{"help":"Return the metadata of a dataset (package) and its resources. :param id: the id or name of the dataset :type id: string","success":true,"result":[{"id":"a804e3cd-ca86-4cb4-96a8-d13d90b68465","name":"role-neutral-and-adaptive-genomic-variation-population-diversification-and-speciation-two","title":"The role of neutral and adaptive genomic variation in population diversification and speciation in two ground squirrel species of conservation concern","author":"Soraia Barbosa, Kimberly Andrews, Amanda Goldberg, Digpal Gour, Paul Hohenlohe, Courtney Conway, Lisette Waits","author_email":"soraia.barbosa02@gmail.com","maintainer":"RCDS Data Repository","maintainer_email":"rcds-web@uidaho.edu","license_title":"https:\/\/creativecommons.org\/publicdomain\/zero\/1.0\/","notes":"\u003Cp\u003ERaw reads and mapped bam files for the total 304 ground squirrels are available on NCBI\u2019s BioProject \u003Ca href=\u0022https:\/\/www.ncbi.nlm.nih.gov\/bioproject\/PRJNA747996\u0022\u003EPRJNA747996\u003C\/a\u003E. Additional metadata for each individual ground squirrel, including respective scores for all environmental variables tested, as well as the final three VCF files used for all analyses with respective R code employed can be found in \u003Ca href=\u0022https:\/\/doi.org\/10.5061\/dryad.sj3tx965c\u0022\u003EDryad\u003C\/a\u003E.\u003C\/p\u003E\n\u003Cp\u003EUnderstanding the neutral (demographic) and adaptive processes leading to the differentiation of species and populations is a critical component of evolutionary and conservation biology. In this context, recently diverged taxa represent a unique opportunity to study the process of genetic differentiation. Northern and southern Idaho ground squirrels (Urocitellus brunneus \u2013 NIDGS, and U. endemicus - SIDGS, respectively) are a recently diverged pair of sister species that have undergone dramatic declines in the last 50 years and are currently found in metapopulations across restricted spatial areas with distinct environmental pressures. Here we genotyped single-nucleotide polymorphisms (SNPs) from buccal swabs with restriction site-associated DNA sequencing (RADseq). With these data we evaluated neutral genetic structure at both the inter- and intraspecific level, and identified putatively adaptive SNPs using population structure outlier detection and genotype-environment association (GEA) analyses. At the interspecific level, we detected a clear separation between NIDGS and SIDGS, and evidence for adaptive differentiation putatively linked to torpor patterns. At the intraspecific level, we found evidence of both neutral and adaptive differentiation. For NIDGS, elevation appears to be the main driver of adaptive differentiation, while neutral variation patterns match and expand information on the low connectivity between some populations identified in previous studies using microsatellite markers. For SIDGS, neutral substructure generally reflected natural geographic barriers, while adaptive variation reflected differences in land cover and temperature, as well as elevation. These results clearly highlight the roles of neutral and adaptive processes for understanding the complexity of the processes leading to species and population differentiation, which can have important conservation implications in susceptible and threatened species.\u003C\/p\u003E\n\u003Cp\u003E\u003Cstrong\u003EData Use\u003C\/strong\u003E\u003Cbr \/\u003E\n\u003Cem\u003ELicense\u003C\/em\u003E\u003Cbr \/\u003E\nCreative Commons Zero v1.0 Universal (\u003Ca href=\u0022https:\/\/creativecommons.org\/publicdomain\/zero\/1.0\/legalcode\u0022\u003ECC0 v1.0\u003C\/a\u003E)\u003Cbr \/\u003E\n\u003Cem\u003ERecommended Citation\u003C\/em\u003E\u003Cbr \/\u003E\nBarbosa S, Andrews K, Goldberg A, Gour D, Hohenlohe P, Conway C, Waits L. 2021. The role of neutral and adaptive genomic variation in population diversification and speciation in two ground squirrel species of conservation concern [Dataset]. Dryad. \u003Ca href=\u0022https:\/\/doi.org\/10.5061\/dryad.sj3tx965c\u0022\u003Ehttps:\/\/doi.org\/10.5061\/dryad.sj3tx965c\u003C\/a\u003E\u003C\/p\u003E\n\u003Cp\u003E\u003Cstrong\u003EFunding\u003C\/strong\u003E\u003Cbr \/\u003E\nUS National Science Foundation and Idaho EPSCoR: OIA-1757324\u003Cbr \/\u003E\nUS National Institute of Health and COBRE: P30GM103324\u003C\/p\u003E\n","url":"https:\/\/dkan.nkn.uidaho.edu\/dataset\/role-neutral-and-adaptive-genomic-variation-population-diversification-and-speciation-two","state":"Active","log_message":"Edited by awchild.","private":true,"revision_timestamp":"Wed, 08\/30\/2023 - 13:53","metadata_created":"Tue, 05\/24\/2022 - 13:42","metadata_modified":"Wed, 08\/30\/2023 - 13:53","creator_user_id":"6cc16f2c-77c2-4d12-ac06-56bbb86b535b","type":"Dataset","resources":[{"id":"d604a7a7-8850-4cab-a649-9d2157de2dd9","revision_id":"","url":"https:\/\/doi.org\/10.5061\/dryad.sj3tx965c","description":"","format":"html","state":"Active","revision_timestamp":"Tue, 05\/24\/2022 - 13:47","name":"Data Access via Dryad | The role of neutral and adaptive genomic variation in population diversification and speciation in two ground squirrel species of conservation concern","mimetype":"html","size":"","created":"Tue, 05\/24\/2022 - 13:47","resource_group_id":"89a02fc8-c98e-44bb-9d3e-2d3d0849fbca","last_modified":"Date changed Tue, 05\/24\/2022 - 13:47"}],"tags":[{"id":"894c23dc-0fe9-49c8-841c-051424e70b40","vocabulary_id":"2","name":"bioinformatics"},{"id":"435edef7-8f56-48e1-851a-1231e1537ef4","vocabulary_id":"2","name":"wildlife"},{"id":"3d599aa2-96d4-499b-97e9-5ada3e064631","vocabulary_id":"2","name":"genotype-enviornment association (GEA)"},{"id":"df18780b-824a-4fe0-994b-3f26204982db","vocabulary_id":"2","name":"SNP"},{"id":"c5976db1-9d4c-41ca-a7a6-a71824fc64c3","vocabulary_id":"2","name":"single-nucleotide polymorphism"},{"id":"4721c393-3753-4ba7-8080-b198ae33b198","vocabulary_id":"2","name":"Urocitellus endemicus"},{"id":"d6bc3e9b-7825-4af8-943a-341c9e1e9fa2","vocabulary_id":"2","name":"ground squirrels"}],"groups":[{"description":"\u003Cp\u003ESince 1889, the University of Idaho has provided motivated students with a transformative higher education experience that prepares them to solve real-world problems and achieve success in their lives and careers.\u003C\/p\u003E\n\u003Cp\u003ELearn more at \u003Ca href=\u0022https:\/\/www.uidaho.edu\u0022\u003Ehttps:\/\/www.uidaho.edu\u003C\/a\u003E\u003C\/p\u003E\n","id":"89a02fc8-c98e-44bb-9d3e-2d3d0849fbca","image_display_url":"https:\/\/dkan.nkn.uidaho.edu\/sites\/default\/files\/UI_Main_horizontal_4c.jpg","title":"University of Idaho","name":"group\/university-idaho"},{"description":"\u003Cp\u003EThe primary objective of Idaho EPSCoR is to stimulate research in niche areas that can become fully competitive in the disciplinary and multidisciplinary research programs of the National Science Foundation and other relevant agencies. Idaho EPSCoR provides support for sustainable increases in Research and Development capacity and advances science and engineering capabilities within the state. \u003C\/p\u003E\n\u003Cp\u003EVisit them at \u003Ca href=\u0022https:\/\/www.idahoepscor.org\u0022\u003Ehttps:\/\/www.idahoepscor.org\u003C\/a\u003E\u003C\/p\u003E\n","id":"e696b239-9ecb-412e-b032-03a75b2b9fd6","image_display_url":"https:\/\/dkan.nkn.uidaho.edu\/sites\/default\/files\/Idaho_epscor_logo_no_white_background.png","title":"Idaho EPSCoR","name":"group\/idaho-epscor"},{"description":"\u003Cp\u003EGEM3 is an NSF EPSCoR research program seeking to understand how genetic diversity and phenotypic plasticity affect species response to environmental change, shaping both population response and adaptive capacity.\u003C\/p\u003E\n\u003Cp\u003EVisit them at: \u003Ca href=\u0022https:\/\/www.idahogem3.org\u0022\u003Ehttps:\/\/www.idahogem3.org\u003C\/a\u003E\u003C\/p\u003E\n","id":"1812a312-11a4-492d-960b-9a78b4abfe0c","image_display_url":"https:\/\/dkan.nkn.uidaho.edu\/sites\/default\/files\/GEM3_nov5_logo.png","title":"EPSCoR GEM3","name":"group\/epscor-gem3"}]}]} Error | RCDS Data Repository

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