ZFIN

ZFIN ID: ZDB-GENE-990415-120

CITATIONS (55 total)

Gene Name:	homeobox D3a
Gene Symbol:	hoxd3a

Yamada, K., Maeno, A., Araki, S., Kikuchi, M., Suzuki, M., Ishizaka, M., Satoh, K., Akama, K., Kawabe, Y., Suzuki, K., Kobayashi, D., Hamano, N., Kawamura, A. (2021) An atlas of seven zebrafish hox cluster mutants provides insights into sub/neofunctionalization of vertebrate Hox clusters. Development (Cambridge, England). 148(11):

den Broeder, M.J., Ballangby, J., Kamminga, L.M., Aleström, P., Legler, J., Lindeman, L.C., Kamstra, J.H. (2020) Inhibition of methyltransferase activity of enhancer of zeste 2 leads to enhanced lipid accumulation and altered chromatin status in zebrafish. Epigenetics & chromatin. 13:5

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

Madakashira, B., Corbett, L., Zhang, C., Paoli, P., Casement, J.W., Mann, J., Sadler, K.C., Mann, D.A. (2017) Variant Histone H2afv Reprograms DNA Methylation During Early Zebrafish Development. Epigenetics. 12(9):811-824

Payumo, A.Y., McQuade, L.E., Walker, W.J., Yamazoe, S., Chen, J.K. (2016) Tbx16 regulates hox gene activation in mesodermal progenitor cells. Nature Chemical Biology. 12(9):694-701

Elkon, R., Milon, B., Morrison, L., Shah, M., Vijayakumar, S., Racherla, M., Leitch, C.C., Silipino, L., Hadi, S., Weiss-Gayet, M., Barras, E., Schmid, C.D., Ait-Lounis, A., Barnes, A., Song, Y., Eisenman, D.J., Eliyahu, E., Frolenkov, G.I., Strome, S.E., Durand, B., Zaghloul, N.A., Jones, S.M., Reith, W., Hertzano, R. (2015) RFX transcription factors are essential for hearing in mice. Nature communications. 6:8549

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

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

Muto, A., Ikeda, S., Lopez-Burks, M.E., Kikuchi, Y., Calof, A.L., Lander, A.D., Schilling, T.F. (2014) Nipbl and Mediator Cooperatively Regulate Gene Expression to Control Limb Development. PLoS Genetics. 10:e1004671

Thornton, J.E., Du, P., Jing, L., Sjekloca, L., Lin, S., Grossi, E., Sliz, P., Zon, L.I., Gregory, R.I. (2014) Selective microRNA uridylation by Zcchc6 (TUT7) and Zcchc11 (TUT4). Nucleic acids research. 42(18):11777-91

Amali, A.A., Sie, L., Winkler, C., and Featherstone, M. (2013) Zebrafish hoxd4a Acts Upstream of meis1.1 to Direct Vasculogenesis, Angiogenesis and Hematopoiesis. PLoS One. 8(3):e58857

Varshney, G.K., Lu, J., Gildea, D., Huang, H., Pei, W., Yang, Z., Huang, S.C., Schoenfeld, D.S., Pho, N., Casero, D., Hirase, T., Mosbrook-Davis, D.M., Zhang, S., Jao, L.E., Zhang, B., Woods, I.G., Zimmerman, S., Schier, A.F., Wolfsberg, T., Pellegrini, M., Burgess, S.M., and Lin, S. (2013) A large-scale zebrafish gene knockout resource for the genome-wide study of gene function. Genome research. 23(4):727-735

Wan, X., Hu, B., Liu, J.X., Feng, X., and Xiao, W. (2011) Zebrafish mll is essential for haematopoiesis. The Journal of biological chemistry. 286(38):33345-57

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

Gomez, G.A., Veldman, M.B., Zhao, Y., Burgess, S., and Lin, S. (2009) Discovery and characterization of novel vascular and hematopoietic genes downstream of etsrp in zebrafish. PLoS One. 4(3):e4994

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

Punnamoottil, B., Kikuta, H., Pezeron, G., Erceg, J., Becker, T.S., and Rinkwitz, S. (2008) Enhancer detection in zebrafish permits the identification of neuronal subtypes that express Hox4 paralogs. Developmental Dynamics : an official publication of the American Association of Anatomists. 237(8):2195-2208

Skromne, I., Thorsen, D., Hale, M., Prince, V.E., and Ho, R.K. (2007) Repression of the hindbrain developmental program by Cdx factors is required for the specification of the vertebrate spinal cord. Development (Cambridge, England). 134(11):2147-2158

Wang, D., Jao, L.E., Zheng, N., Dolan, K., Ivey, J., Zonies, S., Wu, X., Wu, K., Yang, H., Meng, Q., Zhu, Z., Zhang, B., Lin, S., and Burgess, S.M. (2007) Efficient genome-wide mutagenesis of zebrafish genes by retroviral insertions. Proceedings of the National Academy of Sciences of the United States of America. 104(30):12428-12433

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

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

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

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

Holzschuh, J., Barrallo Gimeno, A., Ettl, A.K., Durr, K., Knapik, E.W., and Driever, W. (2003) Noradrenergic neurons in the zebrafish hindbrain are induced by retinoic acid and require tfap2a for expression of the neurotransmitter phenotype. Development (Cambridge, England). 130(23):5741-5754

Hauptmann, G., Belting, H.-G., Wolke, U., Lunde, K., Söll, I., Abdelilah-Seyfried, S., Prince, V., and Driever, W. (2002) spiel ohne grenzen/pou2 is required for zebrafish hindbrain segmentation. Development (Cambridge, England). 129(7):1645-1655

Moens, C.B. and Prince, V.E. (2002) Constructing the hindbrain: Insights from the zebrafish. Developmental Dynamics : an official publication of the American Association of Anatomists. 224(1):1-17

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

Prince, V.E., Joly, L., Ekker, M., and Ho, R.K. (1998) Zebrafish hox genes: genomic organization and modified colinear expression patterns in the trunk. Development (Cambridge, England). 125:407-420

Prince, V.E., Moens, C.B., Kimmel, C.B., and Ho, R.K. (1998) Zebrafish hox genes: expression in the hindbrain region of wild-type and mutants of the segmentation gene valentino. Development (Cambridge, England). 125:393-406

Misof, B.Y., Blanco, M.J., and Wagner, G.P. (1996) PCR-survey of hox-genes of the zebrafish: new sequence information and evolutionary implications. The Journal of experimental zoology. 274:193-206

Additional Citations (24):

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.

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.

Burgess, S., and Lin, S. (2012) Viral Insertion Mutants Overwrite Data. ZFIN Direct Data Submission.

Burgess, S., and Lin, S. (2011) Viral Insertion Mutants. 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.

Thisse, B., Thisse, C. (2004) Fast Release Clones: A High Throughput Expression Analysis. ZFIN Direct Data Submission.

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

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

ZFIN Staff (2003) Curation of unpublished nucleotide sequence accession numbers. 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.