The DOI matches its Crossref record; 6 of the 6 references it cites were found in a registry or an index.
The gain and loss of genes during 600 million years of vertebrate evolution
Open accessAbstract
Background: Gene duplication is assumed to have played a crucial role in the evolution of vertebrate organisms. Apart from a continuous mode of duplication, two or three whole genome duplication events have been proposed during the evolution of vertebrates, one or two at the dawn of vertebrate evolution, and an additional one in the fish lineage, not shared with land vertebrates. Here, we have studied gene gain and loss in seven different vertebrate genomes, spanning an evolutionary period of about 600 million years. Results: We show that: first, the majority of duplicated genes in extant vertebrate genomes are ancient and were created at times that coincide with proposed whole genome duplication events; second, there exist significant differences in gene retention for different functional categories of genes between fishes and land vertebrates; third, there seems to be a considerable bias in gene retention of regulatory genes towards the mode of gene duplication (whole genome duplication events compared to smaller-scale events), which is in accordance with the so-called gene balance hypothesis; and fourth, that ancient duplicates that have survived for many hundreds of millions of years can still be lost. Conclusion: Based on phylogenetic analyses, we show that both the mode of duplication and the functional class the duplicated genes belong to have been of major importance for the evolution of the vertebrates. In particular, we provide evidence that massive gene duplication (probably as a consequence of entire genome duplications) at the dawn of vertebrate evolution might have been particularly important for the evolution of complex vertebrates.
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Cites
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“A general overview of the mechanisms of gene duplication and retention can be found in [42,43].”
Background
Cited by
The evolutionary significance of ancient genome duplications
Van de Peer, Y., Maere, S., & Meyer, A. (2009) · Nature Reviews Genetics · doi:10.1038/nrg2600 · Cited by 1,129
Self-citationWhole-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
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Functional and evolutionary implications of gene orthology
Gabaldón, T., & Koonin, E. V. (2013) · Nature Reviews Genetics · doi:10.1038/nrg3456 · Cited by 643
Natural history and evolutionary principles of gene duplication in fungi
Wapinski, I., Pfeffer, A., Friedman, N., & Regev, A. (2007) · Nature · doi:10.1038/nature06107 · Cited by 614
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
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Emergence and evolution of the renin-angiotensin-aldosterone system
Fournier, D., Luft, F. C., Bader, M., Ganten, D., & Andrade-Navarro, M. A. (2012) · Journal of Molecular Medicine · doi:10.1007/s00109-012-0894-z · Cited by 165
Bias in phylogenetic tree reconciliation methods: implications for vertebrate genome evolution
Hahn, M. W. (2007) · Genome Biology · doi:10.1186/gb-2007-8-7-r141 · Cited by 138
Quantifying the mechanisms of domain gain in animal proteins
Buljan, M., Frankish, A., & Bateman, A. (2010) · Genome Biology · doi:10.1186/gb-2010-11-7-r74 · Cited by 112
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The rise and fall of TRP-N, an ancient family of mechanogated ion channels, in Metazoa
Schüler, A., Schmitz, G., Reft, A., Özbek, S., Thurm, U., & Bornberg-Bauer, E. (2015) · Genome Biology and Evolution · doi:10.1093/gbe/evv091 · Cited by 51
Rozenfeld, C., Blanca, J., Gallego, V., García-Carpintero, V., Herranz-Jusdado, J. G., Pérez, L., Asturiano, J. F., Cañizares, J., & Peñaranda, D. S. (2019) · PLOS ONE · doi:10.1371/journal.pone.0218085 · Cited by 28
Genomic signatures associated with the evolutionary loss of egg yolk in parasitoid wasps
Zhao, X., Liu, Y., Yuan, B., Cao, Z., Yang, Y., He, C., Chan, K. C., Xiao, S., Lin, H., Fang, Q., et al. (2025) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.2422292122 · Cited by 12
Metadata
- Authors
- Blomme, T., Vandepoele, K., De Bodt, S., Simillion, C., Maere, S., & Van de Peer, Y.
- Venue
- Genome Biology
- Published
- 2006-05-24
- Volume
- 7
- Issue
- 5
- Pages
- R43-R43
- ISSN
- 1465-6906 (ISSN-L)
- 1474-760X
- OpenAlex
- W2112780227
- Cited by
- 386
- References
- 6
- FWCI
- 41.05
- Type
- journal article
- Language
- en
- Open access
- gold
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