Cargando…

Rapid Intraspecies Evolution of Fitness Effects of Yeast Genes

Organisms within species have numerous genetic and phenotypic variations. Growing evidences show intraspecies variation of mutant phenotypes may be more complicated than expected. Current studies on intraspecies variations of mutant phenotypes are limited to just a few strains. This study investigat...

Descripción completa

Detalles Bibliográficos
Autores principales: Wang, Yayu, Jiang, Bei, Wu, Yue, He, Xionglei, Liu, Li
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9113246/
https://www.ncbi.nlm.nih.gov/pubmed/35482054
http://dx.doi.org/10.1093/gbe/evac061
_version_ 1784709550671134720
author Wang, Yayu
Jiang, Bei
Wu, Yue
He, Xionglei
Liu, Li
author_facet Wang, Yayu
Jiang, Bei
Wu, Yue
He, Xionglei
Liu, Li
author_sort Wang, Yayu
collection PubMed
description Organisms within species have numerous genetic and phenotypic variations. Growing evidences show intraspecies variation of mutant phenotypes may be more complicated than expected. Current studies on intraspecies variations of mutant phenotypes are limited to just a few strains. This study investigated the intraspecies variation of fitness effects of 5,630 gene mutants in ten Saccharomyces cerevisiae strains using CRISPR–Cas9 screening. We found that the variability of fitness effects induced by gene disruptions is very large across different strains. Over 75% of genes affected cell fitness in a strain-specific manner to varying degrees. The strain specificity of the fitness effect of a gene is related to its evolutionary and functional properties. Subsequent analysis revealed that younger genes, especially those newly acquired in S. cerevisiae species, are more likely to be strongly strain-specific. Intriguingly, there seems to exist a ceiling of fitness effect size for strong strain-specific genes, and among them, the newly acquired genes are still evolving and have yet to reach this ceiling. Additionally, for a large proportion of protein complexes, the strain specificity profile is inconsistent among genes encoding the same complex. Taken together, these results offer a genome-wide map of intraspecies variation for fitness effect as a mutant phenotype and provide an updated insight on intraspecies phenotypic evolution.
format Online
Article
Text
id pubmed-9113246
institution National Center for Biotechnology Information
language English
publishDate 2022
publisher Oxford University Press
record_format MEDLINE/PubMed
spelling pubmed-91132462022-05-18 Rapid Intraspecies Evolution of Fitness Effects of Yeast Genes Wang, Yayu Jiang, Bei Wu, Yue He, Xionglei Liu, Li Genome Biol Evol Research Article Organisms within species have numerous genetic and phenotypic variations. Growing evidences show intraspecies variation of mutant phenotypes may be more complicated than expected. Current studies on intraspecies variations of mutant phenotypes are limited to just a few strains. This study investigated the intraspecies variation of fitness effects of 5,630 gene mutants in ten Saccharomyces cerevisiae strains using CRISPR–Cas9 screening. We found that the variability of fitness effects induced by gene disruptions is very large across different strains. Over 75% of genes affected cell fitness in a strain-specific manner to varying degrees. The strain specificity of the fitness effect of a gene is related to its evolutionary and functional properties. Subsequent analysis revealed that younger genes, especially those newly acquired in S. cerevisiae species, are more likely to be strongly strain-specific. Intriguingly, there seems to exist a ceiling of fitness effect size for strong strain-specific genes, and among them, the newly acquired genes are still evolving and have yet to reach this ceiling. Additionally, for a large proportion of protein complexes, the strain specificity profile is inconsistent among genes encoding the same complex. Taken together, these results offer a genome-wide map of intraspecies variation for fitness effect as a mutant phenotype and provide an updated insight on intraspecies phenotypic evolution. Oxford University Press 2022-04-28 /pmc/articles/PMC9113246/ /pubmed/35482054 http://dx.doi.org/10.1093/gbe/evac061 Text en © The Author(s) 2022. Published by Oxford University Press on behalf of Society for Molecular Biology and Evolution. https://creativecommons.org/licenses/by/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Research Article
Wang, Yayu
Jiang, Bei
Wu, Yue
He, Xionglei
Liu, Li
Rapid Intraspecies Evolution of Fitness Effects of Yeast Genes
title Rapid Intraspecies Evolution of Fitness Effects of Yeast Genes
title_full Rapid Intraspecies Evolution of Fitness Effects of Yeast Genes
title_fullStr Rapid Intraspecies Evolution of Fitness Effects of Yeast Genes
title_full_unstemmed Rapid Intraspecies Evolution of Fitness Effects of Yeast Genes
title_short Rapid Intraspecies Evolution of Fitness Effects of Yeast Genes
title_sort rapid intraspecies evolution of fitness effects of yeast genes
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9113246/
https://www.ncbi.nlm.nih.gov/pubmed/35482054
http://dx.doi.org/10.1093/gbe/evac061
work_keys_str_mv AT wangyayu rapidintraspeciesevolutionoffitnesseffectsofyeastgenes
AT jiangbei rapidintraspeciesevolutionoffitnesseffectsofyeastgenes
AT wuyue rapidintraspeciesevolutionoffitnesseffectsofyeastgenes
AT hexionglei rapidintraspeciesevolutionoffitnesseffectsofyeastgenes
AT liuli rapidintraspeciesevolutionoffitnesseffectsofyeastgenes