The DOI matches its Crossref record; 12 of the 12 references it cites were found in a registry or an index.
The Evolution of Mammalian Gene Families
Open accessAbstract
Gene families are groups of homologous genes that are likely to have highly similar functions. Differences in family size due to lineage-specific gene duplication and gene loss may provide clues to the evolutionary forces that have shaped mammalian genomes. Here we analyze the gene families contained within the whole genomes of human, chimpanzee, mouse, rat, and dog. In total we find that more than half of the 9,990 families present in the mammalian common ancestor have either expanded or contracted along at least one lineage. Additionally, we find that a large number of families are completely lost from one or more mammalian genomes, and a similar number of gene families have arisen subsequent to the mammalian common ancestor. Along the lineage leading to modern humans we infer the gain of 689 genes and the loss of 86 genes since the split from chimpanzees, including changes likely driven by adaptive natural selection. Our results imply that humans and chimpanzees differ by at least 6% (1,418 of 22,000 genes) in their complement of genes, which stands in stark contrast to the oft-cited 1.5% difference between orthologous nucleotide sequences. This genomic "revolving door" of gene gain and loss represents a large number of genetic differences separating humans from our closest relatives.
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Cites
Initial sequencing and comparative analysis of the mouse genome
Mouse Genome Sequencing Consortium (2002) · Nature · doi:10.1038/nature01262 · Cited by 7,187
The Evolutionary Fate and Consequences of Duplicate Genes
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A novel multigene family may encode odorant receptors: A molecular basis for odor recognition
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Genome sequence, comparative analysis and haplotype structure of the domestic dog
members, B. S. P., Lindblad-Toh, K., Wade, C. M., Mikkelsen, T. S., Karlsson, E. K., Jaffe, D. B., Kamal, M., Clamp, M., Chang, J. L., Kulbokas, E. J., et al. (2005) · Nature · doi:10.1038/nature04338 · Cited by 2,568
Initial sequence of the chimpanzee genome and comparison with the human genome
The Chimpanzee Sequencing and Analysis Consortium (2005) · Nature · doi:10.1038/nature04072 · Cited by 2,459
CAFE: a computational tool for the study of gene family evolution
De Bie, T., Cristianini, N., Demuth, J. P., & Hahn, M. W. (2006) · Bioinformatics · doi:10.1093/bioinformatics/btl097 · Cited by 1,790
Self-citationThe origin of new genes: Glimpses from the young and old
Long, M., Betrán, E., Thornton, K., & Wang, W. (2003) · Nature Reviews Genetics · doi:10.1038/nrg1204 · Cited by 933
Evolution at Two Levels: On Genes and Form
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When Less Is More: Gene Loss as an Engine of Evolutionary Change
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Li, R., Fan, W., Tian, G., Zhu, H., He, L., Cai, J., Huang, Q., Cai, Q., Li, B., Bai, Y., et al. (2010) · Nature · doi:10.1038/nature08696 · Cited by 1,180
The Arabidopsis lyrata genome sequence and the basis of rapid genome size change
Hu, T. T., Pattyn, P., Bakker, E. G., Cao, J., Cheng, J.-F., Clark, R. M., Fahlgren, N., Fawcett, J. A., Grimwood, J., Gundlach, H., et al. (2011) · Nature Genetics · doi:10.1038/ng.807 · Cited by 872
Albalat, R., & Cañestro, C. (2016) · Nature Reviews Genetics · doi:10.1038/nrg.2016.39 · Cited by 775
CAFE 5 models variation in evolutionary rates among gene families
Mendes, F. K., Vanderpool, D., Fulton, B., & Hahn, M. W. (2021) · Bioinformatics · doi:10.1093/bioinformatics/btaa1022 · Cited by 833
Self-citationDistinguishing Among Evolutionary Models for the Maintenance of Gene Duplicates
Hahn, M. W. (2009) · Journal of Heredity · doi:10.1093/jhered/esp047 · Cited by 414
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Metadata
- Authors
- Demuth, J. P., Bie, T. D., Stajich, J. E., Cristianini, N., & Hahn, M. W.
- Venue
- PLoS ONE
- Publisher
- Public Library of Science (PLoS)
- Published
- 2006-12-20
- Volume
- 1
- Issue
- 1
- Pages
- e85
- ISSN
- 1932-6203 (ISSN-L)
- OpenAlex
- W2041624900
- Cited by
- 373
- References
- 12
- FWCI
- 31.37
- Type
- journal article
- Language
- en
- Open access
- gold
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