ArticleProceedings of the National Academy of Sciences of the United States of America2007
Life-history traits drive the evolutionary rates of mammalian coding and noncoding genomic elements.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 51 papers.
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Who cites it
51 citing papers in PubMed.
- Diversification in small mammals is associated with climatic specialisation, whereas species accumulation reflects evolutionary time.Nature communications · 2026Article
- Evolutionary patterns of the mitochondrial control region in vertebrates: A large-scale comparative analysis.PloS one · 2026Article
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- Negative Selection inInternational journal of molecular sciences · 2025Article
- A mitochondria-specific mutational signature of aging: increased rate of A > G substitutions on the heavy strand.Nucleic acids research · 2022Article
- A Nearly Neutral Model of Molecular Signatures of Natural Selection after Change in Population Size.Genome biology and evolution · 2022Article
- Rates of Protein Evolution across the Marsupial Phylogeny: Heterogeneity and Link to Life-History Traits.Genome biology and evolution · 2022Article
- Origins and evolution of extreme life span in Pacific Ocean rockfishes.Science (New York, N.Y.) · 2021Article
- Long-Lived Species of Bivalves Exhibit Low MT-DNA Substitution Rates.Frontiers in molecular biosciences · 2021Article
- Article
- From Inquilines to Gall Inducers: Genomic Signature of a Life-Style Transition in Synergus Gall Wasps.Genome biology and evolution · 2020Article
- Excessive Parallelism in Protein Evolution of Lake Baikal Amphipod Species Flock.Genome biology and evolution · 2020Article
- Vulnerability to Fishing and Life History Traits Correlate with the Load of Deleterious Mutations in Teleosts.Molecular biology and evolution · 2020Article
- Article
- Many human RNA viruses show extraordinarily stringent selective constraints on protein evolution.Proceedings of the National Academy of Sciences of the United States of America · 2019Article
- GC-biased gene conversion conceals the prediction of the nearly neutral theory in avian genomes.Genome biology · 2019Article
- The insulin-like growth factor 2 gene in mammals: Organizational complexity within a conserved locus.PloS one · 2019Article
- Evolution of Genomic Base Composition: From Single Cell Microbes to Multicellular Animals.Computational and structural biotechnology journal · 2019Review
- Prevalence of loss-of-function alleles does not correlate with lifetime fecundity and other life-history traits in metazoans.Biology direct · 2018Article
- Darwinism for the Genomic Age: Connecting Mutation to Diversification.Frontiers in genetics · 2017Article
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7 authors.
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Abstract
A comprehensive phylogenetic framework is indispensable for investigating the evolution of genomic features in mammals as a whole, and particularly in humans. Using the ENCODE sequence data, we estimated mammalian neutral evolutionary rates and selective pressures acting on conserved coding and noncoding elements. We show that neutral evolutionary rates can be explained by the generation time (GT) hypothesis. Accordingly, primates (especially humans), having longer GTs than other mammals, display slower rates of neutral evolution. The evolution of constrained elements, particularly of nonsynonymous sites, is in agreement with the expectations of the nearly neutral theory of molecular evolution. We show that rates of nonsynonymous substitutions (dN) depend on the population size of a species. The results are robust to the exclusion of hypermutable CpG prone sites. The average rate of evolution in conserved noncoding sequences (CNCs) is 1.7 times higher than in nonsynonymous sites. Despite this, CNCs evolve at similar or even lower rates than nonsynonymous sites in the majority of basal branches of the eutherian tree. This observation could be the result of an overall gradual or, alternatively, lineage-specific relaxation of CNCs. The latter hypothesis was supported by the finding that 3 of the 20 longest CNCs displayed significant relaxation of individual branches. This observation may explain why the evolution of CNCs fits the expectations of the nearly neutral theory less well than the evolution of nonsynonymous sites.
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