Genome-wide patterns of genetic variation in worldwide Arabidopsis thaliana accessions from the RegMap panel

Arabidopsis thaliana is native to Eurasia and naturalized across the world due to human disturbance. Its easy propagation and immense phenotypic variability make it an ideal model system for functional, ecological and evolutionary genetics. To date, analyses of its natural variation have involved sm...

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Main Authors:	Horton, Matthew W., Hancock, Angela M., Huang, Yu S., Toomajian, Christopher, Atwell, Susanna, Auton, Adam, Muliyati, N. Wayan, Platt, Alexander, Sperone, F. Gianluca, Vilhjálmsson, Bjarni J., Nordborg, Magnus, Borevitz, Justin O., Bergelson, Joy
Format:	Online
Language:	English
Published:	2012
Online Access:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3267885/

id	pubmed-3267885
recordtype	oai_dc
spelling	pubmed-32678852012-08-01 Genome-wide patterns of genetic variation in worldwide Arabidopsis thaliana accessions from the RegMap panel Horton, Matthew W. Hancock, Angela M. Huang, Yu S. Toomajian, Christopher Atwell, Susanna Auton, Adam Muliyati, N. Wayan Platt, Alexander Sperone, F. Gianluca Vilhjálmsson, Bjarni J. Nordborg, Magnus Borevitz, Justin O. Bergelson, Joy Article Arabidopsis thaliana is native to Eurasia and naturalized across the world due to human disturbance. Its easy propagation and immense phenotypic variability make it an ideal model system for functional, ecological and evolutionary genetics. To date, analyses of its natural variation have involved small numbers of individuals or genetic markers. Here we genotype 1,307 world-wide accessions, including several regional samples, at 250K SNPs, enabling us to describe the global pattern of genetic variation with high resolution. Three complementary tests applied to these data reveal novel targets of selection. Furthermore, we characterize the pattern of historical recombination and observe an enrichment of hotspots in intergenic regions and repetitive DNA, consistent with the pattern observed for humans but strikingly different from other plant species. We are making seeds for this Regional Mapping (RegMap) panel publicly available; they comprise the largest genomic mapping resource available for a naturally occurring, non-human, species. 2012-01-08 /pmc/articles/PMC3267885/ /pubmed/22231484 http://dx.doi.org/10.1038/ng.1042 Text en Users may view, print, copy, download and text and data- mine the content in such documents, for the purposes of academic research, subject always to the full Conditions of use: http://www.nature.com/authors/editorial_policies/license.html#terms
repository_type	Open Access Journal
institution_category	Foreign Institution
institution	US National Center for Biotechnology Information
building	NCBI PubMed
collection	Online Access
language	English
format	Online
author	Horton, Matthew W. Hancock, Angela M. Huang, Yu S. Toomajian, Christopher Atwell, Susanna Auton, Adam Muliyati, N. Wayan Platt, Alexander Sperone, F. Gianluca Vilhjálmsson, Bjarni J. Nordborg, Magnus Borevitz, Justin O. Bergelson, Joy
spellingShingle	Horton, Matthew W. Hancock, Angela M. Huang, Yu S. Toomajian, Christopher Atwell, Susanna Auton, Adam Muliyati, N. Wayan Platt, Alexander Sperone, F. Gianluca Vilhjálmsson, Bjarni J. Nordborg, Magnus Borevitz, Justin O. Bergelson, Joy Genome-wide patterns of genetic variation in worldwide Arabidopsis thaliana accessions from the RegMap panel
author_facet	Horton, Matthew W. Hancock, Angela M. Huang, Yu S. Toomajian, Christopher Atwell, Susanna Auton, Adam Muliyati, N. Wayan Platt, Alexander Sperone, F. Gianluca Vilhjálmsson, Bjarni J. Nordborg, Magnus Borevitz, Justin O. Bergelson, Joy
author_sort	Horton, Matthew W.
title	Genome-wide patterns of genetic variation in worldwide Arabidopsis thaliana accessions from the RegMap panel
title_short	Genome-wide patterns of genetic variation in worldwide Arabidopsis thaliana accessions from the RegMap panel
title_full	Genome-wide patterns of genetic variation in worldwide Arabidopsis thaliana accessions from the RegMap panel
title_fullStr	Genome-wide patterns of genetic variation in worldwide Arabidopsis thaliana accessions from the RegMap panel
title_full_unstemmed	Genome-wide patterns of genetic variation in worldwide Arabidopsis thaliana accessions from the RegMap panel
title_sort	genome-wide patterns of genetic variation in worldwide arabidopsis thaliana accessions from the regmap panel
description	Arabidopsis thaliana is native to Eurasia and naturalized across the world due to human disturbance. Its easy propagation and immense phenotypic variability make it an ideal model system for functional, ecological and evolutionary genetics. To date, analyses of its natural variation have involved small numbers of individuals or genetic markers. Here we genotype 1,307 world-wide accessions, including several regional samples, at 250K SNPs, enabling us to describe the global pattern of genetic variation with high resolution. Three complementary tests applied to these data reveal novel targets of selection. Furthermore, we characterize the pattern of historical recombination and observe an enrichment of hotspots in intergenic regions and repetitive DNA, consistent with the pattern observed for humans but strikingly different from other plant species. We are making seeds for this Regional Mapping (RegMap) panel publicly available; they comprise the largest genomic mapping resource available for a naturally occurring, non-human, species.
publishDate	2012
url	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3267885/
_version_	1611502645300690944

Genome-wide patterns of genetic variation in worldwide Arabidopsis thaliana accessions from the RegMap panel

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