Single-nucleotide polymorphisms in PtoCesA7 and their association with growth and wood properties in Populus tomentosa.
Identifieur interne : 002050 ( Main/Exploration ); précédent : 002049; suivant : 002051Single-nucleotide polymorphisms in PtoCesA7 and their association with growth and wood properties in Populus tomentosa.
Auteurs : Jiaxing Tian [République populaire de Chine] ; Mengqi Chang ; Qingzhang Du ; Baohua Xu ; Deqiang ZhangSource :
- Molecular genetics and genomics : MGG [ 1617-4623 ] ; 2014.
Descripteurs français
- KwdFr :
- Bois (composition chimique), Bois (génétique), Clonage moléculaire (MeSH), Données de séquences moléculaires (MeSH), Déséquilibre de liaison (MeSH), Expression des gènes (MeSH), Glucosyltransferases (génétique), Gènes de plante (MeSH), Génotype (MeSH), Haplotypes (MeSH), Phénotype (MeSH), Polymorphisme de nucléotide simple (MeSH), Populus (classification), Populus (croissance et développement), Populus (génétique), Reproductibilité des résultats (MeSH), Spécificité d'organe (MeSH), Études d'associations génétiques (MeSH).
- MESH :
- composition chimique : Bois, Populus.
- croissance et développement : Populus.
- génétique : Bois, Glucosyltransferases, Populus.
- Clonage moléculaire, Données de séquences moléculaires, Déséquilibre de liaison, Expression des gènes, Gènes de plante, Génotype, Haplotypes, Phénotype, Polymorphisme de nucléotide simple, Reproductibilité des résultats, Spécificité d'organe, Études d'associations génétiques.
English descriptors
- KwdEn :
- Cloning, Molecular (MeSH), Gene Expression (MeSH), Genes, Plant (MeSH), Genetic Association Studies (MeSH), Genotype (MeSH), Glucosyltransferases (genetics), Haplotypes (MeSH), Linkage Disequilibrium (MeSH), Molecular Sequence Data (MeSH), Organ Specificity (MeSH), Phenotype (MeSH), Polymorphism, Single Nucleotide (MeSH), Populus (classification), Populus (genetics), Populus (growth & development), Reproducibility of Results (MeSH), Wood (chemistry), Wood (genetics).
- MESH :
- chemical , genetics : Glucosyltransferases.
- chemistry : Wood.
- classification : Populus.
- genetics : Populus, Wood.
- growth & development : Populus.
- Cloning, Molecular, Gene Expression, Genes, Plant, Genetic Association Studies, Genotype, Haplotypes, Linkage Disequilibrium, Molecular Sequence Data, Organ Specificity, Phenotype, Polymorphism, Single Nucleotide, Reproducibility of Results.
Abstract
Cellulose synthase (CesA) genes encode the enzymes that synthesize cellulose; therefore, CesAs play central roles in plant development and affect the yield and quality of wood, essential properties for industrial applications of plant biomass. To effectively manipulate wood biosynthesis in trees and improve wood quality, we thus require a better understanding of the natural variation in CesAs. Association studies have emerged as a powerful tool for identification of variation associated with quantitative traits. Here, we used a candidate gene-based association mapping approach to identify PtoCesA7 allelic variants that associate with growth and wood quality traits in Populus tomentosa. We isolated a full-length PtoCesA7 cDNA and observed high PtoCesA7 expression in xylem, consistent with the xylem-specific expression of CesA7. Nucleotide diversity and linkage disequilibrium (LD) in PtoCesA7, sampled from the P. tomentosa natural distribution, revealed that PtoCesA7 harbors high nucleotide diversity (π(T) = 0.0091) and low LD (r(2) ≥ 0.1, within 800 bp). By association analysis, we identified seven single-nucleotide polymorphisms (SNPs) (false discovery rate Q < 0.10) and 12 haplotypes (Q < 0.10) that associated with growth and wood properties, explaining 3.62-10.59 % of the phenotypic variance. We also validated 9 of the 10 significant marker-trait associations in at least one of three smaller subsets (climatic regions) or in a linkage-mapping population. Thus, our study identified functional PtoCesA7 allelic variants associated with growth and wood quality traits, giving new insights into genes affecting wood quality and quantity. From an applied perspective, the SNPs revealed in this study have potential applications in marker-assisted breeding.
DOI: 10.1007/s00438-014-0824-6
PubMed: 24549852
Affiliations:
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génétiques</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Cellulose synthase (CesA) genes encode the enzymes that synthesize cellulose; therefore, CesAs play central roles in plant development and affect the yield and quality of wood, essential properties for industrial applications of plant biomass. To effectively manipulate wood biosynthesis in trees and improve wood quality, we thus require a better understanding of the natural variation in CesAs. Association studies have emerged as a powerful tool for identification of variation associated with quantitative traits. Here, we used a candidate gene-based association mapping approach to identify PtoCesA7 allelic variants that associate with growth and wood quality traits in Populus tomentosa. We isolated a full-length PtoCesA7 cDNA and observed high PtoCesA7 expression in xylem, consistent with the xylem-specific expression of CesA7. Nucleotide diversity and linkage disequilibrium (LD) in PtoCesA7, sampled from the P. tomentosa natural distribution, revealed that PtoCesA7 harbors high nucleotide diversity (π(T) = 0.0091) and low LD (r(2) ≥ 0.1, within 800 bp). By association analysis, we identified seven single-nucleotide polymorphisms (SNPs) (false discovery rate Q < 0.10) and 12 haplotypes (Q < 0.10) that associated with growth and wood properties, explaining 3.62-10.59 % of the phenotypic variance. We also validated 9 of the 10 significant marker-trait associations in at least one of three smaller subsets (climatic regions) or in a linkage-mapping population. Thus, our study identified functional PtoCesA7 allelic variants associated with growth and wood quality traits, giving new insights into genes affecting wood quality and quantity. From an applied perspective, the SNPs revealed in this study have potential applications in marker-assisted breeding.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">24549852</PMID><DateCompleted><Year>2014</Year><Month>07</Month><Day>18</Day></DateCompleted><DateRevised><Year>2018</Year><Month>11</Month><Day>13</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1617-4623</ISSN><JournalIssue CitedMedium="Internet"><Volume>289</Volume><Issue>3</Issue><PubDate><Year>2014</Year><Month>Jun</Month></PubDate></JournalIssue><Title>Molecular genetics and genomics : MGG</Title><ISOAbbreviation>Mol Genet Genomics</ISOAbbreviation></Journal><ArticleTitle>Single-nucleotide polymorphisms in PtoCesA7 and their association with growth and wood properties in Populus tomentosa.</ArticleTitle><Pagination><MedlinePgn>439-55</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1007/s00438-014-0824-6</ELocationID><Abstract><AbstractText>Cellulose synthase (CesA) genes encode the enzymes that synthesize cellulose; therefore, CesAs play central roles in plant development and affect the yield and quality of wood, essential properties for industrial applications of plant biomass. To effectively manipulate wood biosynthesis in trees and improve wood quality, we thus require a better understanding of the natural variation in CesAs. Association studies have emerged as a powerful tool for identification of variation associated with quantitative traits. Here, we used a candidate gene-based association mapping approach to identify PtoCesA7 allelic variants that associate with growth and wood quality traits in Populus tomentosa. We isolated a full-length PtoCesA7 cDNA and observed high PtoCesA7 expression in xylem, consistent with the xylem-specific expression of CesA7. Nucleotide diversity and linkage disequilibrium (LD) in PtoCesA7, sampled from the P. tomentosa natural distribution, revealed that PtoCesA7 harbors high nucleotide diversity (π(T) = 0.0091) and low LD (r(2) ≥ 0.1, within 800 bp). By association analysis, we identified seven single-nucleotide polymorphisms (SNPs) (false discovery rate Q < 0.10) and 12 haplotypes (Q < 0.10) that associated with growth and wood properties, explaining 3.62-10.59 % of the phenotypic variance. We also validated 9 of the 10 significant marker-trait associations in at least one of three smaller subsets (climatic regions) or in a linkage-mapping population. Thus, our study identified functional PtoCesA7 allelic variants associated with growth and wood quality traits, giving new insights into genes affecting wood quality and quantity. From an applied perspective, the SNPs revealed in this study have potential applications in marker-assisted breeding.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Tian</LastName><ForeName>Jiaxing</ForeName><Initials>J</Initials><AffiliationInfo><Affiliation>National Engineering Laboratory for Tree Breeding, College of Biological Sciences and Technology, Beijing Forestry University, Beijing, 100083, People's Republic of China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Chang</LastName><ForeName>Mengqi</ForeName><Initials>M</Initials></Author><Author ValidYN="Y"><LastName>Du</LastName><ForeName>Qingzhang</ForeName><Initials>Q</Initials></Author><Author ValidYN="Y"><LastName>Xu</LastName><ForeName>Baohua</ForeName><Initials>B</Initials></Author><Author ValidYN="Y"><LastName>Zhang</LastName><ForeName>Deqiang</ForeName><Initials>D</Initials></Author></AuthorList><Language>eng</Language><DataBankList 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populaire de Chine"><noRegion><name sortKey="Tian, Jiaxing" sort="Tian, Jiaxing" uniqKey="Tian J" first="Jiaxing" last="Tian">Jiaxing Tian</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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