PoplarV1, Main, Exploration, bibRecord, 003367

Association genetics of traits controlling lignin and cellulose biosynthesis in black cottonwood (Populus trichocarpa, Salicaceae) secondary xylem.

Identifieur interne : 003367 ( Main/Exploration ); précédent : 003366; suivant : 003368

Association genetics of traits controlling lignin and cellulose biosynthesis in black cottonwood (Populus trichocarpa, Salicaceae) secondary xylem.

Auteurs : Jill L. Wegrzyn [États-Unis] ; Andrew J. Eckert ; Minyoung Choi ; Jennifer M. Lee ; Brian J. Stanton ; Robert Sykes ; Mark F. Davis ; Chung-Jui Tsai ; David B. Neale

Source :

The New phytologist [ 1469-8137 ] ; 2010.

RBID : pubmed:20831625

Descripteurs français

English descriptors

KwdEn :
- Cellulose (biosynthesis), Genes, Plant (genetics), Genetic Association Studies (MeSH), Genetic Markers (MeSH), Geography (MeSH), Haplotypes (genetics), Lignin (biosynthesis), Linkage Disequilibrium (genetics), Mass Spectrometry (MeSH), Phenotype (MeSH), Polymorphism, Single Nucleotide (genetics), Population Dynamics (MeSH), Populus (genetics), Quantitative Trait, Heritable (MeSH), Xylem (genetics).
MESH :
- chemical , biosynthesis : Cellulose, Lignin.
- genetics : Genes, Plant, Haplotypes, Linkage Disequilibrium, Polymorphism, Single Nucleotide, Populus, Xylem.
- Genetic Association Studies, Genetic Markers, Geography, Mass Spectrometry, Phenotype, Population Dynamics, Quantitative Trait, Heritable.

Abstract

• An association genetics approach was used to examine individual genes and alleles at the loci responsible for complex traits controlling lignocellulosic biosynthesis in black cottonwood (Populus trichocarpa). Recent interest in poplars as a source of renewable energy, combined with the vast genomic resources available, has enabled further examination of their genetic diversity. • Forty candidate genes were resequenced in a panel of 15 unrelated individuals to identify single nucleotide polymorphisms (SNPs). Eight hundred and seventy-six SNPs were successfully genotyped in a clonally replicated population (448 clones). The association population (average of 2.4 ramets per clone) was phenotyped using pyrolysis molecular beam mass spectrometry. Both single-marker and haplotype-based association tests were implemented to identify associations for composite traits representing lignin content, syringyl : guaiacyl ratio and C6 sugars. • Twenty-seven highly significant, unique, single-marker associations (false discovery rate Q < 0.10) were identified across 40 candidate genes in three composite traits. Twenty-three significant haplotypes within 11 genes were discovered in two composite traits. • Given the rapid decay of within-gene linkage disequilibrium and the high coverage of amplicons across each gene, it is likely that the numerous polymorphisms identified are in close proximity to the causative SNPs and the haplotype associations reflect information present in the associations between markers.

DOI: 10.1111/j.1469-8137.2010.03415.x
PubMed: 20831625

Affiliations:

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Le document en format XML

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<series><title level="j">The New phytologist</title>
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<profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Cellulose (biosynthesis)</term>
<term>Genes, Plant (genetics)</term>
<term>Genetic Association Studies (MeSH)</term>
<term>Genetic Markers (MeSH)</term>
<term>Geography (MeSH)</term>
<term>Haplotypes (genetics)</term>
<term>Lignin (biosynthesis)</term>
<term>Linkage Disequilibrium (genetics)</term>
<term>Mass Spectrometry (MeSH)</term>
<term>Phenotype (MeSH)</term>
<term>Polymorphism, Single Nucleotide (genetics)</term>
<term>Population Dynamics (MeSH)</term>
<term>Populus (genetics)</term>
<term>Quantitative Trait, Heritable (MeSH)</term>
<term>Xylem (genetics)</term>
</keywords>
<keywords scheme="KwdFr" xml:lang="fr"><term>Caractère quantitatif héréditaire (MeSH)</term>
<term>Cellulose (biosynthèse)</term>
<term>Dynamique des populations (MeSH)</term>
<term>Déséquilibre de liaison (génétique)</term>
<term>Gènes de plante (génétique)</term>
<term>Géographie (MeSH)</term>
<term>Haplotypes (génétique)</term>
<term>Lignine (biosynthèse)</term>
<term>Marqueurs génétiques (MeSH)</term>
<term>Phénotype (MeSH)</term>
<term>Polymorphisme de nucléotide simple (génétique)</term>
<term>Populus (génétique)</term>
<term>Spectrométrie de masse (MeSH)</term>
<term>Xylème (génétique)</term>
<term>Études d'associations génétiques (MeSH)</term>
</keywords>
<keywords scheme="MESH" type="chemical" qualifier="biosynthesis" xml:lang="en"><term>Cellulose</term>
<term>Lignin</term>
</keywords>
<keywords scheme="MESH" qualifier="biosynthèse" xml:lang="fr"><term>Cellulose</term>
<term>Lignine</term>
</keywords>
<keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Genes, Plant</term>
<term>Haplotypes</term>
<term>Linkage Disequilibrium</term>
<term>Polymorphism, Single Nucleotide</term>
<term>Populus</term>
<term>Xylem</term>
</keywords>
<keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Déséquilibre de liaison</term>
<term>Gènes de plante</term>
<term>Haplotypes</term>
<term>Polymorphisme de nucléotide simple</term>
<term>Populus</term>
<term>Xylème</term>
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<keywords scheme="MESH" xml:lang="en"><term>Genetic Association Studies</term>
<term>Genetic Markers</term>
<term>Geography</term>
<term>Mass Spectrometry</term>
<term>Phenotype</term>
<term>Population Dynamics</term>
<term>Quantitative Trait, Heritable</term>
</keywords>
<keywords scheme="MESH" xml:lang="fr"><term>Caractère quantitatif héréditaire</term>
<term>Dynamique des populations</term>
<term>Géographie</term>
<term>Marqueurs génétiques</term>
<term>Phénotype</term>
<term>Spectrométrie de masse</term>
<term>Études d'associations génétiques</term>
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<front><div type="abstract" xml:lang="en">• An association genetics approach was used to examine individual genes and alleles at the loci responsible for complex traits controlling lignocellulosic biosynthesis in black cottonwood (Populus trichocarpa). Recent interest in poplars as a source of renewable energy, combined with the vast genomic resources available, has enabled further examination of their genetic diversity. • Forty candidate genes were resequenced in a panel of 15 unrelated individuals to identify single nucleotide polymorphisms (SNPs). Eight hundred and seventy-six SNPs were successfully genotyped in a clonally replicated population (448 clones). The association population (average of 2.4 ramets per clone) was phenotyped using pyrolysis molecular beam mass spectrometry. Both single-marker and haplotype-based association tests were implemented to identify associations for composite traits representing lignin content, syringyl : guaiacyl ratio and C6 sugars. • Twenty-seven highly significant, unique, single-marker associations (false discovery rate Q < 0.10) were identified across 40 candidate genes in three composite traits. Twenty-three significant haplotypes within 11 genes were discovered in two composite traits. • Given the rapid decay of within-gene linkage disequilibrium and the high coverage of amplicons across each gene, it is likely that the numerous polymorphisms identified are in close proximity to the causative SNPs and the haplotype associations reflect information present in the associations between markers.</div>
</front>
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<ArticleTitle>Association genetics of traits controlling lignin and cellulose biosynthesis in black cottonwood (Populus trichocarpa, Salicaceae) secondary xylem.</ArticleTitle>
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<Abstract><AbstractText>• An association genetics approach was used to examine individual genes and alleles at the loci responsible for complex traits controlling lignocellulosic biosynthesis in black cottonwood (Populus trichocarpa). Recent interest in poplars as a source of renewable energy, combined with the vast genomic resources available, has enabled further examination of their genetic diversity. • Forty candidate genes were resequenced in a panel of 15 unrelated individuals to identify single nucleotide polymorphisms (SNPs). Eight hundred and seventy-six SNPs were successfully genotyped in a clonally replicated population (448 clones). The association population (average of 2.4 ramets per clone) was phenotyped using pyrolysis molecular beam mass spectrometry. Both single-marker and haplotype-based association tests were implemented to identify associations for composite traits representing lignin content, syringyl : guaiacyl ratio and C6 sugars. • Twenty-seven highly significant, unique, single-marker associations (false discovery rate Q < 0.10) were identified across 40 candidate genes in three composite traits. Twenty-three significant haplotypes within 11 genes were discovered in two composite traits. • Given the rapid decay of within-gene linkage disequilibrium and the high coverage of amplicons across each gene, it is likely that the numerous polymorphisms identified are in close proximity to the causative SNPs and the haplotype associations reflect information present in the associations between markers.</AbstractText>
<CopyrightInformation>No claim to original US government works. Journal compilation © New Phytologist Trust (2010).</CopyrightInformation>
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Association genetics of traits controlling lignin and cellulose biosynthesis in black cottonwood (Populus trichocarpa, Salicaceae) secondary xylem.

Association genetics of traits controlling lignin and cellulose biosynthesis in black cottonwood (Populus trichocarpa, Salicaceae) secondary xylem.

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