A Spatial Statistical Model for Landscape Genetics
Landscape genetics is a new discipline that aims to provide information on how landscape and environmental features influence population genetic structure. The first key step of landscape genetics is the spatial detection and location of genetic discontinuities between populations. However, efficien...
Published in: | Genetics |
---|---|
Main Authors: | , , , |
Format: | Text |
Language: | English |
Published: |
Genetics Society of America
2005
|
Subjects: | |
Online Access: | http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1451194 http://www.ncbi.nlm.nih.gov/pubmed/15520263 https://doi.org/10.1534/genetics.104.033803 |
id |
ftpubmed:oai:pubmedcentral.nih.gov:1451194 |
---|---|
record_format |
openpolar |
spelling |
ftpubmed:oai:pubmedcentral.nih.gov:1451194 2023-05-15T16:32:20+02:00 A Spatial Statistical Model for Landscape Genetics Guillot, Gilles Estoup, Arnaud Mortier, Frédéric Cosson, Jean François 2005-07 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1451194 http://www.ncbi.nlm.nih.gov/pubmed/15520263 https://doi.org/10.1534/genetics.104.033803 en eng Genetics Society of America http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1451194 http://www.ncbi.nlm.nih.gov/pubmed/15520263 http://dx.doi.org/10.1534/genetics.104.033803 Copyright © 2005, Genetics Society of America Investigations Text 2005 ftpubmed https://doi.org/10.1534/genetics.104.033803 2013-08-31T01:02:24Z Landscape genetics is a new discipline that aims to provide information on how landscape and environmental features influence population genetic structure. The first key step of landscape genetics is the spatial detection and location of genetic discontinuities between populations. However, efficient methods for achieving this task are lacking. In this article, we first clarify what is conceptually involved in the spatial modeling of genetic data. Then we describe a Bayesian model implemented in a Markov chain Monte Carlo scheme that allows inference of the location of such genetic discontinuities from individual geo-referenced multilocus genotypes, without a priori knowledge on populational units and limits. In this method, the global set of sampled individuals is modeled as a spatial mixture of panmictic populations, and the spatial organization of populations is modeled through the colored Voronoi tessellation. In addition to spatially locating genetic discontinuities, the method quantifies the amount of spatial dependence in the data set, estimates the number of populations in the studied area, assigns individuals to their population of origin, and detects individual migrants between populations, while taking into account uncertainty on the location of sampled individuals. The performance of the method is evaluated through the analysis of simulated data sets. Results show good performances for standard data sets (e.g., 100 individuals genotyped at 10 loci with 10 alleles per locus), with high but also low levels of population differentiation (e.g., FST < 0.05). The method is then applied to a set of 88 individuals of wolverines (Gulo gulo) sampled in the northwestern United States and genotyped at 10 microsatellites. Text Gulo gulo PubMed Central (PMC) Genetics 170 3 1261 1280 |
institution |
Open Polar |
collection |
PubMed Central (PMC) |
op_collection_id |
ftpubmed |
language |
English |
topic |
Investigations |
spellingShingle |
Investigations Guillot, Gilles Estoup, Arnaud Mortier, Frédéric Cosson, Jean François A Spatial Statistical Model for Landscape Genetics |
topic_facet |
Investigations |
description |
Landscape genetics is a new discipline that aims to provide information on how landscape and environmental features influence population genetic structure. The first key step of landscape genetics is the spatial detection and location of genetic discontinuities between populations. However, efficient methods for achieving this task are lacking. In this article, we first clarify what is conceptually involved in the spatial modeling of genetic data. Then we describe a Bayesian model implemented in a Markov chain Monte Carlo scheme that allows inference of the location of such genetic discontinuities from individual geo-referenced multilocus genotypes, without a priori knowledge on populational units and limits. In this method, the global set of sampled individuals is modeled as a spatial mixture of panmictic populations, and the spatial organization of populations is modeled through the colored Voronoi tessellation. In addition to spatially locating genetic discontinuities, the method quantifies the amount of spatial dependence in the data set, estimates the number of populations in the studied area, assigns individuals to their population of origin, and detects individual migrants between populations, while taking into account uncertainty on the location of sampled individuals. The performance of the method is evaluated through the analysis of simulated data sets. Results show good performances for standard data sets (e.g., 100 individuals genotyped at 10 loci with 10 alleles per locus), with high but also low levels of population differentiation (e.g., FST < 0.05). The method is then applied to a set of 88 individuals of wolverines (Gulo gulo) sampled in the northwestern United States and genotyped at 10 microsatellites. |
format |
Text |
author |
Guillot, Gilles Estoup, Arnaud Mortier, Frédéric Cosson, Jean François |
author_facet |
Guillot, Gilles Estoup, Arnaud Mortier, Frédéric Cosson, Jean François |
author_sort |
Guillot, Gilles |
title |
A Spatial Statistical Model for Landscape Genetics |
title_short |
A Spatial Statistical Model for Landscape Genetics |
title_full |
A Spatial Statistical Model for Landscape Genetics |
title_fullStr |
A Spatial Statistical Model for Landscape Genetics |
title_full_unstemmed |
A Spatial Statistical Model for Landscape Genetics |
title_sort |
spatial statistical model for landscape genetics |
publisher |
Genetics Society of America |
publishDate |
2005 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1451194 http://www.ncbi.nlm.nih.gov/pubmed/15520263 https://doi.org/10.1534/genetics.104.033803 |
genre |
Gulo gulo |
genre_facet |
Gulo gulo |
op_relation |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1451194 http://www.ncbi.nlm.nih.gov/pubmed/15520263 http://dx.doi.org/10.1534/genetics.104.033803 |
op_rights |
Copyright © 2005, Genetics Society of America |
op_doi |
https://doi.org/10.1534/genetics.104.033803 |
container_title |
Genetics |
container_volume |
170 |
container_issue |
3 |
container_start_page |
1261 |
op_container_end_page |
1280 |
_version_ |
1766022093642661888 |