The genetic basis of plumage coloration and elevation adaptation in a clade of recently diverged alpine and arctic songbirds
Trait genetic architecture plays an important role in the probability that variation in that trait leads to divergence and speciation. In some cases, speciation may be driven by the generation of novel phenotypes through the recombination of genes associated with traits that are important for local...
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ftzenodo:oai:zenodo.org:7443602 2024-09-09T19:27:13+00:00 The genetic basis of plumage coloration and elevation adaptation in a clade of recently diverged alpine and arctic songbirds Funk, Erik Spellman, Garth Winker, Kevin Withrow, Jack Ruegg, Kristen Taylor, Scott 2022-12-19 https://doi.org/10.5281/zenodo.7443602 unknown Zenodo https://doi.org/10.5061/dryad.4xgxd25dt https://zenodo.org/communities/dryad https://doi.org/10.5281/zenodo.7443601 https://doi.org/10.5281/zenodo.7443602 oai:zenodo.org:7443602 info:eu-repo/semantics/openAccess Creative Commons Attribution 4.0 International https://creativecommons.org/licenses/by/4.0/legalcode Leucosticte rosy-finch whole genome sequencing melanogenesis hypoxia-inducible factor (HIF) info:eu-repo/semantics/other 2022 ftzenodo https://doi.org/10.5281/zenodo.744360210.5061/dryad.4xgxd25dt10.5281/zenodo.7443601 2024-07-26T11:26:46Z Trait genetic architecture plays an important role in the probability that variation in that trait leads to divergence and speciation. In some cases, speciation may be driven by the generation of novel phenotypes through the recombination of genes associated with traits that are important for local adaptation or sexual selection. Here, we investigate the genetic basis of three plumage color traits, and one ecological trait, breeding elevation, in a recent avian radiation, the North American rosy-finches ( Leucosticte spp.). We identify unique genomic regions associated with each trait and highlight 11 candidate genes. Among these are well-characterized melanogenesis genes, including Mitf and Tyrp1, and previously reported hypoxia-related genes including Egln1. Additionally, we use mitochondrial data to date the divergence of rosy-finch clades which appear to have diverged within the past 250 ky. Given the low levels of genome-wide differentiation among rosy-finch taxa, and evidence for extensive introgression in North America, plumage coloration and adaptation to high elevations have likely played large roles in generating the observed patterns of lineage divergence. The relative independence of these candidate regions across the genome suggests that recombination might have led to multiple phenotypes, and subsequent rosy-finch speciation, over short periods of time. VCF file is a plain text file containing filtered genotypes for all individuals. The tree posterior used to date divergence events contains 10,000 trees as a nexus file. This file can be reanalyzed using a program such as TreeAnnotator from the Beast software distribution and visualized. Funding provided by: National Geographic Society Crossref Funder Registry ID: http://dx.doi.org/10.13039/100006363 Award Number: WW-202R-17 Other/Unknown Material Arctic Zenodo Arctic Finch ENVELOPE(167.383,167.383,-72.567,-72.567) |
institution |
Open Polar |
collection |
Zenodo |
op_collection_id |
ftzenodo |
language |
unknown |
topic |
Leucosticte rosy-finch whole genome sequencing melanogenesis hypoxia-inducible factor (HIF) |
spellingShingle |
Leucosticte rosy-finch whole genome sequencing melanogenesis hypoxia-inducible factor (HIF) Funk, Erik Spellman, Garth Winker, Kevin Withrow, Jack Ruegg, Kristen Taylor, Scott The genetic basis of plumage coloration and elevation adaptation in a clade of recently diverged alpine and arctic songbirds |
topic_facet |
Leucosticte rosy-finch whole genome sequencing melanogenesis hypoxia-inducible factor (HIF) |
description |
Trait genetic architecture plays an important role in the probability that variation in that trait leads to divergence and speciation. In some cases, speciation may be driven by the generation of novel phenotypes through the recombination of genes associated with traits that are important for local adaptation or sexual selection. Here, we investigate the genetic basis of three plumage color traits, and one ecological trait, breeding elevation, in a recent avian radiation, the North American rosy-finches ( Leucosticte spp.). We identify unique genomic regions associated with each trait and highlight 11 candidate genes. Among these are well-characterized melanogenesis genes, including Mitf and Tyrp1, and previously reported hypoxia-related genes including Egln1. Additionally, we use mitochondrial data to date the divergence of rosy-finch clades which appear to have diverged within the past 250 ky. Given the low levels of genome-wide differentiation among rosy-finch taxa, and evidence for extensive introgression in North America, plumage coloration and adaptation to high elevations have likely played large roles in generating the observed patterns of lineage divergence. The relative independence of these candidate regions across the genome suggests that recombination might have led to multiple phenotypes, and subsequent rosy-finch speciation, over short periods of time. VCF file is a plain text file containing filtered genotypes for all individuals. The tree posterior used to date divergence events contains 10,000 trees as a nexus file. This file can be reanalyzed using a program such as TreeAnnotator from the Beast software distribution and visualized. Funding provided by: National Geographic Society Crossref Funder Registry ID: http://dx.doi.org/10.13039/100006363 Award Number: WW-202R-17 |
format |
Other/Unknown Material |
author |
Funk, Erik Spellman, Garth Winker, Kevin Withrow, Jack Ruegg, Kristen Taylor, Scott |
author_facet |
Funk, Erik Spellman, Garth Winker, Kevin Withrow, Jack Ruegg, Kristen Taylor, Scott |
author_sort |
Funk, Erik |
title |
The genetic basis of plumage coloration and elevation adaptation in a clade of recently diverged alpine and arctic songbirds |
title_short |
The genetic basis of plumage coloration and elevation adaptation in a clade of recently diverged alpine and arctic songbirds |
title_full |
The genetic basis of plumage coloration and elevation adaptation in a clade of recently diverged alpine and arctic songbirds |
title_fullStr |
The genetic basis of plumage coloration and elevation adaptation in a clade of recently diverged alpine and arctic songbirds |
title_full_unstemmed |
The genetic basis of plumage coloration and elevation adaptation in a clade of recently diverged alpine and arctic songbirds |
title_sort |
genetic basis of plumage coloration and elevation adaptation in a clade of recently diverged alpine and arctic songbirds |
publisher |
Zenodo |
publishDate |
2022 |
url |
https://doi.org/10.5281/zenodo.7443602 |
long_lat |
ENVELOPE(167.383,167.383,-72.567,-72.567) |
geographic |
Arctic Finch |
geographic_facet |
Arctic Finch |
genre |
Arctic |
genre_facet |
Arctic |
op_relation |
https://doi.org/10.5061/dryad.4xgxd25dt https://zenodo.org/communities/dryad https://doi.org/10.5281/zenodo.7443601 https://doi.org/10.5281/zenodo.7443602 oai:zenodo.org:7443602 |
op_rights |
info:eu-repo/semantics/openAccess Creative Commons Attribution 4.0 International https://creativecommons.org/licenses/by/4.0/legalcode |
op_doi |
https://doi.org/10.5281/zenodo.744360210.5061/dryad.4xgxd25dt10.5281/zenodo.7443601 |
_version_ |
1809896685689634816 |