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description Publicationkeyboard_double_arrow_right Article 2019 United StatesPublisher:Public Library of Science (PLoS) Funded by:NIH | Meiotic sex chromosome in..., NSERC, NIH | Evolutionary and Function... +4 projectsNIH| Meiotic sex chromosome inactivation and the developmental basis of hybrid male st ,NSERC ,NIH| Evolutionary and Functional Genetics of Male Reproduction using Wild Mice as a Mo ,NIH| Genomics ,NIH| Genome Sequencer FLX ,NSF| The Grinnell Project: Using a Unique Historical Record to Document Responses of Mammals and Birds to 100 Years of Climate Change ,NIH| Illumina Sequencer to Facilitate Functional Genomics at BerkeleyKe Bi; Tyler Linderoth; Sonal Singhal; Dan Vanderpool; James L. Patton; Rasmus Nielsen; Craig Moritz; Jeffrey M. Good;Many species have experienced dramatic changes in their abundance and distribution during recent climate change, but it is often unclear whether such ecological responses are accompanied by evolutionary change. We used targeted exon sequencing of 294 museum specimens (160 historic, 134 modern) to generate independent temporal genomic contrasts spanning a century of climate change (1911–2012) for two co-distributed chipmunk species: an endemic alpine specialist (Tamias alpinus) undergoing severe range contraction and a stable mid-elevation species (T. speciosus). Using a novel analytical approach, we reconstructed the demographic histories of these populations and tested for evidence of recent positive directional selection. Only the retracting species showed substantial population genetic fragmentation through time and this was coupled with positive selection and substantial shifts in allele frequencies at a gene, Alox15, involved in regulation of inflammation and response to hypoxia. However, these rapid population and gene-level responses were not detected in an analogous temporal contrast from another area where T. alpinus has also undergone severe range contraction. Collectively, these results highlight that evolutionary responses may be variable and context dependent across populations, even when they show seemingly synchronous ecological shifts. Our results demonstrate that temporal genomic contrasts can be used to detect very recent evolutionary responses within and among contemporary populations, even in the face of complex demographic changes. Given the wealth of specimens archived in natural history museums, comparative analyses of temporal population genomic data have the potential to improve our understanding of recent and ongoing evolutionary responses to rapidly changing environments. Author summary Museum specimens represent an irreplaceable archive that can be used to understand how species respond to rapid environmental change. We recovered genomic data from archived samples spanning a century of climate change in co-distributed declining versus stable species of montane chipmunks. Applying novel statistical methods, we find evidence for strong positive selection on a physiologically relevant gene despite increased population fragmentation in the declining species. Our results reveal rapid evolutionary responses, but also highlight that genetic adaptation has been insufficient to prevent range collapse in this endemic alpine species. These findings illustrate how biological archives can be used to pinpoint genetic responses through time to better understand how species are responding to rapidly changing environments.
Europe PubMed Centra... arrow_drop_down Europe PubMed CentralArticle . 2019Full-Text: http://europepmc.org/articles/PMC6519841Data sources: PubMed CentraleScholarship - University of CaliforniaArticle . 2019Data sources: eScholarship - University of CaliforniaeScholarship - University of CaliforniaArticle . 2019Data sources: eScholarship - University of Californiaadd ClaimPlease grant OpenAIRE to access and update your ORCID works.This Research product is the result of merged Research products in OpenAIRE.
You have already added works in your ORCID record related to the merged Research product.This Research product is the result of merged Research products in OpenAIRE.
You have already added works in your ORCID record related to the merged Research product.All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=10.1371/journal.pgen.1008119&type=result"></script>'); --> </script>
For further information contact us at helpdesk@openaire.euAccess RoutesGreen gold 64 citations 64 popularity Top 1% influence Top 10% impulse Top 1% Powered by BIP!more_vert Europe PubMed Centra... arrow_drop_down Europe PubMed CentralArticle . 2019Full-Text: http://europepmc.org/articles/PMC6519841Data sources: PubMed CentraleScholarship - University of CaliforniaArticle . 2019Data sources: eScholarship - University of CaliforniaeScholarship - University of CaliforniaArticle . 2019Data sources: eScholarship - University of Californiaadd ClaimPlease grant OpenAIRE to access and update your ORCID works.This Research product is the result of merged Research products in OpenAIRE.
You have already added works in your ORCID record related to the merged Research product.This Research product is the result of merged Research products in OpenAIRE.
You have already added works in your ORCID record related to the merged Research product.All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=10.1371/journal.pgen.1008119&type=result"></script>'); --> </script>
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description Publicationkeyboard_double_arrow_right Article 2019 United StatesPublisher:Public Library of Science (PLoS) Funded by:NIH | Meiotic sex chromosome in..., NSERC, NIH | Evolutionary and Function... +4 projectsNIH| Meiotic sex chromosome inactivation and the developmental basis of hybrid male st ,NSERC ,NIH| Evolutionary and Functional Genetics of Male Reproduction using Wild Mice as a Mo ,NIH| Genomics ,NIH| Genome Sequencer FLX ,NSF| The Grinnell Project: Using a Unique Historical Record to Document Responses of Mammals and Birds to 100 Years of Climate Change ,NIH| Illumina Sequencer to Facilitate Functional Genomics at BerkeleyKe Bi; Tyler Linderoth; Sonal Singhal; Dan Vanderpool; James L. Patton; Rasmus Nielsen; Craig Moritz; Jeffrey M. Good;Many species have experienced dramatic changes in their abundance and distribution during recent climate change, but it is often unclear whether such ecological responses are accompanied by evolutionary change. We used targeted exon sequencing of 294 museum specimens (160 historic, 134 modern) to generate independent temporal genomic contrasts spanning a century of climate change (1911–2012) for two co-distributed chipmunk species: an endemic alpine specialist (Tamias alpinus) undergoing severe range contraction and a stable mid-elevation species (T. speciosus). Using a novel analytical approach, we reconstructed the demographic histories of these populations and tested for evidence of recent positive directional selection. Only the retracting species showed substantial population genetic fragmentation through time and this was coupled with positive selection and substantial shifts in allele frequencies at a gene, Alox15, involved in regulation of inflammation and response to hypoxia. However, these rapid population and gene-level responses were not detected in an analogous temporal contrast from another area where T. alpinus has also undergone severe range contraction. Collectively, these results highlight that evolutionary responses may be variable and context dependent across populations, even when they show seemingly synchronous ecological shifts. Our results demonstrate that temporal genomic contrasts can be used to detect very recent evolutionary responses within and among contemporary populations, even in the face of complex demographic changes. Given the wealth of specimens archived in natural history museums, comparative analyses of temporal population genomic data have the potential to improve our understanding of recent and ongoing evolutionary responses to rapidly changing environments. Author summary Museum specimens represent an irreplaceable archive that can be used to understand how species respond to rapid environmental change. We recovered genomic data from archived samples spanning a century of climate change in co-distributed declining versus stable species of montane chipmunks. Applying novel statistical methods, we find evidence for strong positive selection on a physiologically relevant gene despite increased population fragmentation in the declining species. Our results reveal rapid evolutionary responses, but also highlight that genetic adaptation has been insufficient to prevent range collapse in this endemic alpine species. These findings illustrate how biological archives can be used to pinpoint genetic responses through time to better understand how species are responding to rapidly changing environments.
Europe PubMed Centra... arrow_drop_down Europe PubMed CentralArticle . 2019Full-Text: http://europepmc.org/articles/PMC6519841Data sources: PubMed CentraleScholarship - University of CaliforniaArticle . 2019Data sources: eScholarship - University of CaliforniaeScholarship - University of CaliforniaArticle . 2019Data sources: eScholarship - University of Californiaadd ClaimPlease grant OpenAIRE to access and update your ORCID works.This Research product is the result of merged Research products in OpenAIRE.
You have already added works in your ORCID record related to the merged Research product.This Research product is the result of merged Research products in OpenAIRE.
You have already added works in your ORCID record related to the merged Research product.All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=10.1371/journal.pgen.1008119&type=result"></script>'); --> </script>
For further information contact us at helpdesk@openaire.euAccess RoutesGreen gold 64 citations 64 popularity Top 1% influence Top 10% impulse Top 1% Powered by BIP!more_vert Europe PubMed Centra... arrow_drop_down Europe PubMed CentralArticle . 2019Full-Text: http://europepmc.org/articles/PMC6519841Data sources: PubMed CentraleScholarship - University of CaliforniaArticle . 2019Data sources: eScholarship - University of CaliforniaeScholarship - University of CaliforniaArticle . 2019Data sources: eScholarship - University of Californiaadd ClaimPlease grant OpenAIRE to access and update your ORCID works.This Research product is the result of merged Research products in OpenAIRE.
You have already added works in your ORCID record related to the merged Research product.This Research product is the result of merged Research products in OpenAIRE.
You have already added works in your ORCID record related to the merged Research product.All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=10.1371/journal.pgen.1008119&type=result"></script>'); --> </script>
For further information contact us at helpdesk@openaire.eu