Influence of Effective Population Size on Genes under Varying Levels of Selection Pressure

Sankar Subramanian

doi:10.1093/gbe/evy047

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Influence of Effective Population Size on Genes under Varying Levels of Selection Pressure

Journal article

Open access

Peer reviewed

Influence of Effective Population Size on Genes under Varying Levels of Selection Pressure

Sankar Subramanian

Genome Biology and Evolution, Vol.10(3), pp.756-762

2018

DOI: https://doi.org/10.1093/gbe/evy047

PMCID: PMC5841380

PMID: 29608718

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Abstract

population size effect

deleterious mutations

amino acid diversity

gene expression and population genetics theory

The ratio of diversities at amino acid changing (nonsynonymous) and neutral (synonymous) sites (ω = πN/πS) is routinely used to measure the intensity of selection pressure. It is well known that this ratio is influenced by the effective population size (Ne) and selection coefficient (s). Here, we examined the effects of effective population size on ω by comparing protein-coding genes from Mus musculus castaneus and Mus musculus musculus-two mouse subspecies with different Ne. Our results revealed a positive relationship between the magnitude of selection intensity and the ω estimated for genes. For genes under high selective constraints, the ω estimated for the subspecies with small Ne (M. m. musculus) was three times higher than that observed for that with large Ne (M. m. castaneus). However, this difference was only 18% for genes under relaxed selective constraints. We showed that the observed relationship is qualitatively similar to the theoretical predictions. We also showed that, for highly expressed genes, the ω of M. m. musculus was 2.1 times higher than that of M.m. castaneus and this difference was only 27% for genes with low expression levels. These results suggest that the effect of effective population size is more pronounced in genes under high purifying selection. Hence the choice of genes is important when ω is used to infer the effective size of a population.

Details

Title: Influence of Effective Population Size on Genes under Varying Levels of Selection Pressure
Authors: Sankar Subramanian (Corresponding Author) - University of the Sunshine Coast, Queensland, GeneCology Research Centre - Legacy
Publication details: Genome Biology and Evolution, Vol.10(3), pp.756-762
Publisher: Oxford University Press
Date published: 2018
DOI: 10.1093/gbe/evy047
ISSN: 1759-6653
PMID: 29608718; PMC5841380
Copyright note: Copyright © The Author(s) 2018. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution. This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com
Grants: The effect of genomic variants on Indigenous health, LP160100594, Australian Research Council (Australia, Canberra) - ARC
Organisation Unit: School of Science and Engineering - Legacy; School of Science, Technology and Engineering; Centre for Bioinnovation
Language: English
Record Identifier: 99451349202621
Output Type: Journal article

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