| RRC ID |
64308
|
| 著者 |
May JA, Feng Z, Orton MG, Adamowicz SJ.
|
| タイトル |
The Effects of Ecological Traits on the Rate of Molecular Evolution in Ray-Finned Fishes: A Multivariable Approach.
|
| ジャーナル |
J Mol Evol
|
| Abstract |
Myriad environmental and biological traits have been investigated for their roles in influencing the rate of molecular evolution across various taxonomic groups. However, most studies have focused on a single trait, while controlling for additional factors in an informal way, generally by excluding taxa. This study utilized a dataset of cytochrome c oxidase subunit I (COI) barcode sequences from over 7000 ray-finned fish species to test the effects of 27 traits on molecular evolutionary rates. Environmental traits such as temperature were considered, as were traits associated with effective population size including body size and age at maturity. It was hypothesized that these traits would demonstrate significant correlations with substitution rate in a multivariable analysis due to their associations with mutation and fixation rates, respectively. A bioinformatics pipeline was developed to assemble and analyze sequence data retrieved from the Barcode of Life Data System (BOLD) and trait data obtained from FishBase. For use in phylogenetic regression analyses, a maximum likelihood tree was constructed from the COI sequence data using a multi-gene backbone constraint tree covering 71% of the species. A variable selection method that included both single- and multivariable analyses was used to identify traits that contribute to rate heterogeneity estimated from different codon positions. Our analyses revealed that molecular rates associated most significantly with latitude, body size, and habitat type. Overall, this study presents a novel and systematic approach for integrative data assembly and variable selection methodology in a phylogenetic framework.
|
| 巻・号 |
88(8-9)
|
| ページ |
689-702
|
| 公開日 |
2020-10-3
|
| DOI |
10.1007/s00239-020-09967-9
|
| PII |
10.1007/s00239-020-09967-9
|
| PMID |
33009923
|
| MeSH |
Animals
DNA Barcoding, Taxonomic*
Environment
Evolution, Molecular*
Fishes* / classification
Fishes* / genetics
Phenotype
Phylogeny
|
| IF |
1.821
|
| リソース情報 |
| GBIF |
Fish monitoring data in Lake Kasumigaura
Fish collection of the Kagoshima University Museum
Actinopterygius Specimens of Akita Prefectural Museum
Fish collection of the Museum of Nature and Human Activities, Hyogo
Fish Collection of Yokosuka City Museum
Fish specimen database of Osaka Museum of Natural History
Fish collection of National Museum of Nature and Science
Fish Collection of Natural History Museum and Institute, Chiba |
