Cargando…
Weak Correlation between Nucleotide Variation and Recombination Rate across the House Mouse Genome
Positive selection and purifying selection reduce levels of variation at linked neutral loci. One consequence of these processes is that the amount of neutral diversity and the meiotic recombination rate are predicted to be positively correlated across the genome—a prediction met in some species but...
Autores principales: | , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2020
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7186785/ https://www.ncbi.nlm.nih.gov/pubmed/32108880 http://dx.doi.org/10.1093/gbe/evaa045 |
_version_ | 1783527028803239936 |
---|---|
author | Kartje, Michael E Jing, Peicheng Payseur, Bret A |
author_facet | Kartje, Michael E Jing, Peicheng Payseur, Bret A |
author_sort | Kartje, Michael E |
collection | PubMed |
description | Positive selection and purifying selection reduce levels of variation at linked neutral loci. One consequence of these processes is that the amount of neutral diversity and the meiotic recombination rate are predicted to be positively correlated across the genome—a prediction met in some species but not others. To better document the prevalence of selection at linked sites, we used new and published whole-genome sequences to survey nucleotide variation in population samples of the western European house mouse (Mus musculus domesticus) from Germany, France, and Gough Island, a remote volcanic island in the south Atlantic. Correlations between sequence variation and recombination rates estimated independently from dense linkage maps were consistently very weak (ρ ≤ 0.06), though they exceeded conventional significance thresholds. This pattern persisted in comparisons between genomic regions with the highest and lowest recombination rates, as well as in models incorporating the density of transcribed sites, the density of CpG dinucleotides, and divergence between mouse and rat as covariates. We conclude that natural selection affects linked neutral variation in a restricted manner in the western European house mouse. |
format | Online Article Text |
id | pubmed-7186785 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-71867852020-05-01 Weak Correlation between Nucleotide Variation and Recombination Rate across the House Mouse Genome Kartje, Michael E Jing, Peicheng Payseur, Bret A Genome Biol Evol Letter Positive selection and purifying selection reduce levels of variation at linked neutral loci. One consequence of these processes is that the amount of neutral diversity and the meiotic recombination rate are predicted to be positively correlated across the genome—a prediction met in some species but not others. To better document the prevalence of selection at linked sites, we used new and published whole-genome sequences to survey nucleotide variation in population samples of the western European house mouse (Mus musculus domesticus) from Germany, France, and Gough Island, a remote volcanic island in the south Atlantic. Correlations between sequence variation and recombination rates estimated independently from dense linkage maps were consistently very weak (ρ ≤ 0.06), though they exceeded conventional significance thresholds. This pattern persisted in comparisons between genomic regions with the highest and lowest recombination rates, as well as in models incorporating the density of transcribed sites, the density of CpG dinucleotides, and divergence between mouse and rat as covariates. We conclude that natural selection affects linked neutral variation in a restricted manner in the western European house mouse. Oxford University Press 2020-02-28 /pmc/articles/PMC7186785/ /pubmed/32108880 http://dx.doi.org/10.1093/gbe/evaa045 Text en © The Author(s) 2020. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution. http://creativecommons.org/licenses/by/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Letter Kartje, Michael E Jing, Peicheng Payseur, Bret A Weak Correlation between Nucleotide Variation and Recombination Rate across the House Mouse Genome |
title | Weak Correlation between Nucleotide Variation and Recombination Rate across the House Mouse Genome |
title_full | Weak Correlation between Nucleotide Variation and Recombination Rate across the House Mouse Genome |
title_fullStr | Weak Correlation between Nucleotide Variation and Recombination Rate across the House Mouse Genome |
title_full_unstemmed | Weak Correlation between Nucleotide Variation and Recombination Rate across the House Mouse Genome |
title_short | Weak Correlation between Nucleotide Variation and Recombination Rate across the House Mouse Genome |
title_sort | weak correlation between nucleotide variation and recombination rate across the house mouse genome |
topic | Letter |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7186785/ https://www.ncbi.nlm.nih.gov/pubmed/32108880 http://dx.doi.org/10.1093/gbe/evaa045 |
work_keys_str_mv | AT kartjemichaele weakcorrelationbetweennucleotidevariationandrecombinationrateacrossthehousemousegenome AT jingpeicheng weakcorrelationbetweennucleotidevariationandrecombinationrateacrossthehousemousegenome AT payseurbreta weakcorrelationbetweennucleotidevariationandrecombinationrateacrossthehousemousegenome |