The DOI matches its Crossref record.
Zebrafish hox Clusters and Vertebrate Genome Evolution
Abstract
HOX genes specify cell fate in the anterior-posterior axis of animal embryos. Invertebrate chordates have one HOX cluster, but mammals have four, suggesting that cluster duplication facilitated the evolution of vertebrate body plans. This report shows that zebrafish have seven hox clusters. Phylogenetic analysis and genetic mapping suggest a chromosome doubling event, probably by whole genome duplication, after the divergence of ray-finned and lobe-finned fishes but before the teleost radiation. Thus, teleosts, the most species-rich group of vertebrates, appear to have more copies of these developmental regulatory genes than do mammals, despite less complexity in the anterior-posterior axis.
Overview
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Verification
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Citations
Cited by
The Evolutionary Fate and Consequences of Duplicate Genes
Lynch, M., & Conery, J. S. (2000) · Science · doi:10.1126/science.290.5494.1151 · Cited by 4,988
Preservation of Duplicate Genes by Complementary, Degenerative Mutations
Force, A., Lynch, M., Pickett, F. B., Amores, A., Yan, Y.-L., & Postlethwait, J. (1999) · Genetics · doi:10.1093/genetics/151.4.1531 · Cited by 3,529
Self-citationPolyploid incidence and evolution
Otto, S. P., & Whitton, J. (2000) · Annual Review of Genetics · doi:10.1146/annurev.genet.34.1.401 · Cited by 2,363
Jaillon, O., Aury, J.-M., Brunet, F., Petit, J.-L., Stange-Thomann, N., Mauceli, E., Bouneau, L., Fischer, C., Ozouf-Costaz, C., Bernot, A., et al. (2004) · Nature · doi:10.1038/nature03025 · Cited by 1,966
Whole-Genome Shotgun Assembly and Analysis of the Genome of Fugu rubripes
Aparicio, S., Chapman, J., Stupka, E., Putnam, N., Chia, J.-M., Dehal, P., Christoffels, A., Rash, S., Hoon, S., Smit, A., et al. (2002) · Science · doi:10.1126/science.1072104 · Cited by 1,591
Efficient multiplex biallelic zebrafish genome editing using a CRISPR nuclease system
Jao, L.-E., Wente, S. R., & Chen, W. (2013) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1308335110 · Cited by 1,311
Whole-genome duplication in teleost fishes and its evolutionary consequences
Glasauer, S. M. K., & Neuhauss, S. C. F. (2014) · Molecular Genetics and Genomics · doi:10.1007/s00438-014-0889-2 · Cited by 877
Lister, J. A., Robertson, C. P., Lepage, T., Johnson, S. L., & Raible, D. W. (1999) · Development · doi:10.1242/dev.126.17.3757 · Cited by 819
Zebrafish Comparative Genomics and the Origins of Vertebrate Chromosomes
Postlethwait, J. H., Woods, I. G., Ngo-Hazelett, P., Yan, Y.-L., Kelly, P. D., Chu, F., Huang, H., Hill-Force, A., & Talbot, W. S. (2000) · Genome Research · doi:10.1101/gr.164800 · Cited by 688
Self-citationPierpont, M. E., Brueckner, M., Chung, W. K., Garg, V., Lacro, R. V., McGuire, A. L., Mital, S., Priest, J. R., Pu, W. T., Roberts, A., et al. (2018) · Circulation · doi:10.1161/cir.0000000000000606 · Cited by 654
Aryl hydrocarbon receptors: diversity and evolution
Hahn, M. E. (2002) · Chemico-Biological Interactions · doi:10.1016/s0009-2797(02)00070-4 · Cited by 642
The rise and fall of Hox gene clusters
Duboule, D. (2007) · Development · doi:10.1242/dev.001065 · Cited by 525
Parichy, D. M., Ransom, D. G., Paw, B., Zon, L. I., & Johnson, S. L. (2000) · Development · doi:10.1242/dev.127.14.3031 · Cited by 384
Retinoic acid signaling is required for a critical early step in zebrafish pancreatic development
Stafford, D., & Prince, V. E. (2002) · Current Biology · doi:10.1016/s0960-9822(02)00929-6 · Cited by 309
Self-citationAanes, H., Winata, C. L., Lin, C. H., Chen, J. P., Srinivasan, K. G., Lee, S. G. P., Lim, A. Y. M., Hajan, H. S., Collas, P., Bourque, G., et al. (2011) · Genome Research · doi:10.1101/gr.116012.110 · Cited by 285
Parichy, D. M., Mellgren, E. M., Rawls, J. F., Lopes, S. S., Kelsh, R. N., & Johnson, S. L. (2000) · Developmental Biology · doi:10.1006/dbio.2000.9899 · Cited by 230
Robertson, F. M., Gundappa, M. K., Grammes, F., Hvidsten, T. R., Redmond, A. K., Lien, S., Martin, S. A. M., Holland, P. W. H., Sandve, S. R., & Macqueen, D. J. (2017) · Genome Biology · doi:10.1186/s13059-017-1241-z · Cited by 212
Chromosome evolution at the origin of the ancestral vertebrate genome
Sacerdot, C., Louis, A., Bon, C., Berthelot, C., & Roest Crollius, H. (2018) · Genome Biology · doi:10.1186/s13059-018-1559-1 · Cited by 206
lockjaw encodes a zebrafish tfap2a required for early neural crest development
Knight, R. D., Nair, S., Nelson, S. S., Afshar, A., Javidan, Y., Geisler, R., Rauch, G.-J., & Schilling, T. F. (2003) · Development · doi:10.1242/dev.00575 · Cited by 186
Iodothyronine deiodinase structure and function: from ascidians to humans
Darras, V. M., & Van Herck, S. L. J. (2012) · Journal of Endocrinology · doi:10.1530/joe-12-0204 · Cited by 162
Hox cluster duplications and the opportunity for evolutionary novelties
Wagner, G. P., Amemiya, C., & Ruddle, F. (2003) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.2536656100 · Cited by 157
Self-citationHahn, M. E., Karchner, S. I., Evans, B. R., Franks, D. G., Merson, R. R., & Lapseritis, J. M. (2006) · Journal of Experimental Zoology Part A: Comparative Experimental Biology · doi:10.1002/jez.a.323 · Cited by 153
Genome-size evolution in fishes
Hardie, D. C., & Hebert, P. D. (2004) · Canadian Journal of Fisheries and Aquatic Sciences · doi:10.1139/f04-106 · Cited by 155
Chapter 8 Hox Genes and Segmentation of the Vertebrate Hindbrain
Tümpel, S., Wiedemann, L. M., & Krumlauf, R. (2009) · Current Topics in Developmental Biology · doi:10.1016/s0070-2153(09)88004-6 · Cited by 150
The role of primary cilia in the development and disease of the retina
Wheway, G., Parry, D. A., & Johnson, C. A. (2014) · Organogenesis · doi:10.4161/org.26710 · Cited by 152
Genome-Wide Survey and Developmental Expression Mapping of Zebrafish SET Domain-Containing Genes
Sun, X.-J., Xu, P.-F., Zhou, T., Hu, M., Fu, C.-T., Zhang, Y., Jin, Y., Chen, Y., Chen, S.-J., Huang, Q.-H., et al. (2008) · PLoS ONE · doi:10.1371/journal.pone.0001499 · Cited by 127
A new model army: Emerging fish models to study the genomics of vertebrate Evo-Devo.
Braasch, I., Peterson, S. M., Desvignes, T., McCluskey, B. M., Batzel, P., & Postlethwait, J. H. (2015) · Journal of Experimental Zoology Part B: Molecular and Developmental Evolution · doi:10.1002/jez.b.22589 · Cited by 122
Self-citationConvergent evolution of complex regulatory landscapes and pleiotropy at Hox loci
Lonfat, N., Montavon, T., Darbellay, F., Gitto, S., & Duboule, D. (2014) · Science · doi:10.1126/science.1257493 · Cited by 113
Reconstruction of a 450-My-old ancestral vertebrate protokaryotype
KOHN, M., HOGEL, J., VOGEL, W., MINICH, P., KEHRERSAWATZKI, H., GRAVES, J., & HAMEISTER, H. (2006) · Trends in Genetics · doi:10.1016/j.tig.2006.02.008 · Cited by 99
Whole-Genome Duplication and the Functional Diversification of Teleost Fish Hemoglobins
Opazo, J. C., Butts, G. T., Nery, M. F., Storz, J. F., & Hoffmann, F. G. (2013) · Molecular Biology and Evolution · doi:10.1093/molbev/mss212 · Cited by 98
Teleost fish with specific genome duplication as unique models of vertebrate evolution
Sato, Y., & Nishida, M. (2010) · Environmental Biology of Fishes · doi:10.1007/s10641-010-9628-7 · Cited by 94
The cryptochrome/photolyase family in aquatic organisms
Oliveri, P., Fortunato, A. E., Petrone, L., Ishikawa-Fujiwara, T., Kobayashi, Y., Todo, T., Antonova, O., Arboleda, E., Zantke, J., Tessmar-Raible, K., et al. (2014) · Marine Genomics · doi:10.1016/j.margen.2014.02.001 · Cited by 90
The Nuremberg Code subverts human health and safety by requiring animal modeling
Greek, R., Pippus, A., & Hansen, L. A. (2012) · BMC Medical Ethics · doi:10.1186/1472-6939-13-16 · Cited by 78
Granneman, J. G., Kimler, V. A., Zhang, H., Ye, X., Luo, X., Postlethwait, J. H., & Thummel, R. (2017) · eLife · doi:10.7554/elife.21771 · Cited by 77
Self-citationGene duplication and functional divergence of the zebrafish insulin-like growth factor 1 receptors
Schlueter, P. J., Royer, T., Farah, M. H., Laser, B., Chan, S. J., Steiner, D. F., Duan, C., Schlueter, P. J., Royer, T., Farah, M. H., et al. (2006) · The FASEB Journal · doi:10.1096/fj.05-3882fje · Cited by 71
Early developmental expression of two insulins in zebrafish (Danio rerio)
Papasani, M. R., Robison, B. D., Hardy, R. W., & Hill, R. A. (2006) · Physiological Genomics · doi:10.1152/physiolgenomics.00012.2006 · Cited by 66
Functional assessment of human coding mutations affecting skin pigmentation using zebrafish
Tsetskhladze, Z. R., Canfield, V. A., Ang, K. C., Wentzel, S. M., Reid, K. P., Berg, A. S., Johnson, S. L., Kawakami, K., & Cheng, K. C. (2012) · PLoS ONE · doi:10.1371/journal.pone.0047398 · Cited by 63
Tight Junction Protein 1a regulates pigment cell organisation during zebrafish colour patterning
Fadeev, A., Krauss, J., Frohnhöfer, H. G., Irion, U., & Nüsslein-Volhard, C. (2015) · eLife · doi:10.7554/elife.06545 · Cited by 60
Collery, R., McLoughlin, S., Vendrell, V., Finnegan, J., Crabb, J. W., Saari, J. C., & Kennedy, B. N. (2008) · Investigative Opthalmology & Visual Science · doi:10.1167/iovs.08-1957 · Cited by 56
Evolution of Endothelin signaling and diversification of adult pigment pattern in Danio fishes
Spiewak, J. E., Bain, E. J., Liu, J., Kou, K., Sturiale, S. L., Patterson, L. B., Diba, P., Eisen, J. S., Braasch, I., Ganz, J., et al. (2018) · PLOS Genetics · doi:10.1371/journal.pgen.1007538 · Cited by 58
Tallafuss, A., Hale, L. A., Yan, Y.-L., Dudley, L., Eisen, J. S., & Postlethwait, J. H. (2006) · Gene Expression Patterns · doi:10.1016/j.modgep.2005.10.005 · Cited by 55
Self-citationDresner, E., Malishkevich, A., Arviv, C., Leibman Barak, S., Alon, S., Ofir, R., Gothilf, Y., & Gozes, I. (2012) · Journal of Biological Chemistry · doi:10.1074/jbc.m112.387027 · Cited by 47
The evolution of complex brains and behaviors in African cichlid fishes
Shumway, C. A. (2010) · Current Zoology · doi:10.1093/czoolo/56.1.144 · Cited by 46
Martin, K. J., & Holland, P. W. H. (2014) · Molecular Biology and Evolution · doi:10.1093/molbev/msu202 · Cited by 46
Moise, A. R., Isken, A., Domínguez, M., de Lera, A. R., von Lintig, J., & Palczewski, K. (2007) · Biochemistry · doi:10.1021/bi062147u · Cited by 45
Lane, B. M., & Lister, J. A. (2012) · PLoS ONE · doi:10.1371/journal.pone.0049357 · Cited by 40
Samarut, E., Amal, I., Markov, G. V., Stote, R., Dejaegere, A., Laudet, V., & Rochette-Egly, C. (2011) · Molecular Biology and Evolution · doi:10.1093/molbev/msr035 · Cited by 26
Tissue-specific and embryonic expression of the retinoid X receptors in Sebastiscus marmoratus
He, C., Wang, C., Li, B., Xie, F., Chen, Y., & Zuo, Z. (2009) · Comparative Biochemistry and Physiology Part B: Biochemistry and Molecular Biology · doi:10.1016/j.cbpb.2009.06.006 · Cited by 16
Evolution and phylogenetic distribution of endo -α-mannosidase
Sobala, Ł. F. (2023) · Glycobiology · doi:10.1093/glycob/cwad041 · Cited by 5
Genomic and genetic insights into speciation and pigment pattern diversification in Danio fishes
Lu, J., Podobnik, M., Huang, J., McCluskey, B. M., McCarthy, S. A., Wood, J., Collins, J., Torrance, J., Sims, Y., Gao, D., et al. (2025) · doi:10.1101/2025.10.17.682988 · Cited by 4
Self-citationZebrafish relatives as models for functional comparative genetics and genomics
Podobnik, M., Lu, Y., Irion, U., & Currie, P. D. (2026) · Nature Reviews Genetics · doi:10.1038/s41576-026-01007-4 · Cited by 1
Metadata
- Authors
- Amores, A., Force, A., Yan, Y.-L., Joly, L., Amemiya, C., Fritz, A., Ho, R. K., Langeland, J., Prince, V., Wang, Y.-L., Westerfield, M., Ekker, M., & Postlethwait, J. H.
- Venue
- Science
- Published
- 1998-11-27
- Volume
- 282
- Issue
- 5394
- Pages
- 1711-1714
- ISSN
- 0036-8075 (ISSN-L)
- 1095-9203
- OpenAlex
- W2120960764
- Cited by
- 1,736
- References
- 0
- FWCI
- 92.80
- Type
- journal article
- Language
- en
- Open access
- closed
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
Data sources
Bibliographic data: Semantic Scholar, OpenAlex, Crossref.
Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.
