Polymorphic simple sequence repeat (SSR) loci within cellulose synthase (PtoCesA) genes are associated with growth and wood properties in Populus tomentosa.
Identifieur interne : 002540 ( Main/Exploration ); précédent : 002539; suivant : 002541Polymorphic simple sequence repeat (SSR) loci within cellulose synthase (PtoCesA) genes are associated with growth and wood properties in Populus tomentosa.
Auteurs : Qingzhang Du [République populaire de Chine] ; Wei Pan ; Baohua Xu ; Bailian Li ; Deqiang ZhangSource :
- The New phytologist [ 1469-8137 ] ; 2013.
Descripteurs français
- KwdFr :
- Allèles (MeSH), Cartographie chromosomique (MeSH), Déséquilibre de liaison (MeSH), Glucosyltransferases (composition chimique), Glucosyltransferases (génétique), Haplotypes (MeSH), Lignine (biosynthèse), Marqueurs génétiques (MeSH), Populus (anatomie et histologie), Populus (croissance et développement), Populus (génétique), Répétitions microsatellites (MeSH), Études d'associations génétiques (MeSH).
- MESH :
- anatomie et histologie : Populus.
- biosynthèse : Lignine.
- composition chimique : Glucosyltransferases.
- croissance et développement : Populus.
- génétique : Glucosyltransferases, Populus.
- Allèles, Cartographie chromosomique, Déséquilibre de liaison, Haplotypes, Marqueurs génétiques, Répétitions microsatellites, Études d'associations génétiques.
English descriptors
- KwdEn :
- Alleles (MeSH), Chromosome Mapping (MeSH), Genetic Association Studies (MeSH), Genetic Markers (MeSH), Glucosyltransferases (chemistry), Glucosyltransferases (genetics), Haplotypes (MeSH), Lignin (biosynthesis), Linkage Disequilibrium (MeSH), Microsatellite Repeats (MeSH), Populus (anatomy & histology), Populus (genetics), Populus (growth & development).
- MESH :
- chemical , biosynthesis : Lignin.
- chemical , chemistry : Glucosyltransferases.
- chemical , genetics : Glucosyltransferases.
- chemical : Genetic Markers.
- anatomy & histology : Populus.
- genetics : Populus.
- growth & development : Populus.
- Alleles, Chromosome Mapping, Genetic Association Studies, Haplotypes, Linkage Disequilibrium, Microsatellite Repeats.
Abstract
Chinese white poplar (Populus tomentosa), an important commercial tree species for timber and pulp production in northern China, has been used to examine the individual genes and allelic diversity responsible for complex traits controlling growth and lignocellulosic biosynthesis. Taking advantage of the low degree of linkage disequilibrium (LD) within P. tomentosa association populations, we examined associations between 15 cellulose synthase (PtoCesA) genes and traits including growth and wood properties. Thirty-six novel simple sequence repeat (SSR) markers within PtoCesA genes were detected by re-sequencing and genotyped in an association population (460 individuals). Single-marker and haplotype-based LD approaches were used to identify significant marker-trait associations. Family-based linkage studies and real-time PCR testing were conducted to validate the functional significance of SSR variation. Fifteen single-marker associations from seven PtoCesA genes and nine haplotype-based associations within six genes were identified in the association population (false discovery rate Q < 0.05). Next, five SSR marker-trait associations (Q < 0.05) from four PtoCesA genes were successfully validated in a linkage mapping population (1200 individuals). The results imply a functional role for these genes in mediating wood properties, demonstrating the potential of combining single-marker and haplotype-based LD approaches to detect functional allelic variation underlying quantitative traits in a low-LD population.
DOI: 10.1111/nph.12072
PubMed: 23278184
Affiliations:
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sortKey="Pan, Wei" sort="Pan, Wei" uniqKey="Pan W" first="Wei" last="Pan">Wei Pan</name></author><author><name sortKey="Xu, Baohua" sort="Xu, Baohua" uniqKey="Xu B" first="Baohua" last="Xu">Baohua Xu</name></author><author><name sortKey="Li, Bailian" sort="Li, Bailian" uniqKey="Li B" first="Bailian" last="Li">Bailian Li</name></author><author><name sortKey="Zhang, Deqiang" sort="Zhang, Deqiang" uniqKey="Zhang D" first="Deqiang" last="Zhang">Deqiang Zhang</name></author></analytic><series><title level="j">The New phytologist</title><idno type="eISSN">1469-8137</idno><imprint><date when="2013" type="published">2013</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Alleles (MeSH)</term><term>Chromosome Mapping (MeSH)</term><term>Genetic Association Studies (MeSH)</term><term>Genetic Markers (MeSH)</term><term>Glucosyltransferases (chemistry)</term><term>Glucosyltransferases (genetics)</term><term>Haplotypes (MeSH)</term><term>Lignin (biosynthesis)</term><term>Linkage Disequilibrium (MeSH)</term><term>Microsatellite Repeats (MeSH)</term><term>Populus (anatomy & histology)</term><term>Populus (genetics)</term><term>Populus (growth & development)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Allèles (MeSH)</term><term>Cartographie chromosomique (MeSH)</term><term>Déséquilibre de liaison (MeSH)</term><term>Glucosyltransferases (composition chimique)</term><term>Glucosyltransferases (génétique)</term><term>Haplotypes (MeSH)</term><term>Lignine (biosynthèse)</term><term>Marqueurs génétiques (MeSH)</term><term>Populus (anatomie et histologie)</term><term>Populus (croissance et développement)</term><term>Populus (génétique)</term><term>Répétitions microsatellites (MeSH)</term><term>Études d'associations génétiques (MeSH)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="biosynthesis" xml:lang="en"><term>Lignin</term></keywords><keywords scheme="MESH" type="chemical" qualifier="chemistry" xml:lang="en"><term>Glucosyltransferases</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>Glucosyltransferases</term></keywords><keywords scheme="MESH" type="chemical" xml:lang="en"><term>Genetic Markers</term></keywords><keywords scheme="MESH" qualifier="anatomie et histologie" xml:lang="fr"><term>Populus</term></keywords><keywords scheme="MESH" qualifier="anatomy & histology" xml:lang="en"><term>Populus</term></keywords><keywords scheme="MESH" qualifier="biosynthèse" xml:lang="fr"><term>Lignine</term></keywords><keywords scheme="MESH" qualifier="composition chimique" xml:lang="fr"><term>Glucosyltransferases</term></keywords><keywords scheme="MESH" qualifier="croissance et développement" xml:lang="fr"><term>Populus</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Populus</term></keywords><keywords scheme="MESH" qualifier="growth & development" xml:lang="en"><term>Populus</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Glucosyltransferases</term><term>Populus</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Alleles</term><term>Chromosome Mapping</term><term>Genetic Association Studies</term><term>Haplotypes</term><term>Linkage Disequilibrium</term><term>Microsatellite Repeats</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Allèles</term><term>Cartographie chromosomique</term><term>Déséquilibre de liaison</term><term>Haplotypes</term><term>Marqueurs génétiques</term><term>Répétitions microsatellites</term><term>Études d'associations génétiques</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Chinese white poplar (Populus tomentosa), an important commercial tree species for timber and pulp production in northern China, has been used to examine the individual genes and allelic diversity responsible for complex traits controlling growth and lignocellulosic biosynthesis. Taking advantage of the low degree of linkage disequilibrium (LD) within P. tomentosa association populations, we examined associations between 15 cellulose synthase (PtoCesA) genes and traits including growth and wood properties. Thirty-six novel simple sequence repeat (SSR) markers within PtoCesA genes were detected by re-sequencing and genotyped in an association population (460 individuals). Single-marker and haplotype-based LD approaches were used to identify significant marker-trait associations. Family-based linkage studies and real-time PCR testing were conducted to validate the functional significance of SSR variation. Fifteen single-marker associations from seven PtoCesA genes and nine haplotype-based associations within six genes were identified in the association population (false discovery rate Q < 0.05). Next, five SSR marker-trait associations (Q < 0.05) from four PtoCesA genes were successfully validated in a linkage mapping population (1200 individuals). The results imply a functional role for these genes in mediating wood properties, demonstrating the potential of combining single-marker and haplotype-based LD approaches to detect functional allelic variation underlying quantitative traits in a low-LD population.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">23278184</PMID><DateCompleted><Year>2013</Year><Month>06</Month><Day>21</Day></DateCompleted><DateRevised><Year>2020</Year><Month>09</Month><Day>30</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1469-8137</ISSN><JournalIssue CitedMedium="Internet"><Volume>197</Volume><Issue>3</Issue><PubDate><Year>2013</Year><Month>Feb</Month></PubDate></JournalIssue><Title>The New phytologist</Title><ISOAbbreviation>New Phytol</ISOAbbreviation></Journal><ArticleTitle>Polymorphic simple sequence repeat (SSR) loci within cellulose synthase (PtoCesA) genes are associated with growth and wood properties in Populus tomentosa.</ArticleTitle><Pagination><MedlinePgn>763-76</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1111/nph.12072</ELocationID><Abstract><AbstractText>Chinese white poplar (Populus tomentosa), an important commercial tree species for timber and pulp production in northern China, has been used to examine the individual genes and allelic diversity responsible for complex traits controlling growth and lignocellulosic biosynthesis. Taking advantage of the low degree of linkage disequilibrium (LD) within P. tomentosa association populations, we examined associations between 15 cellulose synthase (PtoCesA) genes and traits including growth and wood properties. Thirty-six novel simple sequence repeat (SSR) markers within PtoCesA genes were detected by re-sequencing and genotyped in an association population (460 individuals). Single-marker and haplotype-based LD approaches were used to identify significant marker-trait associations. Family-based linkage studies and real-time PCR testing were conducted to validate the functional significance of SSR variation. Fifteen single-marker associations from seven PtoCesA genes and nine haplotype-based associations within six genes were identified in the association population (false discovery rate Q < 0.05). Next, five SSR marker-trait associations (Q < 0.05) from four PtoCesA genes were successfully validated in a linkage mapping population (1200 individuals). The results imply a functional role for these genes in mediating wood properties, demonstrating the potential of combining single-marker and haplotype-based LD approaches to detect functional allelic variation underlying quantitative traits in a low-LD population.</AbstractText><CopyrightInformation>© 2012 The Authors. New Phytologist © 2012 New Phytologist Trust.</CopyrightInformation></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Du</LastName><ForeName>Qingzhang</ForeName><Initials>Q</Initials><AffiliationInfo><Affiliation>National Engineering Laboratory for Tree Breeding, College of Biological Sciences and Technology, Beijing Forestry University, No. 35, Qinghua East Road, Beijing, 100083, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Pan</LastName><ForeName>Wei</ForeName><Initials>W</Initials></Author><Author ValidYN="Y"><LastName>Xu</LastName><ForeName>Baohua</ForeName><Initials>B</Initials></Author><Author ValidYN="Y"><LastName>Li</LastName><ForeName>Bailian</ForeName><Initials>B</Initials></Author><Author ValidYN="Y"><LastName>Zhang</LastName><ForeName>Deqiang</ForeName><Initials>D</Initials></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2012</Year><Month>12</Month><Day>21</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>New Phytol</MedlineTA><NlmUniqueID>9882884</NlmUniqueID><ISSNLinking>0028-646X</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D005819">Genetic Markers</NameOfSubstance></Chemical><Chemical><RegistryNumber>11132-73-3</RegistryNumber><NameOfSubstance UI="C036909">lignocellulose</NameOfSubstance></Chemical><Chemical><RegistryNumber>9005-53-2</RegistryNumber><NameOfSubstance UI="D008031">Lignin</NameOfSubstance></Chemical><Chemical><RegistryNumber>EC 2.4.1.-</RegistryNumber><NameOfSubstance UI="D005964">Glucosyltransferases</NameOfSubstance></Chemical><Chemical><RegistryNumber>EC 2.4.1.-</RegistryNumber><NameOfSubstance UI="C478648">cellulose synthase</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D000483" MajorTopicYN="N">Alleles</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D002874" MajorTopicYN="N">Chromosome Mapping</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D056726" MajorTopicYN="N">Genetic Association Studies</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D005819" MajorTopicYN="N">Genetic Markers</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D005964" MajorTopicYN="N">Glucosyltransferases</DescriptorName><QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D006239" MajorTopicYN="N">Haplotypes</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D008031" MajorTopicYN="N">Lignin</DescriptorName><QualifierName UI="Q000096" MajorTopicYN="N">biosynthesis</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D015810" MajorTopicYN="N">Linkage Disequilibrium</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D018895" MajorTopicYN="Y">Microsatellite Repeats</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D032107" MajorTopicYN="N">Populus</DescriptorName><QualifierName UI="Q000033" MajorTopicYN="N">anatomy & histology</QualifierName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName><QualifierName UI="Q000254" MajorTopicYN="N">growth & development</QualifierName></MeshHeading></MeshHeadingList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2012</Year><Month>09</Month><Day>06</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2012</Year><Month>10</Month><Day>27</Day></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2013</Year><Month>1</Month><Day>3</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2013</Year><Month>1</Month><Day>3</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2013</Year><Month>6</Month><Day>25</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">23278184</ArticleId><ArticleId IdType="doi">10.1111/nph.12072</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list><country><li>République populaire de Chine</li></country></list><tree><noCountry><name sortKey="Li, Bailian" sort="Li, Bailian" uniqKey="Li B" first="Bailian" last="Li">Bailian Li</name><name sortKey="Pan, Wei" sort="Pan, Wei" uniqKey="Pan W" first="Wei" last="Pan">Wei Pan</name><name sortKey="Xu, Baohua" sort="Xu, Baohua" uniqKey="Xu B" first="Baohua" last="Xu">Baohua Xu</name><name sortKey="Zhang, Deqiang" sort="Zhang, Deqiang" uniqKey="Zhang D" first="Deqiang" last="Zhang">Deqiang Zhang</name></noCountry><country name="République populaire de Chine"><noRegion><name sortKey="Du, Qingzhang" sort="Du, Qingzhang" uniqKey="Du Q" first="Qingzhang" last="Du">Qingzhang Du</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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