ArticleMolecular biology and evolution2015
Recent Evolution in Rattus norvegicus Is Shaped by Declining Effective Population Size.
Article in Molecular biology and evolution, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.
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Who cites it
31 citing papers in PubMed.
- Genomic insights into adaptive evolution of Island brown rats (Rattus norvegicus): evidence from Iturup Island in the Russian Far East.BMC ecology and evolution · 2025Article
- Article
- Genome analyses suggest recent speciation and postglacial isolation in the Norwegian lemming.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- The effectiveness of selection in a species affects the direction of amino acid frequency evolution.bioRxiv : the preprint server for biology · 2025Article
- Genomic and Phenotypic Adaptations of Rattus tanezumi to Cold Limit Its Further Northward Expansion and Range Overlap with R. norvegicus.Molecular biology and evolution · 2024Article
- Does Effective Population Size Govern Evolutionary Differences in Telomere Length?Genome biology and evolution · 2024Article
- Fatty acid metabolism decreased while sexual selection increased in brown rats spreading south.iScience · 2023Article
- Population structure, dispersion patterns and genetic diversity of two major invasive and commensal zoonotic disease hosts (Frontiers in genetics · 2023Article
- Comparative phylogeography of two commensal rat species (Ecology and evolution · 2022Article
- A Chromosome-Length Reference Genome for the Endangered Pacific Pocket Mouse Reveals Recent Inbreeding in a Historically Large Population.Genome biology and evolution · 2022Article
- Palaeogenomic analysis of black rat (Rattus rattus) reveals multiple European introductions associated with human economic history.Nature communications · 2022Article
- A Nearly Neutral Model of Molecular Signatures of Natural Selection after Change in Population Size.Genome biology and evolution · 2022Article
- Probing the genomic limits of de-extinction in the Christmas Island rat.Current biology : CB · 2022Article
- Molecular Evolution of Ecological Specialisation: Genomic Insights from the Diversification of Murine Rodents.Genome biology and evolution · 2021Article
- Demographic History and Genomic Response to Environmental Changes in a Rapid Radiation of Wild Rats.Molecular biology and evolution · 2021Article
- Population genomics reveal rapid genetic differentiation in a recently invasive population of Rattus norvegicus.Frontiers in zoology · 2021Article
- Genetic boundary and gene flow between 2 parapatric subspecies of brown rats.Current zoology · 2020Article
- Whole-genome resequencing reveals the pleistocene temporal dynamics ofEcology and evolution · 2020Article
- Facilitating Complex Trait Analysis via Reduced Complexity Crosses.Trends in genetics : TIG · 2020Review
- Article
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7 authors.
Funding
Abstract
The brown rat, Rattus norvegicus, is both a notorious pest and a frequently used model in biomedical research. By analyzing genome sequences of 12 wild-caught brown rats from their presumed ancestral range in NE China, along with the sequence of a black rat, Rattus rattus, we investigate the selective and demographic forces shaping variation in the genome. We estimate that the recent effective population size (Ne) of this species = [Formula: see text], based on silent site diversity. We compare patterns of diversity in these genomes with patterns in multiple genome sequences of the house mouse (Mus musculus castaneus), which has a much larger Ne. This reveals an important role for variation in the strength of genetic drift in mammalian genome evolution. By a Pairwise Sequentially Markovian Coalescent analysis of demographic history, we infer that there has been a recent population size bottleneck in wild rats, which we date to approximately 20,000 years ago. Consistent with this, wild rat populations have experienced an increased flux of mildly deleterious mutations, which segregate at higher frequencies in protein-coding genes and conserved noncoding elements. This leads to negative estimates of the rate of adaptive evolution (α) in proteins and conserved noncoding elements, a result which we discuss in relation to the strongly positive estimates observed in wild house mice. As a consequence of the population bottleneck, wild rats also show a markedly slower decay of linkage disequilibrium with physical distance than wild house mice.
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