A dense linkage map of hybrid cottonwood (Populus fremontii x P. angustifolia) contributes to long-term ecological research and comparison mapping in a model forest tree.
Identifieur interne : 003A09 ( Main/Exploration ); précédent : 003A08; suivant : 003A10A dense linkage map of hybrid cottonwood (Populus fremontii x P. angustifolia) contributes to long-term ecological research and comparison mapping in a model forest tree.
Auteurs : S A Woolbright [États-Unis] ; S P Difazio ; T. Yin ; G D Martinsen ; X. Zhang ; G J Allan ; T G Whitham ; P. KeimSource :
- Heredity [ 1365-2540 ] ; 2008.
Descripteurs français
- KwdFr :
- Arbres (classification), Arbres (génétique), Cartographie chromosomique (MeSH), Chimère (MeSH), Déséquilibre de liaison (MeSH), Génome végétal (MeSH), Génétique des populations (MeSH), Liaison génétique (MeSH), Marqueurs génétiques (génétique), Modèles biologiques (MeSH), Polymorphisme de restriction (génétique), Populus (classification), Populus (génétique), Écologie (MeSH).
- MESH :
English descriptors
- KwdEn :
- Chimera (MeSH), Chromosome Mapping (MeSH), Ecology (MeSH), Genetic Linkage (MeSH), Genetic Markers (genetics), Genetics, Population (MeSH), Genome, Plant (MeSH), Linkage Disequilibrium (MeSH), Models, Biological (MeSH), Polymorphism, Restriction Fragment Length (genetics), Populus (classification), Populus (genetics), Trees (classification), Trees (genetics).
- MESH :
- chemical , genetics : Genetic Markers.
- classification : Populus, Trees.
- genetics : Polymorphism, Restriction Fragment Length, Populus, Trees.
- Chimera, Chromosome Mapping, Ecology, Genetic Linkage, Genetics, Population, Genome, Plant, Linkage Disequilibrium, Models, Biological.
Abstract
Cottonwoods are foundation riparian species, and hybridization among species is known to produce ecological effects at levels higher than the population, including effects on dependent species, communities and ecosystems. Because these patterns result from increased genetic variation in key cottonwood traits, novel applications of genetic tools (for example, QTL mapping) could be used to place broad-scale ecological research into a genomic perspective. In addition, linkage maps have been produced for numerous species within the genus, and, coupled with the recent publication of the Populus genome sequence, these maps present a unique opportunity for genome comparisons in a model system. Here, we conducted linkage analyses in order to (1) create a platform for QTL and candidate gene studies of ecologically important traits, (2) create a framework for chromosomal-scale perspectives of introgression in a natural population, and (3) enhance genome-wide comparisons using two previously unmapped species. We produced 246 backcross mapping (BC(1)) progeny by crossing a naturally occurring F(1) hybrid (Populus fremontii x P. angustifolia) to a pure P. angustifolia from the same population. Linkage analysis resulted in a dense linkage map of 541 AFLP and 111 SSR markers distributed across 19 linkage groups. These results compared favorably with other Populus linkage studies, and addition of SSR loci from the poplar genome project provided coarse alignment with the genome sequence. Preliminary applications of the data suggest that our map represents a useful framework for applying genomic research to ecological questions in a well-studied system, and has enhanced genome-wide comparisons in a model tree.
DOI: 10.1038/sj.hdy.6801063
PubMed: 17895905
Affiliations:
Links toward previous steps (curation, corpus...)
Le document en format XML
<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">A dense linkage map of hybrid cottonwood (Populus fremontii x P. angustifolia) contributes to long-term ecological research and comparison mapping in a model forest tree.</title><author><name sortKey="Woolbright, S A" sort="Woolbright, S A" uniqKey="Woolbright S" first="S A" last="Woolbright">S A Woolbright</name><affiliation wicri:level="2"><nlm:affiliation>Department of Biological Sciences, Environmental Genetics and Genomics (EnGGen) Facility, Northern Arizona University, Flagstaff, AZ, USA. Scott.Woolbright@nau.edu</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Biological Sciences, Environmental Genetics and Genomics (EnGGen) Facility, Northern Arizona University, Flagstaff, AZ</wicri:regionArea><placeName><region type="state">Arizona</region></placeName></affiliation></author><author><name sortKey="Difazio, S P" sort="Difazio, S P" uniqKey="Difazio S" first="S P" last="Difazio">S P Difazio</name></author><author><name sortKey="Yin, T" sort="Yin, T" uniqKey="Yin T" first="T" last="Yin">T. Yin</name></author><author><name sortKey="Martinsen, G D" sort="Martinsen, G D" uniqKey="Martinsen G" first="G D" last="Martinsen">G D Martinsen</name></author><author><name sortKey="Zhang, X" sort="Zhang, X" uniqKey="Zhang X" first="X" last="Zhang">X. Zhang</name></author><author><name sortKey="Allan, G J" sort="Allan, G J" uniqKey="Allan G" first="G J" last="Allan">G J Allan</name></author><author><name sortKey="Whitham, T G" sort="Whitham, T G" uniqKey="Whitham T" first="T G" last="Whitham">T G Whitham</name></author><author><name sortKey="Keim, P" sort="Keim, P" uniqKey="Keim P" first="P" last="Keim">P. Keim</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2008">2008</date><idno type="RBID">pubmed:17895905</idno><idno type="pmid">17895905</idno><idno type="doi">10.1038/sj.hdy.6801063</idno><idno type="wicri:Area/Main/Corpus">003A67</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Corpus" wicri:corpus="PubMed">003A67</idno><idno type="wicri:Area/Main/Curation">003A67</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Curation">003A67</idno><idno type="wicri:Area/Main/Exploration">003A67</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">A dense linkage map of hybrid cottonwood (Populus fremontii x P. angustifolia) contributes to long-term ecological research and comparison mapping in a model forest tree.</title><author><name sortKey="Woolbright, S A" sort="Woolbright, S A" uniqKey="Woolbright S" first="S A" last="Woolbright">S A Woolbright</name><affiliation wicri:level="2"><nlm:affiliation>Department of Biological Sciences, Environmental Genetics and Genomics (EnGGen) Facility, Northern Arizona University, Flagstaff, AZ, USA. Scott.Woolbright@nau.edu</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Biological Sciences, Environmental Genetics and Genomics (EnGGen) Facility, Northern Arizona University, Flagstaff, AZ</wicri:regionArea><placeName><region type="state">Arizona</region></placeName></affiliation></author><author><name sortKey="Difazio, S P" sort="Difazio, S P" uniqKey="Difazio S" first="S P" last="Difazio">S P Difazio</name></author><author><name sortKey="Yin, T" sort="Yin, T" uniqKey="Yin T" first="T" last="Yin">T. Yin</name></author><author><name sortKey="Martinsen, G D" sort="Martinsen, G D" uniqKey="Martinsen G" first="G D" last="Martinsen">G D Martinsen</name></author><author><name sortKey="Zhang, X" sort="Zhang, X" uniqKey="Zhang X" first="X" last="Zhang">X. Zhang</name></author><author><name sortKey="Allan, G J" sort="Allan, G J" uniqKey="Allan G" first="G J" last="Allan">G J Allan</name></author><author><name sortKey="Whitham, T G" sort="Whitham, T G" uniqKey="Whitham T" first="T G" last="Whitham">T G Whitham</name></author><author><name sortKey="Keim, P" sort="Keim, P" uniqKey="Keim P" first="P" last="Keim">P. Keim</name></author></analytic><series><title level="j">Heredity</title><idno type="eISSN">1365-2540</idno><imprint><date when="2008" type="published">2008</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Chimera (MeSH)</term><term>Chromosome Mapping (MeSH)</term><term>Ecology (MeSH)</term><term>Genetic Linkage (MeSH)</term><term>Genetic Markers (genetics)</term><term>Genetics, Population (MeSH)</term><term>Genome, Plant (MeSH)</term><term>Linkage Disequilibrium (MeSH)</term><term>Models, Biological (MeSH)</term><term>Polymorphism, Restriction Fragment Length (genetics)</term><term>Populus (classification)</term><term>Populus (genetics)</term><term>Trees (classification)</term><term>Trees (genetics)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Arbres (classification)</term><term>Arbres (génétique)</term><term>Cartographie chromosomique (MeSH)</term><term>Chimère (MeSH)</term><term>Déséquilibre de liaison (MeSH)</term><term>Génome végétal (MeSH)</term><term>Génétique des populations (MeSH)</term><term>Liaison génétique (MeSH)</term><term>Marqueurs génétiques (génétique)</term><term>Modèles biologiques (MeSH)</term><term>Polymorphisme de restriction (génétique)</term><term>Populus (classification)</term><term>Populus (génétique)</term><term>Écologie (MeSH)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>Genetic Markers</term></keywords><keywords scheme="MESH" qualifier="classification" xml:lang="en"><term>Populus</term><term>Trees</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Polymorphism, Restriction Fragment Length</term><term>Populus</term><term>Trees</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Arbres</term><term>Marqueurs génétiques</term><term>Polymorphisme de restriction</term><term>Populus</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Chimera</term><term>Chromosome Mapping</term><term>Ecology</term><term>Genetic Linkage</term><term>Genetics, Population</term><term>Genome, Plant</term><term>Linkage Disequilibrium</term><term>Models, Biological</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Cartographie chromosomique</term><term>Chimère</term><term>Déséquilibre de liaison</term><term>Génome végétal</term><term>Génétique des populations</term><term>Liaison génétique</term><term>Modèles biologiques</term><term>Écologie</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Cottonwoods are foundation riparian species, and hybridization among species is known to produce ecological effects at levels higher than the population, including effects on dependent species, communities and ecosystems. Because these patterns result from increased genetic variation in key cottonwood traits, novel applications of genetic tools (for example, QTL mapping) could be used to place broad-scale ecological research into a genomic perspective. In addition, linkage maps have been produced for numerous species within the genus, and, coupled with the recent publication of the Populus genome sequence, these maps present a unique opportunity for genome comparisons in a model system. Here, we conducted linkage analyses in order to (1) create a platform for QTL and candidate gene studies of ecologically important traits, (2) create a framework for chromosomal-scale perspectives of introgression in a natural population, and (3) enhance genome-wide comparisons using two previously unmapped species. We produced 246 backcross mapping (BC(1)) progeny by crossing a naturally occurring F(1) hybrid (Populus fremontii x P. angustifolia) to a pure P. angustifolia from the same population. Linkage analysis resulted in a dense linkage map of 541 AFLP and 111 SSR markers distributed across 19 linkage groups. These results compared favorably with other Populus linkage studies, and addition of SSR loci from the poplar genome project provided coarse alignment with the genome sequence. Preliminary applications of the data suggest that our map represents a useful framework for applying genomic research to ecological questions in a well-studied system, and has enhanced genome-wide comparisons in a model tree.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">17895905</PMID><DateCompleted><Year>2008</Year><Month>02</Month><Day>21</Day></DateCompleted><DateRevised><Year>2011</Year><Month>12</Month><Day>09</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1365-2540</ISSN><JournalIssue CitedMedium="Internet"><Volume>100</Volume><Issue>1</Issue><PubDate><Year>2008</Year><Month>Jan</Month></PubDate></JournalIssue><Title>Heredity</Title><ISOAbbreviation>Heredity (Edinb)</ISOAbbreviation></Journal><ArticleTitle>A dense linkage map of hybrid cottonwood (Populus fremontii x P. angustifolia) contributes to long-term ecological research and comparison mapping in a model forest tree.</ArticleTitle><Pagination><MedlinePgn>59-70</MedlinePgn></Pagination><Abstract><AbstractText>Cottonwoods are foundation riparian species, and hybridization among species is known to produce ecological effects at levels higher than the population, including effects on dependent species, communities and ecosystems. Because these patterns result from increased genetic variation in key cottonwood traits, novel applications of genetic tools (for example, QTL mapping) could be used to place broad-scale ecological research into a genomic perspective. In addition, linkage maps have been produced for numerous species within the genus, and, coupled with the recent publication of the Populus genome sequence, these maps present a unique opportunity for genome comparisons in a model system. Here, we conducted linkage analyses in order to (1) create a platform for QTL and candidate gene studies of ecologically important traits, (2) create a framework for chromosomal-scale perspectives of introgression in a natural population, and (3) enhance genome-wide comparisons using two previously unmapped species. We produced 246 backcross mapping (BC(1)) progeny by crossing a naturally occurring F(1) hybrid (Populus fremontii x P. angustifolia) to a pure P. angustifolia from the same population. Linkage analysis resulted in a dense linkage map of 541 AFLP and 111 SSR markers distributed across 19 linkage groups. These results compared favorably with other Populus linkage studies, and addition of SSR loci from the poplar genome project provided coarse alignment with the genome sequence. Preliminary applications of the data suggest that our map represents a useful framework for applying genomic research to ecological questions in a well-studied system, and has enhanced genome-wide comparisons in a model tree.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Woolbright</LastName><ForeName>S A</ForeName><Initials>SA</Initials><AffiliationInfo><Affiliation>Department of Biological Sciences, Environmental Genetics and Genomics (EnGGen) Facility, Northern Arizona University, Flagstaff, AZ, USA. Scott.Woolbright@nau.edu</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Difazio</LastName><ForeName>S P</ForeName><Initials>SP</Initials></Author><Author ValidYN="Y"><LastName>Yin</LastName><ForeName>T</ForeName><Initials>T</Initials></Author><Author ValidYN="Y"><LastName>Martinsen</LastName><ForeName>G D</ForeName><Initials>GD</Initials></Author><Author ValidYN="Y"><LastName>Zhang</LastName><ForeName>X</ForeName><Initials>X</Initials></Author><Author ValidYN="Y"><LastName>Allan</LastName><ForeName>G J</ForeName><Initials>GJ</Initials></Author><Author ValidYN="Y"><LastName>Whitham</LastName><ForeName>T G</ForeName><Initials>TG</Initials></Author><Author ValidYN="Y"><LastName>Keim</LastName><ForeName>P</ForeName><Initials>P</Initials></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D003160">Comparative Study</PublicationType><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType><PublicationType UI="D013486">Research Support, U.S. Gov't, Non-P.H.S.</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2007</Year><Month>09</Month><Day>26</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>Heredity (Edinb)</MedlineTA><NlmUniqueID>0373007</NlmUniqueID><ISSNLinking>0018-067X</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D005819">Genetic Markers</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D002678" MajorTopicYN="N">Chimera</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D002874" MajorTopicYN="Y">Chromosome Mapping</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D004463" MajorTopicYN="N">Ecology</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D008040" MajorTopicYN="Y">Genetic Linkage</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D005819" MajorTopicYN="N">Genetic Markers</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D005828" MajorTopicYN="N">Genetics, Population</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D018745" MajorTopicYN="N">Genome, Plant</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D015810" MajorTopicYN="N">Linkage Disequilibrium</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D008954" MajorTopicYN="N">Models, Biological</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D012150" MajorTopicYN="N">Polymorphism, Restriction Fragment Length</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D032107" MajorTopicYN="N">Populus</DescriptorName><QualifierName UI="Q000145" MajorTopicYN="Y">classification</QualifierName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D014197" MajorTopicYN="N">Trees</DescriptorName><QualifierName UI="Q000145" MajorTopicYN="N">classification</QualifierName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading></MeshHeadingList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="pubmed"><Year>2007</Year><Month>9</Month><Day>27</Day><Hour>9</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2008</Year><Month>2</Month><Day>22</Day><Hour>9</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2007</Year><Month>9</Month><Day>27</Day><Hour>9</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">17895905</ArticleId><ArticleId IdType="pii">6801063</ArticleId><ArticleId IdType="doi">10.1038/sj.hdy.6801063</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list><country><li>États-Unis</li></country><region><li>Arizona</li></region></list><tree><noCountry><name sortKey="Allan, G J" sort="Allan, G J" uniqKey="Allan G" first="G J" last="Allan">G J Allan</name><name sortKey="Difazio, S P" sort="Difazio, S P" uniqKey="Difazio S" first="S P" last="Difazio">S P Difazio</name><name sortKey="Keim, P" sort="Keim, P" uniqKey="Keim P" first="P" last="Keim">P. Keim</name><name sortKey="Martinsen, G D" sort="Martinsen, G D" uniqKey="Martinsen G" first="G D" last="Martinsen">G D Martinsen</name><name sortKey="Whitham, T G" sort="Whitham, T G" uniqKey="Whitham T" first="T G" last="Whitham">T G Whitham</name><name sortKey="Yin, T" sort="Yin, T" uniqKey="Yin T" first="T" last="Yin">T. Yin</name><name sortKey="Zhang, X" sort="Zhang, X" uniqKey="Zhang X" first="X" last="Zhang">X. Zhang</name></noCountry><country name="États-Unis"><region name="Arizona"><name sortKey="Woolbright, S A" sort="Woolbright, S A" uniqKey="Woolbright S" first="S A" last="Woolbright">S A Woolbright</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 003A09 | SxmlIndent | more
Ou
HfdSelect -h $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd -nk 003A09 | 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:17895905
|texte= A dense linkage map of hybrid cottonwood (Populus fremontii x P. angustifolia) contributes to long-term ecological research and comparison mapping in a model forest tree.
}}
Pour générer des pages wiki
HfdIndexSelect -h $EXPLOR_AREA/Data/Main/Exploration/RBID.i -Sk "pubmed:17895905" \
| HfdSelect -Kh $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd \
| NlmPubMed2Wicri -a PoplarV1
| This area was generated with Dilib version V0.6.37. |  |