivasan, K.G., Orlov, Y., Ravishankar, A., Prabhakar, S., Stanton, L.W., Korzh, V., and Mathavan, S. (2013) Genome wide analysis reveals zic3 interaction with distal regulatory elements of stage specific developmental genes in zebrafish. PLoS Genetics. 9(10):e1003852

Chen, Y.Y., Harris, M.P., Levesque, M.P., Nüsslein-Volhard, C., and Sonawane, M. (2012) Heterogeneity across the dorso-ventral axis in zebrafish EVL is regulated by a novel module consisting of sox, snail1a and max genes. Mechanisms of Development. 129(1-4):13-23

Aanes, H., Winata, C.L., Lin, C.H., Chen, J.P., Srinivasan, K.G., Lee, S.G., Lim, A.Y., Hajan, H.S., Collas, P., Bourque, G., Gong, Z., Korzh, V., Aleström, P., and Mathavan, S. (2011) Zebrafish mRNA sequencing deciphers novelties in transcriptome dynamics during maternal to zygotic transition. Genome research. 21(8):1328-38

Webb, K.J., Coolen, M., Gloeckner, C.J., Stigloher, C., Bahn, B., Topp, S., Ueffing, M., and Bally-Cuif, L. (2011) The Enhancer of split transcription factor Her8a is a novel dimerisation partner for Her3 that controls anterior hindbrain neurogenesis in zebrafish. BMC Developmental Biology. 11(1):27

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

Shih, Y.H., Kuo, C.L., Hirst, C.S., Dee, C.T., Liu, Y.R., Laghari, Z.A., and Scotting, P.J. (2010) SoxB1 transcription factors restrict organizer gene expression by repressing multiple events downstream of Wnt signalling. Development (Cambridge, England). 137(16):2671-2681

Morley, R.H., Lachani, K., Keefe, D., Gilchrist, M.J., Flicek, P., Smith, J.C., and Wardle, F.C. (2009) A gene regulatory network directed by zebrafish No tail accounts for its roles in mesoderm formation. Proceedings of the National Academy of Sciences of the United States of America. 106(10):3829-3834

Nikolaou, N., Watanabe-Asaka, T., Gerety, S., Distel, M., Köster, R.W., and Wilkinson, D.G. (2009) Lunatic fringe promotes the lateral inhibition of neurogenesis. Development (Cambridge, England). 136(15):2523-2533

Rossi, C.C., Kaji, T., and Artinger, K.B. (2009) Transcriptional control of Rohon-Beard sensory neuron development at the neural plate border. Developmental Dynamics : an official publication of the American Association of Anatomists. 238(4):931-943

Kamachi, Y., Okuda, Y., and Kondoh, H. (2008) Quantitative assessment of the knockdown efficiency of morpholino antisense oligonucleotides in zebrafish embryos using a luciferase assay. Genesis (New York, N.Y. : 2000). 46(1):1-7

Dal-Pra, S., Fürthauer, M., Van-Celst, J., Thisse, B., and Thisse, C. (2006) Noggin1 and Follistatin-like2 function redundantly to Chordin to antagonize BMP activity. Developmental Biology. 298(2):514-526

Okuda, Y., Yoda, H., Uchikawa, M., Furutani-Seiki, M., Takeda, H., Kondoh, H., Kamachi, Y. (2006) Comparative genomic and expression analysis of group B1 sox genes in zebrafish indicates their diversification during vertebrate evolution. Developmental Dynamics : an official publication of the American Association of Anatomists. 235(3):811-825

Phillips, R.B., Amores, A., Morasch, M.R., Wilson, C., and Postlethwait, J.H. (2006) Assignment of zebrafish genetic linkage groups to chromosomes. Cytogenetic and genome research. 114(2):155-162

Fong, S.H., Emelyanov, A., Teh, C., and Korzh, V. (2005) Wnt signalling mediated by Tbx2b regulates cell migration during formation of the neural plate. Development (Cambridge, England). 132(16):3587-3596

Koopman, P., Schepers, G., Brenner, S., nd Venkatesh, B. (2004) Origin and diversity of the Sox transcription factor gene family: genome-wide analysis in Fugu rubripes. Gene. 328:177-186

Zhang, C., Basta, T., Hernandez-Lagunas, L., Simpson, P., Stemple, D.L., Artinger, K.B., and Klymkowsky, M.W. (2004) Repression of nodal expression by maternal B1-type SOXs regulates germ layer formation in Xenopus and zebrafish. Developmental Biology. 273(1):23-37

Bae, Y.K., Shimizu, T., Yabe, T., Kim, C.H., Hirata, T., Nojima, H., Muraoka, O., Hirano, T., and Hibi, M. (2003) A homeobox gene, pnx, is involved in the formation of posterior neurons in zebrafish. Development (Cambridge, England). 130(9):1853-1865

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

Bowles, J., Schepers, G., and Koopman, P. (2000) Phylogeny of the SOX family of developmental transcription factors based on sequence and structural indicators. Developmental Biology. 227(2):239-255

De Martino, S.P., Errington, F., Ashworth, A., Jowett, T., and Austin, C.A. (1999) sox30: a novel zebrafish sox gene expressed in a restricted manner at the midbrain-hindbrain boundary during neurogenesis. Development genes and evolution. 209(6):357-362

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

Bally-Cuif, L., Schatz, W.J., and Ho, R.K. (1998) Characterization of the zebrafish Orb/CPEB-related RNA-binding protein and localization of maternal components in the zebrafish oocyte. Mechanisms of Development. 77:31-47

Postlethwait, J.H, Yan, Y.-L., Gates, M.A., Horne, S., Amores, A., Brownlie, A., Donovan, A., Egan, E.S., Force, A., Gong, Z., Goutel, C., Fritz, A., Kelsh, R., Knapik, E., Liao, E., Paw, B., Ransom, D., Singer, A., Thomson, M., Abduljabbar, T.S., Yelick, P., Beier, D., Joly, J.-S., Larhammar, D., Rosa, F., Westerfield, M., Zon, L.I., Johnson, S.L., and Talbot, W.S. (1998) Vertebrate genome evolution and the zebrafish gene map. Nature Genetics. 18:345-349

Fritz, A., Rozowski, M., Walker, C., and Westerfield, M. (1996) Identification of selected gamma-ray induced deficiencies in zebrafish using multiplex polymerase chain reaction. Genetics. 144(4):1735-1745

Vriz, S., Joly, C., Boulekbache, H., and Condamine, H. (1996) Zygotic expression of the zebrafish Sox-19, an HMG box-containing gene, suggests an involvement in central nervous system development. Mol. Brain Res.. 40(2):221-228

Vriz, S. and Lovell-Badge, R. (1995) The zebrafish Zf-Sox 19 protein: a novel member of the Sox family which reveals highly conserved motifs outside of the DNA-binding domain. Gene. 153:275-276

Additional Citations (30):

Zebrafish Nomenclature Committee (2023) Nomenclature Data Curation (2023). Nomenclature Committee Submission.

ZFIN Staff (2023) Automated Curation of UniProt Database Links. Automated Data Submission.

ZFIN Staff (2020) Addition of links from ZFIN to Expression Atlas. Semi-automated Curation.

ZFIN Staff (2017) Curation of PANTHER Gene IDs. Automated Data Submission.

ZFIN Staff (2017) Curation of Alliance of Genome Resources Database Links. Automated Data Submission.

UniProt curators (2015) Electronic Gene Ontology annotations created by transferring manual GO annotations between related proteins based on shared sequence features.. Automated Data Submission.

Varshney, G.K., Zhang, S., Burgess, S.M., ZFIN Staff (2015) Automated Data Load From CRISPRz. ZFIN Direct Data Submission.

ZFIN Staff (2015) Data Model Change: Sequence Targeting Reagents Removed from Environment. ZFIN Historical Data.

England, S., Hilinski, W., de Jager, S., Andrzejczuk, L., Campbell, P., Chowdhury, T., Demby, C., Fancher, W., Gong, Y., Lin, C., Machikas, A., Rodriguez-Larrain, G., Roman Rivera, V., and Lewis, K.E. (2014) Identifying Transcription Factors Expressed by Ventral Spinal Cord Interneurons. ZFIN Direct Data Submission.

Busch-Nentwich, E., Kettleborough, R., Dooley, C. M., Scahill, C., Sealy, I., White, R., Herd, C., Mehroke, S., Wali, N., Carruthers, S., Hall, A., Collins, J., Gibbons, R., Pusztai, Z., Clark, R., and Stemple, D.L. (2013) Sanger Institute Zebrafish Mutation Project mutant data submission. ZFIN Direct Data Submission.

ZFIN Staff (2013) Semi-automated association of ENSDARG identifiers with ZFIN genes for the ZMP project. Semi-automated Curation.

ZFIN Database Team (2012) Linkage Group (LG) to Chromosome (Chr). Manually curated data.

UniProt-GOA (2011) Gene Ontology annotation based on the manual assignment of UniProtKB Subcellular Location terms in UniProtKB/Swiss-Prot entries. Manually curated data.

UniProt-GOA (2011) Gene Ontology annotation based on the automatic assignment of UniProtKB Subcellular Location terms in UniProtKB/TrEMBL entries. Manually curated data.

Gaudet, P., Livstone, M., Thomas, P., The Reference Genome Project (2010) Annotation inferences using phylogenetic trees. Automated Data Submission.

GOA curators, UniProt curators (2007) Gene Ontology annotation based on Swiss-Prot Subcellular Location vocabulary mapping. Manually curated data.

ZFIN Staff (2007) Microarray Expression to Gene Association in ZFIN. Semi-automated Curation.

ZFIN Staff (2006) Curation of SNP Database Links. Automated Data Submission.

ZFIN Staff (2006) Curation of Ensembl Database Links. Automated Data Submission.

ZFIN Staff (2004) ZGC Data Curation and Association in ZFIN by ZFIN Staff. Semi-automated Curation.

Zebrafish Nomenclature Committee (2003) Nomenclature Data Curation (2003-2010). Nomenclature Committee Submission.

ZFIN Staff (2003) Submission and Curation of Mutant and Transgenic Lines. ZFIN Direct Data Submission.

ZFIN Staff (2003) Curation of VEGA Database Links. Automated Data Submission.

ZFIN Staff (2003) Curation of orthology data. Manually curated data.

ZFIN Staff (2002) Gene Ontology Annotation Through Association of UniProt Keywords with GO Terms. Automated Data Submission.

ZFIN Staff (2002) Curation of NCBI Gene Data Via Shared RNA Sequence IDs. Automated Data Submission.

ZFIN Staff (2002) Scientific Curation. Manually curated data.

ZFIN Staff (2002) Gene Ontology Annotation Through Association of InterPro Records with GO Terms. Automated Data Submission.

ZFIN Staff (2002) Curation of EMBL records. Automated Data Submission.

Thisse, B., Pflumio, S., Fürthauer, M., Loppin, B., Heyer, V., Degrave, A., Woehl, R., Lux, A., Steffan, T., Charbonnier, X.Q. and Thisse, C. (2001) Expression of the zebrafish genome during embryogenesis (NIH R01 RR15402). ZFIN Direct Data Submission.