ZFIN

ZFIN ID: ZDB-GENE-990415-119

ZFIN ID: ZDB-GENE-990415-119

CITATIONS (66 total)

Gene Name:	homeobox D13a
Gene Symbol:	hoxd13a

Cumplido, N., Arratia, G., Desvignes, T., Muñoz-Sánchez, S., Postlethwait, J.H., Allende, M.L. (2024) Hox genes control homocercal caudal fin development and evolution. Science advances. 10:eadj5991

Ishizaka, M., Maeno, A., Nakazawa, H., Fujii, R., Oikawa, S., Tani, T., Kanno, H., Koita, R., Kawamura, A. (2024) The functional roles of zebrafish HoxA- and HoxD-related clusters in the pectoral fin development. Scientific Reports. 14:2360223602

Tanaka, Y., Okayama, S., Urakawa, K., Kudoh, H., Ansai, S., Abe, G., Tamura, K. (2024) Fin elaboration via anterior-posterior constraint by hhip on Hedgehog signaling in teleosts. Development (Cambridge, England). 151(22):

Cadete, F., Francisco, M., Freitas, R. (2023) Bmp-signaling and the finfold size in zebrafish: implications for the fin-to-limb transition. Evolution; international journal of organic evolution. 77(5):1262-1271

Sundaramoorthi, H., Fallatah, W., Mary, J., Jagadeeswaran, P. (2023) Discovery of seven hox genes in zebrafish thrombopoiesis. Blood cells, molecules & diseases. 104:102796102796

Weiss, J.M., Hunter, M.V., Cruz, N.M., Baggiolini, A., Tagore, M., Ma, Y., Misale, S., Marasco, M., Simon-Vermot, T., Campbell, N.R., Newell, F., Wilmott, J.S., Johansson, P.A., Thompson, J.F., Long, G.V., Pearson, J.V., Mann, G.J., Scolyer, R.A., Waddell, N., Montal, E.D., Huang, T.H., Jonsson, P., Donoghue, M.T.A., Harris, C.C., Taylor, B.S., Xu, T., Chaligné, R., Shliaha, P.V., Hendrickson, R., Jungbluth, A.A., Lezcano, C., Koche, R., Studer, L., Ariyan, C.E., Solit, D.B., Wolchok, J.D., Merghoub, T., Rosen, N., Hayward, N.K., White, R.M. (2022) Anatomic position determines oncogenic specificity in melanoma. Nature. 604(7905):354-361

Castro, J., Beviano, V., Paço, A., Leitão-Castro, J., Cadete, F., Francisco, M., Freitas, R. (2021) Hoxd13/Bmp2-mediated mechanism involved in zebrafish finfold design. Scientific Reports. 11:7165

Franke, M., De la Calle-Mustienes, E., Neto, A., Almuedo-Castillo, M., Irastorza-Azcarate, I., Acemel, R.D., Tena, J.J., Santos-Pereira, J.M., Gómez-Skarmeta, J.L. (2021) CTCF knockout in zebrafish induces alterations in regulatory landscapes and developmental gene expression. Nature communications. 12:5415

Matharu, N.K., Yadav, S., Kumar, M., Mishra, R.K. (2021) Role of vertebrate GAGA associated factor (vGAF) in early development of zebrafish. Cells & development. 166:203682

Sun, L., Cao, Y., Kong, Q., Huang, X., Yu, Z., Sun, D., Ren, W., Yang, G., Xu, S. (2021) Over-expression of the bottlenose dolphin Hoxd13 gene in zebrafish provides new insights into the cetacean flipper formation. Genomics. 113(5):2925-2933

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):

Silic, M.R., Wu, Q., Kim, B.H., Golling, G., Chen, K.H., Freitas, R., Chubykin, A.A., Mittal, S.K., Zhang, G. (2020) Potassium Channel-Associated Bioelectricity of the Dermomyotome Determines Fin Patterning in Zebrafish. Genetics. 215(4):1067-1084

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

Lalonde, R.L., Akimenko, M.A. (2018) Effects of fin fold mesenchyme ablation on fin development in zebrafish. PLoS One. 13:e0192500

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

Schüttler, A., Reiche, K., Altenburger, R., Busch, W. (2017) The transcriptome of the zebrafish embryo after chemical exposure - a meta-analysis. Toxicological sciences : an official journal of the Society of Toxicology. 157(2):291-304

Jimenez, L., Wang, J., Morrison, M.A., Whatcott, C., Soh, K.K., Warner, S., Bearss, D., Jette, C.A., Stewart, R.A. (2016) Phenotypic chemical screening using zebrafish neural crest reporters identifies retinoid acid as an inhibitor of epithelial morphogenesis. Disease models & mechanisms. 9(4):389-400

Nakamura, T., Gehrke, A.R., Lemberg, J., Szymaszek, J., Shubin, N.H. (2016) Digits and fin rays share common developmental histories. Nature. 537(7619):225-228

Gehrke, A.R., Schneider, I., de la Calle-Mustienes, E., Tena, J.J., Gomez-Marin, C., Chandran, M., Nakamura, T., Braasch, I., Postlethwait, J.H., Gómez-Skarmeta, J.L., Shubin, N.H. (2015) Deep conservation of wrist and digit enhancers in fish. Proceedings of the National Academy of Sciences of the United States of America. 112(3):803-8

Hayward, A.G., Joshi, P., Skromne, I. (2015) Spatiotemporal analysis of zebrafish hox gene regulation by Cdx4. Developmental Dynamics : an official publication of the American Association of Anatomists. 244(12):1564-73

Stark, B.C., Cooper, J.A. (2015) Differential expression of CARMIL-family genes during zebrafish development. Cytoskeleton (Hoboken, N.J.). 72(10):534-41

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

Mehta, T.K., Ravi, V., Yamasaki, S., Lee, A.P., Lian, M.M., Tay, B.H., Tohari, S., Yanai, S., Tay, A., Brenner, S., and Venkatesh, B. (2013) Evidence for at least six Hox clusters in the Japanese lamprey (Lethenteron japonicum). Proceedings of the National Academy of Sciences of the United States of America. 110(40):16044-16049

Nachtrab, G., Kikuchi, K., Tornini, V.A., and Poss, K.D. (2013) Transcriptional components of anteroposterior positional information during zebrafish fin regeneration. Development (Cambridge, England). 140(18):3754-3764

Warga, R.M., Mueller, R.L., Ho, R.K., and Kane, D.A. (2013) Zebrafish Tbx16 regulates intermediate mesoderm cell fate by attenuating Fgf activity. Developmental Biology. 383(1):75-89

Crow, K.D., Smith, C.D., Cheng, J.F., Wagner, G.P., and Amemiya, C.T. (2012) An Independent Genome Duplication Inferred from Hox Paralogs in the American Paddlefish—A Representative Basal Ray-Finned Fish and Important Comparative Reference. Genome biology and evolution. 4(9):937-953

Freitas, R., Gómez-Marín, C., Wilson, J.M., Casares, F., and Gómez-Skarmeta, J.L. (2012) Hoxd13 contribution to the evolution of vertebrate appendages. Developmental Cell. 23(6):1219-1229

Rai, K., Sarkar, S., Broadbent, T.J., Voas, M., Grossmann, K.F., Nadauld, L.D., Dehghanizadeh, S., Hagos, F.T., Li, Y., Toth, R.K., Chidester, S., Bahr, T.M., Johnson, W.E., Sklow, B., Burt, R., Cairns, B.R., and Jones, D.A. (2010) DNA demethylase activity maintains intestinal cells in an undifferentiated state following loss of APC. Cell. 142(6):930-942

Zhang, J., Wagh, P., Guay, D., Sanchez-Pulido, L., Padhi, B.K., Korzh, V., Andrade-Navarro, M.A., and Akimenko, M.A. (2010) Loss of fish actinotrichia proteins and the fin-to-limb transition. Nature. 466(7303):234-237

Sakamoto, K., Onimaru, K., Munakata, K., Suda, N., Tamura, M., Ochi, H., and Tanaka, M. (2009) Heterochronic shift in Hox-mediated activation of sonic hedgehog leads to morphological changes during fin development. PLoS One. 4(4):e5121

Ahn, D., and Ho, R.K. (2008) Tri-phasic expression of posterior Hox genes during development of pectoral fins in zebrafish: Implications for the evolution of vertebrate paired appendages. Developmental Biology. 322(1):220-233

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

Pyati, U.J., Cooper, M.S., Davidson, A.J., Nechiporuk, A., and Kimelman, D. (2006) Sustained Bmp signaling is essential for cloaca development in zebrafish. Development (Cambridge, England). 133(11):2275-2284

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

Fischer, S., Draper, B.W., and Neumann, C.J. (2003) The zebrafish fgf24 mutant identifies an additional level of Fgf signaling involved in vertebrate forelimb initiation. Development (Cambridge, England). 130(15):3515-3524

Lavoie, H., Debeane, F., Trinh, Q.D., Turcotte, J.F., Corbeil-Girard, L.P., Dicaire, M.J., Saint-Denis, A., Page, M., Rouleau, G.A., and Brais, B. (2003) Polymorphism, shared functions and convergent evolution of genes with sequences coding for polyalanine domains. Human molecular genetics. 12(22):2967-2979

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

Grandel, H., Draper, B.W., and Schulte-Merker, S. (2000) dackel acts in the ectoderm of the zebrafish pectoral fin bud to maintain AER signaling. Development (Cambridge, England). 127(19):4169-4178

Neumann, C.J., Grandel, H., Gaffield, W., Schulte-Merker, S., Nüsslein-Volhard, C. (1999) Transient establishment of anteroposterior polarity in the zebrafish pectoral fin bud in the absence of sonic hedgehog activity. Development (Cambridge, England). 126(21):4817-4826

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

Sordino, P., Duboule, D., and Kondo, T. (1996) Zebrafish Hoxa and Evx-2 genes: cloning, developmental expression, and implications for the functional evolution of posterior Hox genes. Mechanisms of Development. 59(2):165-175

van der, Hoeven, F., Sordino, P., Fraudeau, N., Izpisúa Belmonte, J.C., and Duboule, D. (1996) Teleost HoxD and HoxA genes: comparison with tetrapods and functional evolution of the HOXD complex. Mechanisms of Development. 54(1):9-21

Sordino, P., van der Hoeven, F., and Duboule, D. (1995) Hox gene expression in teleost fins and the origin of vertebrate digits. Nature. 375:678-681

Additional Citations (21):

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

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

Zebrafish Nomenclature Committee (2021) Nomenclature Data Curation (2021). Nomenclature Committee 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.

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.

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, C., and Thisse, B. (2005) High Throughput Expression Analysis of ZF-Models Consortium Clones. ZFIN Direct 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 (2003) Computational Sequence to Gene Association in ZFIN. Semi-automated Curation.

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