The impacts of drift and selection on genomic evolution in insects
Genomes evolve through a combination of mutation, drift, and selection, all of which act heterogeneously across genes and lineages. This leads to differences in branch-length patterns among gene trees. Genes that yield trees with the same branch-length patterns can be grouped together into clusters....
| Main Authors: | , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
PeerJ Inc.
2017-04-01
|
| Series: | PeerJ |
| Subjects: | |
| Online Access: | https://peerj.com/articles/3241.pdf |
| _version_ | 1797421721307840512 |
|---|---|
| author | K. Jun Tong Sebastián Duchêne Nathan Lo Simon Y.W. Ho |
| author_facet | K. Jun Tong Sebastián Duchêne Nathan Lo Simon Y.W. Ho |
| author_sort | K. Jun Tong |
| collection | DOAJ |
| description | Genomes evolve through a combination of mutation, drift, and selection, all of which act heterogeneously across genes and lineages. This leads to differences in branch-length patterns among gene trees. Genes that yield trees with the same branch-length patterns can be grouped together into clusters. Here, we propose a novel phylogenetic approach to explain the factors that influence the number and distribution of these gene-tree clusters. We apply our method to a genomic dataset from insects, an ancient and diverse group of organisms. We find some evidence that when drift is the dominant evolutionary process, each cluster tends to contain a large number of fast-evolving genes. In contrast, strong negative selection leads to many distinct clusters, each of which contains only a few slow-evolving genes. Our work, although preliminary in nature, illustrates the use of phylogenetic methods to shed light on the factors driving rate variation in genomic evolution. |
| first_indexed | 2024-03-09T07:21:31Z |
| format | Article |
| id | doaj.art-06ebc7a121b241c7bbb96e6023b3f33e |
| institution | Directory Open Access Journal |
| issn | 2167-8359 |
| language | English |
| last_indexed | 2024-03-09T07:21:31Z |
| publishDate | 2017-04-01 |
| publisher | PeerJ Inc. |
| record_format | Article |
| series | PeerJ |
| spelling | doaj.art-06ebc7a121b241c7bbb96e6023b3f33e2023-12-03T07:14:50ZengPeerJ Inc.PeerJ2167-83592017-04-015e324110.7717/peerj.3241The impacts of drift and selection on genomic evolution in insectsK. Jun Tong0Sebastián Duchêne1Nathan Lo2Simon Y.W. Ho3School of Life and Environmental Sciences, University of Sydney, Sydney, New South Wales, AustraliaSchool of Life and Environmental Sciences, University of Sydney, Sydney, New South Wales, AustraliaSchool of Life and Environmental Sciences, University of Sydney, Sydney, New South Wales, AustraliaSchool of Life and Environmental Sciences, University of Sydney, Sydney, New South Wales, AustraliaGenomes evolve through a combination of mutation, drift, and selection, all of which act heterogeneously across genes and lineages. This leads to differences in branch-length patterns among gene trees. Genes that yield trees with the same branch-length patterns can be grouped together into clusters. Here, we propose a novel phylogenetic approach to explain the factors that influence the number and distribution of these gene-tree clusters. We apply our method to a genomic dataset from insects, an ancient and diverse group of organisms. We find some evidence that when drift is the dominant evolutionary process, each cluster tends to contain a large number of fast-evolving genes. In contrast, strong negative selection leads to many distinct clusters, each of which contains only a few slow-evolving genes. Our work, although preliminary in nature, illustrates the use of phylogenetic methods to shed light on the factors driving rate variation in genomic evolution.https://peerj.com/articles/3241.pdfMutationGenomic pacemakersMolecular evolutionNeutral theoryInsect phylogenomics |
| spellingShingle | K. Jun Tong Sebastián Duchêne Nathan Lo Simon Y.W. Ho The impacts of drift and selection on genomic evolution in insects PeerJ Mutation Genomic pacemakers Molecular evolution Neutral theory Insect phylogenomics |
| title | The impacts of drift and selection on genomic evolution in insects |
| title_full | The impacts of drift and selection on genomic evolution in insects |
| title_fullStr | The impacts of drift and selection on genomic evolution in insects |
| title_full_unstemmed | The impacts of drift and selection on genomic evolution in insects |
| title_short | The impacts of drift and selection on genomic evolution in insects |
| title_sort | impacts of drift and selection on genomic evolution in insects |
| topic | Mutation Genomic pacemakers Molecular evolution Neutral theory Insect phylogenomics |
| url | https://peerj.com/articles/3241.pdf |
| work_keys_str_mv | AT kjuntong theimpactsofdriftandselectionongenomicevolutionininsects AT sebastianduchene theimpactsofdriftandselectionongenomicevolutionininsects AT nathanlo theimpactsofdriftandselectionongenomicevolutionininsects AT simonywho theimpactsofdriftandselectionongenomicevolutionininsects AT kjuntong impactsofdriftandselectionongenomicevolutionininsects AT sebastianduchene impactsofdriftandselectionongenomicevolutionininsects AT nathanlo impactsofdriftandselectionongenomicevolutionininsects AT simonywho impactsofdriftandselectionongenomicevolutionininsects |