ZFIN

ZFIN ID: ZDB-GENE-000823-3

ZFIN ID: ZDB-GENE-000823-3

CITATIONS (58 total)

Gene Name:	homeobox A3a
Gene Symbol:	hoxa3a

Xue, S., Ly, T.T.N., Vijayakar, R.S., Chen, J., Ng, J., Mathuru, A.S., Magdinier, F., Reversade, B. (2022) HOX epimutations driven by maternal SMCHD1/LRIF1 haploinsufficiency trigger homeotic transformations in genetically wildtype offspring. Nature communications. 13:3583

Mitchell, J.M., Sucharov, J., Pulvino, A.T., Brooks, E.P., Gillen, A.E., Nichols, J.T. (2021) The alx3 gene shapes the zebrafish neurocranium by regulating frontonasal neural crest cell differentiation timing. Development (Cambridge, England). 148(7):

Ghosh, P., Maurer, J.M., Sagerström, C.G. (2018) Analysis of novel caudal hindbrain genes reveals different regulatory logic for gene expression in rhombomere 4 versus 5/6 in embryonic zebrafish. Neural Development. 13:13

González-Rojo, S., Fernández-Díez, C., Lombó, M., Herráez, M.P. (2018) Distribution of DNA damage in the sperm nucleus: A study of zebrafish as a model of histone-packaged chromatin. Theriogenology. 122:109-115

Malmstrøm, M., Britz, R., Matschiner, M., Tørresen, O.K., Hadiaty, R.K., Yaakob, N., Tan, H.H., Jakobsen, K.S., Salzburger, W., Rüber, L. (2018) The Most Developmentally Truncated Fishes Show Extensive Hox Gene Loss and Miniaturized Genomes. Genome biology and evolution. 10:1088-1103

Selland, L.G., Koch, S., Laraque, M., Waskiewicz, A.J. (2018) Coordinate regulation of retinoic acid synthesis by pbx genes and fibroblast growth factor signaling by hoxb1b is required for hindbrain patterning and development. Mechanisms of Development. 150:28-41

Wang, J., Fei, F., Berberoglu, M.A., Sun, S., Wang, L., Dong, Z., Wang, X. (2018) Csy4-based vector system enables conditional chimeric gene editing in zebrafish without interrupting embryogenesis. Journal of molecular cell biology. 10(6):586-588

Nakayama, Y., Inomata, C., Yuikawa, T., Tsuda, S., Yamasu, K. (2017) Comprehensive analysis of target genes in zebrafish embryos reveals gbx2 involvement in neurogenesis. Developmental Biology. 430(1):237-248

Ma, L.H., Grove, C.L., Baker, R. (2014) Development of oculomotor circuitry independent of hox3 genes. Nature communications. 5:4221

van der Velden, Y.U., Wang, L., Querol Cano, L., and Haramis, A.P. (2013) The polycomb group protein ring1b/rnf2 is specifically required for craniofacial development. PLoS One. 8(9):e73997

Choe, S.K., Nakamura, M., Ladam, F., Etheridge, L., and Sagerström, C.G. (2012) A Gal4/UAS system for conditional transgene expression in rhombomere 4 of the zebrafish hindbrain. Developmental Dynamics : an official publication of the American Association of Anatomists. 241(6):1125-1132

Ma, D., Wang, L., Wang, S., Gao, Y., Wei, Y., and Liu, F. (2012) Foxn1 maintains thymic epithelial cells to support T-cell development via mcm2 in zebrafish. Proceedings of the National Academy of Sciences of the United States of America. 109(51):21040-21045

Richardson, J., Shono, T., Okabe, M., and Graham, A. (2012) The presence of an embryonic opercular flap in amniotes. Proceedings. Biological sciences. 279(1727):224-9

Clark, K.J., Balciunas, D., Pogoda, H.M., Ding, Y., Westcot, S.E., Bedell, V.M., Greenwood, T.M., Urban, M.D., Skuster, K.J., Petzold, A.M., Ni, J., Nielsen, A.L., Patowary, A., Scaria, V., Sivasubbu, S., Xu, X., Hammerschmidt, M., and Ekker, S.C. (2011) In vivo protein trapping produces a functional expression codex of the vertebrate proteome. Nature Methods. 8(6):506-512

Zheng, W., Wang, Z., Collins, J.E., Andrews, R.M., Stemple, D., and Gong, Z. (2011) Comparative transcriptome analyses indicate molecular homology of zebrafish swimbladder and Mammalian lung. PLoS One. 6(8):e24019

Chen, L., Zhao, P., Wells, L., Amemiya, C.T., Condie, B.G., and Manley, N.R. (2010) Mouse and zebrafish Hoxa3 orthologues have nonequivalent in vivo protein function. Proceedings of the National Academy of Sciences of the United States of America. 107(23):10555-10560

Li, Q., Ritter, D., Yang, N., Dong, Z., Li, H., Chuang, J.H., and Guo, S. (2010) A systematic approach to identify functional motifs within vertebrate developmental enhancers. Developmental Biology. 337(2):484-495

Buschbeck, M., Uribesalgo, I., Wibowo, I., Rué, P., Martin, D., Gutierrez, A., Morey, L., Guigó, R., Lopez-Schier, H., and Di Croce, L. (2009) The histone variant macroH2A is an epigenetic regulator of key developmental genes. Nature structural & molecular biology. 16(10):1074-1079

Choe, S.K., Hirsch, N., Zhang, X., and Sagerström, C.G. (2008) hnf1b genes in zebrafish hindbrain development. Zebrafish. 5(3):179-187

Mungpakdee, S., Seo, H.C., and Chourrout, D. (2008) Spatio-temporal expression patterns of anterior Hox genes in Atlantic salmon (Salmo salar). Gene expression patterns : GEP. 8(7-8):508-514

Woltering, J.M., and Durston, A.J. (2008) MiR-10 Represses HoxB1a and HoxB3a in Zebrafish. PLoS One. 3(1):e1396

Lan, F., Bayliss, P.E., Rinn, J.L., Whetstine, J.R., Wang, J.K., Chen, S., Iwase, S., Alpatov, R., Issaeva, I., Canaani, E., Roberts, T.M., Chang, H.Y., and Shi, Y. (2007) A histone H3 lysine 27 demethylase regulates animal posterior development. Nature. 449(7163):689-694

Trede, N.S., Medenbach, J., Damianov, A., Hung, L.H., Weber, G.J., Paw, B.H., Zhou, Y., Hersey, C., Zapata, A., Keefe, M., Barut, B.A., Stuart, A.B., Katz, T., Amemiya, C.T., Zon, L.I., and Bindereif, A. (2007) Network of coregulated spliceosome components revealed by zebrafish mutant in recycling factor p110. Proceedings of the National Academy of Sciences of the United States of America. 104(16):6608-6613

Yang, Z., Jiang, H., Zhao, F., Shankar, D.B., Sakamoto, K.M., Zhang, M.Q., and Lin, S. (2007) A highly conserved regulatory element controls hematopoietic expression of GATA-2 in zebrafish. BMC Developmental Biology. 7(1):97

Kurosawa, G., Takamatsu, N., Takahashi, M., Sumitomo, M., Sanaka, E., Yamada, K., Nishii, K., Matsuda, M., Asakawa, S., Ishiguro, H., Miura, K., Kurosawa, Y., Shimizu, N., Kohara, Y., and Hori, H. (2006) Organization and structure of hox gene loci in medaka genome and comparison with those of pufferfish and zebrafish genomes. Gene. 370:75-82

Corredor-Adamez, M., Welten, M.C., Spaink, H.P., Jeffery, J.E., Schoon, R.T., de Bakker, M.A., Bagowski, C.P., Meijer, A.H., Verbeek, F.J., and Richardson, M.K. (2005) Genomic annotation and transcriptome analysis of the zebrafish (Danio rerio) hox complex with description of a novel member, hoxb13a. Evolution & development. 7(5):362-375

Santini, S., and Bernardi, G. (2005) Organization and base composition of tilapia Hox genes: implications for the evolution of Hox clusters in fish. Gene. 346:51-61

Hadrys, T., Prince, V., Hunter, M., Baker, R., and Rinkwitz, S. (2004) Comparative genomic analysis of vertebrate Hox3 and Hox4 genes. The Journal of experimental zoology. 302(2):147-164

Hogan, B.M., Hunter, M.P., Oates, A.C., Crowhurst, M.O., Hall, N.E., Heath, J.K., Prince, V.E., and Lieschke, G.J. (2004) Zebrafish gcm2 is required for gill filament budding from pharyngeal ectoderm. Developmental Biology. 276(2):508-522

Prohaska, S.J., and Stadler, P.F. (2004) The duplication of the Hox gene clusters in teleost fishes. Theory in biosciences = Theorie in den Biowissenschaften. 123(1):89-110

McClintock, J.M., Jozefowicz, C., Assimacopoulos, S., Grove, E.A., Louvi, A., and Prince, V.E. (2003) Conserved expression of Hoxa1 in neurons at the ventral forebrain/midbrain boundary of vertebrates. Development genes and evolution. 213(8):399-406

Santini, S., Boore, J.L., and Meyer, A. (2003) Evolutionary conservation of regulatory elements in vertebrate hox gene clusters. Genome research. 13(6):1111-1122

Chiu, C.-H., Amemiya, C., Dewar, K., Kim, C.-B., Ruddle, F.H., and Wagner, G.P. (2002) Molecular evolution of the HoxA cluster in the three major gnathostome lineages. Proceedings of the National Academy of Sciences of the United States of America. 99(8):5492-5497

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

Amores, A., Force, A., Yan, Y.-L. Joly, L., Amemiya, C., Fritz, A., Ho, R., Langeland, J., Prince, V., Wang, Y.-L., Westerfield, M., Ekker, M., and Postlethwait, J.H. (1998) Zebrafish hox clusters and vertebrate genome evolution. Science (New York, N.Y.). 282:1711-1714

Additional Citations (23):

ZFIN Staff (2024) Association of Ensembl transcripts with ZFIN genes. Semi-automated Curation.

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) UniProt ID Load from Ensembl. 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.

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

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

Ekker, S., Clark, K., ZFIN Staff (2012) Curation of zfishbook links. ZFIN Direct Data Submission.

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 Ensembl Database Links. Automated Data Submission.

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

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

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.