Genomic diversity, population structure, and migration following rapid range expansion in the Balsam poplar, Populus balsamifera.
Identifieur interne : 003240 ( Main/Exploration ); précédent : 003239; suivant : 003241Genomic diversity, population structure, and migration following rapid range expansion in the Balsam poplar, Populus balsamifera.
Auteurs : Stephen R. Keller [États-Unis] ; Matthew S. Olson ; Salim Silim ; William Schroeder ; Peter TiffinSource :
- Molecular ecology [ 1365-294X ] ; 2010.
Descripteurs français
- KwdFr :
- ADN des plantes (génétique), Amérique du Nord (MeSH), Analyse de regroupements (MeSH), Analyse de séquence d'ADN (MeSH), Génome végétal (MeSH), Génotype (MeSH), Génétique des populations (MeSH), Géographie (MeSH), Modèles génétiques (MeSH), Polymorphisme de nucléotide simple (MeSH), Populus (génétique), Théorème de Bayes (MeSH), Variation génétique (MeSH), Évolution moléculaire (MeSH).
- MESH :
English descriptors
- KwdEn :
- Bayes Theorem (MeSH), Cluster Analysis (MeSH), DNA, Plant (genetics), Evolution, Molecular (MeSH), Genetic Variation (MeSH), Genetics, Population (MeSH), Genome, Plant (MeSH), Genotype (MeSH), Geography (MeSH), Models, Genetic (MeSH), North America (MeSH), Polymorphism, Single Nucleotide (MeSH), Populus (genetics), Sequence Analysis, DNA (MeSH).
- MESH :
- chemical , genetics : DNA, Plant.
- geographic : North America.
- genetics : Populus.
- Bayes Theorem, Cluster Analysis, Evolution, Molecular, Genetic Variation, Genetics, Population, Genome, Plant, Genotype, Geography, Models, Genetic, Polymorphism, Single Nucleotide, Sequence Analysis, DNA.
Abstract
Rapid range expansions can cause pervasive changes in the genetic diversity and structure of populations. The postglacial history of the Balsam Poplar, Populus balsamifera, involved the colonization of most of northern North America, an area largely covered by continental ice sheets during the last glacial maximum. To characterize how this expansion shaped genomic diversity within and among populations, we developed 412 SNP markers that we assayed for a range-wide sample of 474 individuals sampled from 34 populations. We complemented the SNP data set with DNA sequence data from 11 nuclear loci from 94 individuals, and used coalescent analyses to estimate historical population size, demographic growth, and patterns of migration. Bayesian clustering identified three geographically separated demes found in the Northern, Central, and Eastern portions of the species' range. These demes varied significantly in nucleotide diversity, the abundance of private polymorphisms, and population substructure. Most measures supported the Central deme as descended from the primary refuge of diversity. Both SNPs and sequence data suggested recent population growth, and coalescent analyses of historical migration suggested a massive expansion from the Centre to the North and East. Collectively, these data demonstrate the strong influence that range expansions exert on genomic diversity, both within local populations and across the range. Our results suggest that an in-depth knowledge of nucleotide diversity following expansion requires sampling within multiple populations, and highlight the utility of combining insights from different data types in population genomic studies.
DOI: 10.1111/j.1365-294X.2010.04546.x
PubMed: 20163548
Affiliations:
Links toward previous steps (curation, corpus...)
Le document en format XML
<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Genomic diversity, population structure, and migration following rapid range expansion in the Balsam poplar, Populus balsamifera.</title><author><name sortKey="Keller, Stephen R" sort="Keller, Stephen R" uniqKey="Keller S" first="Stephen R" last="Keller">Stephen R. Keller</name><affiliation wicri:level="2"><nlm:affiliation>Department of Plant Biology, University of Minnesota, St. Paul, MN 55108, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Plant Biology, University of Minnesota, St. Paul, MN 55108</wicri:regionArea><placeName><region type="state">Minnesota</region></placeName></affiliation></author><author><name sortKey="Olson, Matthew S" sort="Olson, Matthew S" uniqKey="Olson M" first="Matthew S" last="Olson">Matthew S. Olson</name></author><author><name sortKey="Silim, Salim" sort="Silim, Salim" uniqKey="Silim S" first="Salim" last="Silim">Salim Silim</name></author><author><name sortKey="Schroeder, William" sort="Schroeder, William" uniqKey="Schroeder W" first="William" last="Schroeder">William Schroeder</name></author><author><name sortKey="Tiffin, Peter" sort="Tiffin, Peter" uniqKey="Tiffin P" first="Peter" last="Tiffin">Peter Tiffin</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2010">2010</date><idno type="RBID">pubmed:20163548</idno><idno type="pmid">20163548</idno><idno type="doi">10.1111/j.1365-294X.2010.04546.x</idno><idno type="wicri:Area/Main/Corpus">003301</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Corpus" wicri:corpus="PubMed">003301</idno><idno type="wicri:Area/Main/Curation">003301</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Curation">003301</idno><idno type="wicri:Area/Main/Exploration">003301</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Genomic diversity, population structure, and migration following rapid range expansion in the Balsam poplar, Populus balsamifera.</title><author><name sortKey="Keller, Stephen R" sort="Keller, Stephen R" uniqKey="Keller S" first="Stephen R" last="Keller">Stephen R. Keller</name><affiliation wicri:level="2"><nlm:affiliation>Department of Plant Biology, University of Minnesota, St. Paul, MN 55108, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Plant Biology, University of Minnesota, St. Paul, MN 55108</wicri:regionArea><placeName><region type="state">Minnesota</region></placeName></affiliation></author><author><name sortKey="Olson, Matthew S" sort="Olson, Matthew S" uniqKey="Olson M" first="Matthew S" last="Olson">Matthew S. Olson</name></author><author><name sortKey="Silim, Salim" sort="Silim, Salim" uniqKey="Silim S" first="Salim" last="Silim">Salim Silim</name></author><author><name sortKey="Schroeder, William" sort="Schroeder, William" uniqKey="Schroeder W" first="William" last="Schroeder">William Schroeder</name></author><author><name sortKey="Tiffin, Peter" sort="Tiffin, Peter" uniqKey="Tiffin P" first="Peter" last="Tiffin">Peter Tiffin</name></author></analytic><series><title level="j">Molecular ecology</title><idno type="eISSN">1365-294X</idno><imprint><date when="2010" type="published">2010</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Bayes Theorem (MeSH)</term><term>Cluster Analysis (MeSH)</term><term>DNA, Plant (genetics)</term><term>Evolution, Molecular (MeSH)</term><term>Genetic Variation (MeSH)</term><term>Genetics, Population (MeSH)</term><term>Genome, Plant (MeSH)</term><term>Genotype (MeSH)</term><term>Geography (MeSH)</term><term>Models, Genetic (MeSH)</term><term>North America (MeSH)</term><term>Polymorphism, Single Nucleotide (MeSH)</term><term>Populus (genetics)</term><term>Sequence Analysis, DNA (MeSH)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>ADN des plantes (génétique)</term><term>Amérique du Nord (MeSH)</term><term>Analyse de regroupements (MeSH)</term><term>Analyse de séquence d'ADN (MeSH)</term><term>Génome végétal (MeSH)</term><term>Génotype (MeSH)</term><term>Génétique des populations (MeSH)</term><term>Géographie (MeSH)</term><term>Modèles génétiques (MeSH)</term><term>Polymorphisme de nucléotide simple (MeSH)</term><term>Populus (génétique)</term><term>Théorème de Bayes (MeSH)</term><term>Variation génétique (MeSH)</term><term>Évolution moléculaire (MeSH)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>DNA, Plant</term></keywords><keywords scheme="MESH" type="geographic" xml:lang="en"><term>North America</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Populus</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>ADN des plantes</term><term>Populus</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Bayes Theorem</term><term>Cluster Analysis</term><term>Evolution, Molecular</term><term>Genetic Variation</term><term>Genetics, Population</term><term>Genome, Plant</term><term>Genotype</term><term>Geography</term><term>Models, Genetic</term><term>Polymorphism, Single Nucleotide</term><term>Sequence Analysis, DNA</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Amérique du Nord</term><term>Analyse de regroupements</term><term>Analyse de séquence d'ADN</term><term>Génome végétal</term><term>Génotype</term><term>Génétique des populations</term><term>Géographie</term><term>Modèles génétiques</term><term>Polymorphisme de nucléotide simple</term><term>Théorème de Bayes</term><term>Variation génétique</term><term>Évolution moléculaire</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Rapid range expansions can cause pervasive changes in the genetic diversity and structure of populations. The postglacial history of the Balsam Poplar, Populus balsamifera, involved the colonization of most of northern North America, an area largely covered by continental ice sheets during the last glacial maximum. To characterize how this expansion shaped genomic diversity within and among populations, we developed 412 SNP markers that we assayed for a range-wide sample of 474 individuals sampled from 34 populations. We complemented the SNP data set with DNA sequence data from 11 nuclear loci from 94 individuals, and used coalescent analyses to estimate historical population size, demographic growth, and patterns of migration. Bayesian clustering identified three geographically separated demes found in the Northern, Central, and Eastern portions of the species' range. These demes varied significantly in nucleotide diversity, the abundance of private polymorphisms, and population substructure. Most measures supported the Central deme as descended from the primary refuge of diversity. Both SNPs and sequence data suggested recent population growth, and coalescent analyses of historical migration suggested a massive expansion from the Centre to the North and East. Collectively, these data demonstrate the strong influence that range expansions exert on genomic diversity, both within local populations and across the range. Our results suggest that an in-depth knowledge of nucleotide diversity following expansion requires sampling within multiple populations, and highlight the utility of combining insights from different data types in population genomic studies.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">20163548</PMID><DateCompleted><Year>2010</Year><Month>06</Month><Day>28</Day></DateCompleted><DateRevised><Year>2010</Year><Month>05</Month><Day>11</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1365-294X</ISSN><JournalIssue CitedMedium="Internet"><Volume>19</Volume><Issue>6</Issue><PubDate><Year>2010</Year><Month>Mar</Month></PubDate></JournalIssue><Title>Molecular ecology</Title><ISOAbbreviation>Mol Ecol</ISOAbbreviation></Journal><ArticleTitle>Genomic diversity, population structure, and migration following rapid range expansion in the Balsam poplar, Populus balsamifera.</ArticleTitle><Pagination><MedlinePgn>1212-26</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1111/j.1365-294X.2010.04546.x</ELocationID><Abstract><AbstractText>Rapid range expansions can cause pervasive changes in the genetic diversity and structure of populations. The postglacial history of the Balsam Poplar, Populus balsamifera, involved the colonization of most of northern North America, an area largely covered by continental ice sheets during the last glacial maximum. To characterize how this expansion shaped genomic diversity within and among populations, we developed 412 SNP markers that we assayed for a range-wide sample of 474 individuals sampled from 34 populations. We complemented the SNP data set with DNA sequence data from 11 nuclear loci from 94 individuals, and used coalescent analyses to estimate historical population size, demographic growth, and patterns of migration. Bayesian clustering identified three geographically separated demes found in the Northern, Central, and Eastern portions of the species' range. These demes varied significantly in nucleotide diversity, the abundance of private polymorphisms, and population substructure. Most measures supported the Central deme as descended from the primary refuge of diversity. Both SNPs and sequence data suggested recent population growth, and coalescent analyses of historical migration suggested a massive expansion from the Centre to the North and East. Collectively, these data demonstrate the strong influence that range expansions exert on genomic diversity, both within local populations and across the range. Our results suggest that an in-depth knowledge of nucleotide diversity following expansion requires sampling within multiple populations, and highlight the utility of combining insights from different data types in population genomic studies.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Keller</LastName><ForeName>Stephen R</ForeName><Initials>SR</Initials><AffiliationInfo><Affiliation>Department of Plant Biology, University of Minnesota, St. Paul, MN 55108, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Olson</LastName><ForeName>Matthew S</ForeName><Initials>MS</Initials></Author><Author ValidYN="Y"><LastName>Silim</LastName><ForeName>Salim</ForeName><Initials>S</Initials></Author><Author ValidYN="Y"><LastName>Schroeder</LastName><ForeName>William</ForeName><Initials>W</Initials></Author><Author ValidYN="Y"><LastName>Tiffin</LastName><ForeName>Peter</ForeName><Initials>P</Initials></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013486">Research Support, U.S. Gov't, Non-P.H.S.</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2010</Year><Month>02</Month><Day>15</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>Mol Ecol</MedlineTA><NlmUniqueID>9214478</NlmUniqueID><ISSNLinking>0962-1083</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D018744">DNA, Plant</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><CommentsCorrectionsList><CommentsCorrections RefType="CommentIn"><RefSource>Mol Ecol. 2010 Mar;19(6):1075-8</RefSource><PMID Version="1">20456223</PMID></CommentsCorrections></CommentsCorrectionsList><MeshHeadingList><MeshHeading><DescriptorName UI="D001499" MajorTopicYN="N">Bayes Theorem</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D016000" MajorTopicYN="N">Cluster Analysis</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D018744" MajorTopicYN="N">DNA, Plant</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D019143" MajorTopicYN="N">Evolution, Molecular</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D014644" MajorTopicYN="Y">Genetic Variation</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D005828" MajorTopicYN="Y">Genetics, Population</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D018745" MajorTopicYN="Y">Genome, Plant</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D005838" MajorTopicYN="N">Genotype</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D005843" MajorTopicYN="N">Geography</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D008957" MajorTopicYN="N">Models, Genetic</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D009656" MajorTopicYN="N" Type="Geographic">North America</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D020641" MajorTopicYN="N">Polymorphism, Single Nucleotide</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D032107" MajorTopicYN="N">Populus</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D017422" MajorTopicYN="N">Sequence Analysis, DNA</DescriptorName></MeshHeading></MeshHeadingList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="entrez"><Year>2010</Year><Month>2</Month><Day>19</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2010</Year><Month>2</Month><Day>19</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2010</Year><Month>6</Month><Day>29</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">20163548</ArticleId><ArticleId IdType="pii">MEC4546</ArticleId><ArticleId IdType="doi">10.1111/j.1365-294X.2010.04546.x</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list><country><li>États-Unis</li></country><region><li>Minnesota</li></region></list><tree><noCountry><name sortKey="Olson, Matthew S" sort="Olson, Matthew S" uniqKey="Olson M" first="Matthew S" last="Olson">Matthew S. Olson</name><name sortKey="Schroeder, William" sort="Schroeder, William" uniqKey="Schroeder W" first="William" last="Schroeder">William Schroeder</name><name sortKey="Silim, Salim" sort="Silim, Salim" uniqKey="Silim S" first="Salim" last="Silim">Salim Silim</name><name sortKey="Tiffin, Peter" sort="Tiffin, Peter" uniqKey="Tiffin P" first="Peter" last="Tiffin">Peter Tiffin</name></noCountry><country name="États-Unis"><region name="Minnesota"><name sortKey="Keller, Stephen R" sort="Keller, Stephen R" uniqKey="Keller S" first="Stephen R" last="Keller">Stephen R. Keller</name></region></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
EXPLOR_STEP=$WICRI_ROOT/Bois/explor/PoplarV1/Data/Main/Exploration
HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 003240 | SxmlIndent | more
Ou
HfdSelect -h $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd -nk 003240 | SxmlIndent | more
Pour mettre un lien sur cette page dans le réseau Wicri
{{Explor lien
|wiki= Bois
|area= PoplarV1
|flux= Main
|étape= Exploration
|type= RBID
|clé= pubmed:20163548
|texte= Genomic diversity, population structure, and migration following rapid range expansion in the Balsam poplar, Populus balsamifera.
}}
Pour générer des pages wiki
HfdIndexSelect -h $EXPLOR_AREA/Data/Main/Exploration/RBID.i -Sk "pubmed:20163548" \
| HfdSelect -Kh $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd \
| NlmPubMed2Wicri -a PoplarV1
| This area was generated with Dilib version V0.6.37. |  |