Data from: Demography or selection on linked cultural traits or genes? Investigating the driver of low mtDNA diversity in the sperm whale using complementary mitochondrial and nuclear genome analyses
Mitochondrial DNA has been heavily utilized in phylogeography studies for several decades. However, underlying patterns of demography and phylogeography may be misrepresented due to coalescence stochasticity, selection, variation in mutation rates, and cultural hitchhiking (linkage of genetic variat...
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Online Access: | http://hdl.handle.net/10255/dryad.168049 https://doi.org/10.5061/dryad.57271 |
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ftdryad:oai:v1.datadryad.org:10255/dryad.168049 2023-05-15T18:26:42+02:00 Data from: Demography or selection on linked cultural traits or genes? Investigating the driver of low mtDNA diversity in the sperm whale using complementary mitochondrial and nuclear genome analyses Morin, Phillip A. Foote, Andrew D. Baker, C. Scott Hancock-Hanser, Brittany L. Kaschner, Kristin Mate, Bruce R. Mesnick, Sarah L. Pease, Victoria L. Rosel, Patricia E. Alexander, Alana 2018-03-27T20:45:05Z http://hdl.handle.net/10255/dryad.168049 https://doi.org/10.5061/dryad.57271 unknown doi:10.5061/dryad.57271/1 doi:10.5061/dryad.57271/2 doi:10.5061/dryad.57271/3 doi:10.5061/dryad.57271/4 doi:10.5061/dryad.57271/5 doi:10.5061/dryad.57271/6 doi:10.5061/dryad.57271/7 doi:10.5061/dryad.57271/8 doi:10.5061/dryad.57271/9 doi:10.5061/dryad.57271/10 doi:10.5061/dryad.57271/11 doi:10.5061/dryad.57271/12 doi:10.5061/dryad.57271/13 doi:10.5061/dryad.57271/14 doi:10.5061/dryad.57271/15 doi:10.5061/dryad.57271/16 doi:10.5061/dryad.57271/17 doi:10.1111/mec.14698 doi:10.5061/dryad.57271 Morin PA, Foote AD, Baker CS, Hancock-Hanser BL, Kaschner K, Mate BR, Mesnick SL, Pease VL, Rosel PE, Alexander A (2018) Demography or selection on linked cultural traits or genes? Investigating the driver of low mtDNA diversity in the sperm whale using complementary mitochondrial and nuclear genome analyses. Molecular Ecology 27(11): 2604-2619. http://hdl.handle.net/10255/dryad.168049 cetacean PSMC Conservation Genetics Pleistocene Genomics/Proteomics Phylogeography Article 2018 ftdryad https://doi.org/10.5061/dryad.57271 https://doi.org/10.5061/dryad.57271/1 https://doi.org/10.5061/dryad.57271/2 https://doi.org/10.5061/dryad.57271/3 https://doi.org/10.5061/dryad.57271/4 https://doi.org/10.5061/dryad.57271/5 https://doi.org/1 2020-01-01T16:02:57Z Mitochondrial DNA has been heavily utilized in phylogeography studies for several decades. However, underlying patterns of demography and phylogeography may be misrepresented due to coalescence stochasticity, selection, variation in mutation rates, and cultural hitchhiking (linkage of genetic variation to culturally transmitted traits affecting fitness). Cultural hitchhiking has been suggested as an explanation for low genetic diversity in species with strong social structures, counteracting even high mobility, abundance and limited barriers to dispersal. One such species is the sperm whale, which shows very limited phylogeographic structure and low mtDNA diversity despite a worldwide distribution and large population. Here, we use analyses of 175 globally distributed mitogenomes and three nuclear genomes to evaluate hypotheses of a population bottleneck/expansion versus a selective sweep due to cultural-hitchhiking or selection on mtDNA as the mechanism contributing to low worldwide mitochondrial diversity in sperm whales. In contrast to mtDNA control region (CR) data, mitogenome haplotypes are largely ocean-specific, with only one of 80 shared between the Atlantic and Pacific. Demographic analyses of nuclear genomes suggest low mtDNA diversity is consistent with a global reduction in population size that ended approximately 125,000 years ago, correlated with the Eemian interglacial. Phylogeographic analysis suggests that extant sperm whales descend from maternal lineages endemic to the Pacific during the period of reduced abundance, and have subsequently colonized the Atlantic several times. Results highlight the apparent impact of past climate change, and suggest selection and hitchhiking are not the sole processes responsible for low mtDNA diversity in this highly social species. Article in Journal/Newspaper Sperm whale Dryad Digital Repository (Duke University) Pacific |
institution |
Open Polar |
collection |
Dryad Digital Repository (Duke University) |
op_collection_id |
ftdryad |
language |
unknown |
topic |
cetacean PSMC Conservation Genetics Pleistocene Genomics/Proteomics Phylogeography |
spellingShingle |
cetacean PSMC Conservation Genetics Pleistocene Genomics/Proteomics Phylogeography Morin, Phillip A. Foote, Andrew D. Baker, C. Scott Hancock-Hanser, Brittany L. Kaschner, Kristin Mate, Bruce R. Mesnick, Sarah L. Pease, Victoria L. Rosel, Patricia E. Alexander, Alana Data from: Demography or selection on linked cultural traits or genes? Investigating the driver of low mtDNA diversity in the sperm whale using complementary mitochondrial and nuclear genome analyses |
topic_facet |
cetacean PSMC Conservation Genetics Pleistocene Genomics/Proteomics Phylogeography |
description |
Mitochondrial DNA has been heavily utilized in phylogeography studies for several decades. However, underlying patterns of demography and phylogeography may be misrepresented due to coalescence stochasticity, selection, variation in mutation rates, and cultural hitchhiking (linkage of genetic variation to culturally transmitted traits affecting fitness). Cultural hitchhiking has been suggested as an explanation for low genetic diversity in species with strong social structures, counteracting even high mobility, abundance and limited barriers to dispersal. One such species is the sperm whale, which shows very limited phylogeographic structure and low mtDNA diversity despite a worldwide distribution and large population. Here, we use analyses of 175 globally distributed mitogenomes and three nuclear genomes to evaluate hypotheses of a population bottleneck/expansion versus a selective sweep due to cultural-hitchhiking or selection on mtDNA as the mechanism contributing to low worldwide mitochondrial diversity in sperm whales. In contrast to mtDNA control region (CR) data, mitogenome haplotypes are largely ocean-specific, with only one of 80 shared between the Atlantic and Pacific. Demographic analyses of nuclear genomes suggest low mtDNA diversity is consistent with a global reduction in population size that ended approximately 125,000 years ago, correlated with the Eemian interglacial. Phylogeographic analysis suggests that extant sperm whales descend from maternal lineages endemic to the Pacific during the period of reduced abundance, and have subsequently colonized the Atlantic several times. Results highlight the apparent impact of past climate change, and suggest selection and hitchhiking are not the sole processes responsible for low mtDNA diversity in this highly social species. |
format |
Article in Journal/Newspaper |
author |
Morin, Phillip A. Foote, Andrew D. Baker, C. Scott Hancock-Hanser, Brittany L. Kaschner, Kristin Mate, Bruce R. Mesnick, Sarah L. Pease, Victoria L. Rosel, Patricia E. Alexander, Alana |
author_facet |
Morin, Phillip A. Foote, Andrew D. Baker, C. Scott Hancock-Hanser, Brittany L. Kaschner, Kristin Mate, Bruce R. Mesnick, Sarah L. Pease, Victoria L. Rosel, Patricia E. Alexander, Alana |
author_sort |
Morin, Phillip A. |
title |
Data from: Demography or selection on linked cultural traits or genes? Investigating the driver of low mtDNA diversity in the sperm whale using complementary mitochondrial and nuclear genome analyses |
title_short |
Data from: Demography or selection on linked cultural traits or genes? Investigating the driver of low mtDNA diversity in the sperm whale using complementary mitochondrial and nuclear genome analyses |
title_full |
Data from: Demography or selection on linked cultural traits or genes? Investigating the driver of low mtDNA diversity in the sperm whale using complementary mitochondrial and nuclear genome analyses |
title_fullStr |
Data from: Demography or selection on linked cultural traits or genes? Investigating the driver of low mtDNA diversity in the sperm whale using complementary mitochondrial and nuclear genome analyses |
title_full_unstemmed |
Data from: Demography or selection on linked cultural traits or genes? Investigating the driver of low mtDNA diversity in the sperm whale using complementary mitochondrial and nuclear genome analyses |
title_sort |
data from: demography or selection on linked cultural traits or genes? investigating the driver of low mtdna diversity in the sperm whale using complementary mitochondrial and nuclear genome analyses |
publishDate |
2018 |
url |
http://hdl.handle.net/10255/dryad.168049 https://doi.org/10.5061/dryad.57271 |
geographic |
Pacific |
geographic_facet |
Pacific |
genre |
Sperm whale |
genre_facet |
Sperm whale |
op_relation |
doi:10.5061/dryad.57271/1 doi:10.5061/dryad.57271/2 doi:10.5061/dryad.57271/3 doi:10.5061/dryad.57271/4 doi:10.5061/dryad.57271/5 doi:10.5061/dryad.57271/6 doi:10.5061/dryad.57271/7 doi:10.5061/dryad.57271/8 doi:10.5061/dryad.57271/9 doi:10.5061/dryad.57271/10 doi:10.5061/dryad.57271/11 doi:10.5061/dryad.57271/12 doi:10.5061/dryad.57271/13 doi:10.5061/dryad.57271/14 doi:10.5061/dryad.57271/15 doi:10.5061/dryad.57271/16 doi:10.5061/dryad.57271/17 doi:10.1111/mec.14698 doi:10.5061/dryad.57271 Morin PA, Foote AD, Baker CS, Hancock-Hanser BL, Kaschner K, Mate BR, Mesnick SL, Pease VL, Rosel PE, Alexander A (2018) Demography or selection on linked cultural traits or genes? Investigating the driver of low mtDNA diversity in the sperm whale using complementary mitochondrial and nuclear genome analyses. Molecular Ecology 27(11): 2604-2619. http://hdl.handle.net/10255/dryad.168049 |
op_doi |
https://doi.org/10.5061/dryad.57271 https://doi.org/10.5061/dryad.57271/1 https://doi.org/10.5061/dryad.57271/2 https://doi.org/10.5061/dryad.57271/3 https://doi.org/10.5061/dryad.57271/4 https://doi.org/10.5061/dryad.57271/5 https://doi.org/1 |
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1766208667684700160 |