Construction of a high-density genetic map and its application for leaf shape QTL mapping in poplar.
Identifieur interne : 000F82 ( Main/Exploration ); précédent : 000F81; suivant : 000F83Construction of a high-density genetic map and its application for leaf shape QTL mapping in poplar.
Auteurs : Wenxiu Xia [République populaire de Chine] ; Zheng'Ang Xiao [République populaire de Chine] ; Pei Cao [République populaire de Chine] ; Yan Zhang [République populaire de Chine] ; Kebing Du [République populaire de Chine] ; Nian Wang [République populaire de Chine]Source :
- Planta [ 1432-2048 ] ; 2018.
Descripteurs français
- KwdFr :
- Cartographie chromosomique (MeSH), Feuilles de plante (anatomie et histologie), Feuilles de plante (génétique), Gènes de plante (génétique), Locus de caractère quantitatif (génétique), Phénotype (MeSH), Populus (anatomie et histologie), Populus (génétique), Séquençage nucléotidique à haut débit (MeSH), Techniques de génotypage (MeSH).
- MESH :
- anatomie et histologie : Feuilles de plante, Populus.
- génétique : Feuilles de plante, Gènes de plante, Locus de caractère quantitatif, Populus.
- Cartographie chromosomique, Phénotype, Séquençage nucléotidique à haut débit, Techniques de génotypage.
English descriptors
- KwdEn :
- MESH :
- anatomy & histology : Plant Leaves, Populus.
- genetics : Genes, Plant, Plant Leaves, Populus, Quantitative Trait Loci.
- Chromosome Mapping, Genotyping Techniques, High-Throughput Nucleotide Sequencing, Phenotype.
Abstract
MAIN CONCLUSION
High-quality and dense genetic maps were constructed, and leaf shape variation was dissected by QTL mapping in poplar. Species in the genus Populus, also known as poplars, are important woody species and considered model plants for perennial trees. High-density genetic maps are valuable genomic resources for population genetics. Here, we generated a high-quality and dense genetic map for an F1 poplar population using high-throughput NGS-based genotyping. A total of 92,097 high-quality SNP markers were developed by stringent filtering and identification. In total, 889 and 1650 SNPs formed the female and male genetic maps, respectively. To test the application of the genetic maps, QTL mapping of leaf shape was conducted for this F1 population. A total of nine parameters were scored for leaf shape variation in three different environments. Combining genetic maps and measurements of the nine leaf shape parameters, we mapped a total of 42 significant QTLs. The highest LOD score of all QTLs was 9.2, and that QTL explained the most (15.13%) trait variation. A total of nine QTLs could be detected in at least two environments, and they were located in two genomic regions. Within these two QTL regions, some candidate genes for regulating leaf shape were predicted through functional annotation. The successful mapping of leaf shape QTLs demonstrated the utility of our genetic maps. According to the performance of this study, we were able to provide high-quality and dense genetic maps and dissect the leaf shape variation in poplar.
DOI: 10.1007/s00425-018-2958-y
PubMed: 30088086
Affiliations:
Links toward previous steps (curation, corpus...)
Le document en format XML
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xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, 430070</wicri:regionArea><wicri:noRegion>430070</wicri:noRegion></affiliation></author><author><name sortKey="Xiao, Zheng Ang" sort="Xiao, Zheng Ang" uniqKey="Xiao Z" first="Zheng'Ang" last="Xiao">Zheng'Ang Xiao</name><affiliation wicri:level="1"><nlm:affiliation>College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, 430070, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, 430070</wicri:regionArea><wicri:noRegion>430070</wicri:noRegion></affiliation></author><author><name sortKey="Cao, Pei" sort="Cao, Pei" uniqKey="Cao P" first="Pei" last="Cao">Pei Cao</name><affiliation wicri:level="1"><nlm:affiliation>College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, 430070, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, 430070</wicri:regionArea><wicri:noRegion>430070</wicri:noRegion></affiliation></author><author><name sortKey="Zhang, Yan" sort="Zhang, Yan" uniqKey="Zhang Y" first="Yan" last="Zhang">Yan Zhang</name><affiliation wicri:level="1"><nlm:affiliation>College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, 430070, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, 430070</wicri:regionArea><wicri:noRegion>430070</wicri:noRegion></affiliation></author><author><name sortKey="Du, Kebing" sort="Du, Kebing" uniqKey="Du K" first="Kebing" last="Du">Kebing Du</name><affiliation wicri:level="1"><nlm:affiliation>College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, 430070, China. kebingdu@mail.hzau.edu.cn.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, 430070</wicri:regionArea><wicri:noRegion>430070</wicri:noRegion></affiliation></author><author><name sortKey="Wang, Nian" sort="Wang, Nian" uniqKey="Wang N" first="Nian" last="Wang">Nian Wang</name><affiliation wicri:level="1"><nlm:affiliation>College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, 430070, China. wangn@mail.hzau.edu.cn.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, 430070</wicri:regionArea><wicri:noRegion>430070</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>Hubei Engineering Technology Research Center for Forestry Information, Huazhong Agricultural University, Wuhan, 430070, China. wangn@mail.hzau.edu.cn.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Hubei Engineering Technology Research Center for Forestry Information, Huazhong Agricultural University, Wuhan, 430070</wicri:regionArea><wicri:noRegion>430070</wicri:noRegion></affiliation></author></analytic><series><title level="j">Planta</title><idno type="eISSN">1432-2048</idno><imprint><date when="2018" type="published">2018</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Chromosome Mapping (MeSH)</term><term>Genes, Plant (genetics)</term><term>Genotyping Techniques (MeSH)</term><term>High-Throughput Nucleotide Sequencing (MeSH)</term><term>Phenotype (MeSH)</term><term>Plant Leaves (anatomy & histology)</term><term>Plant Leaves (genetics)</term><term>Populus (anatomy & histology)</term><term>Populus (genetics)</term><term>Quantitative Trait Loci (genetics)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Cartographie chromosomique (MeSH)</term><term>Feuilles de plante (anatomie et histologie)</term><term>Feuilles de plante (génétique)</term><term>Gènes de plante (génétique)</term><term>Locus de caractère quantitatif (génétique)</term><term>Phénotype (MeSH)</term><term>Populus (anatomie et histologie)</term><term>Populus (génétique)</term><term>Séquençage nucléotidique à haut débit (MeSH)</term><term>Techniques de génotypage (MeSH)</term></keywords><keywords scheme="MESH" qualifier="anatomie et histologie" xml:lang="fr"><term>Feuilles de plante</term><term>Populus</term></keywords><keywords scheme="MESH" qualifier="anatomy & histology" xml:lang="en"><term>Plant Leaves</term><term>Populus</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Genes, Plant</term><term>Plant Leaves</term><term>Populus</term><term>Quantitative Trait Loci</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Feuilles de plante</term><term>Gènes de plante</term><term>Locus de caractère quantitatif</term><term>Populus</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Chromosome Mapping</term><term>Genotyping Techniques</term><term>High-Throughput Nucleotide Sequencing</term><term>Phenotype</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Cartographie chromosomique</term><term>Phénotype</term><term>Séquençage nucléotidique à haut débit</term><term>Techniques de génotypage</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p><b>MAIN CONCLUSION</b></p><p>High-quality and dense genetic maps were constructed, and leaf shape variation was dissected by QTL mapping in poplar. Species in the genus Populus, also known as poplars, are important woody species and considered model plants for perennial trees. High-density genetic maps are valuable genomic resources for population genetics. Here, we generated a high-quality and dense genetic map for an F1 poplar population using high-throughput NGS-based genotyping. A total of 92,097 high-quality SNP markers were developed by stringent filtering and identification. In total, 889 and 1650 SNPs formed the female and male genetic maps, respectively. To test the application of the genetic maps, QTL mapping of leaf shape was conducted for this F1 population. A total of nine parameters were scored for leaf shape variation in three different environments. Combining genetic maps and measurements of the nine leaf shape parameters, we mapped a total of 42 significant QTLs. The highest LOD score of all QTLs was 9.2, and that QTL explained the most (15.13%) trait variation. A total of nine QTLs could be detected in at least two environments, and they were located in two genomic regions. Within these two QTL regions, some candidate genes for regulating leaf shape were predicted through functional annotation. The successful mapping of leaf shape QTLs demonstrated the utility of our genetic maps. According to the performance of this study, we were able to provide high-quality and dense genetic maps and dissect the leaf shape variation in poplar.</p></div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">30088086</PMID><DateCompleted><Year>2018</Year><Month>10</Month><Day>25</Day></DateCompleted><DateRevised><Year>2018</Year><Month>11</Month><Day>14</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1432-2048</ISSN><JournalIssue CitedMedium="Internet"><Volume>248</Volume><Issue>5</Issue><PubDate><Year>2018</Year><Month>Nov</Month></PubDate></JournalIssue><Title>Planta</Title><ISOAbbreviation>Planta</ISOAbbreviation></Journal><ArticleTitle>Construction of a high-density genetic map and its application for leaf shape QTL mapping in poplar.</ArticleTitle><Pagination><MedlinePgn>1173-1185</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1007/s00425-018-2958-y</ELocationID><Abstract><AbstractText Label="MAIN CONCLUSION" NlmCategory="UNASSIGNED">High-quality and dense genetic maps were constructed, and leaf shape variation was dissected by QTL mapping in poplar. Species in the genus Populus, also known as poplars, are important woody species and considered model plants for perennial trees. High-density genetic maps are valuable genomic resources for population genetics. Here, we generated a high-quality and dense genetic map for an F1 poplar population using high-throughput NGS-based genotyping. A total of 92,097 high-quality SNP markers were developed by stringent filtering and identification. In total, 889 and 1650 SNPs formed the female and male genetic maps, respectively. To test the application of the genetic maps, QTL mapping of leaf shape was conducted for this F1 population. A total of nine parameters were scored for leaf shape variation in three different environments. Combining genetic maps and measurements of the nine leaf shape parameters, we mapped a total of 42 significant QTLs. The highest LOD score of all QTLs was 9.2, and that QTL explained the most (15.13%) trait variation. A total of nine QTLs could be detected in at least two environments, and they were located in two genomic regions. Within these two QTL regions, some candidate genes for regulating leaf shape were predicted through functional annotation. The successful mapping of leaf shape QTLs demonstrated the utility of our genetic maps. According to the performance of this study, we were able to provide high-quality and dense genetic maps and dissect the leaf shape variation in poplar.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Xia</LastName><ForeName>Wenxiu</ForeName><Initials>W</Initials><AffiliationInfo><Affiliation>College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, 430070, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Xiao</LastName><ForeName>Zheng'ang</ForeName><Initials>Z</Initials><AffiliationInfo><Affiliation>College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, 430070, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Cao</LastName><ForeName>Pei</ForeName><Initials>P</Initials><AffiliationInfo><Affiliation>College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, 430070, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Zhang</LastName><ForeName>Yan</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, 430070, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Du</LastName><ForeName>Kebing</ForeName><Initials>K</Initials><AffiliationInfo><Affiliation>College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, 430070, China. kebingdu@mail.hzau.edu.cn.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Wang</LastName><ForeName>Nian</ForeName><Initials>N</Initials><Identifier Source="ORCID">http://orcid.org/0000-0001-9185-4199</Identifier><AffiliationInfo><Affiliation>College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, 430070, China. wangn@mail.hzau.edu.cn.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Hubei Engineering Technology Research Center for Forestry Information, Huazhong Agricultural University, Wuhan, 430070, China. wangn@mail.hzau.edu.cn.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2018</Year><Month>08</Month><Day>07</Day></ArticleDate></Article><MedlineJournalInfo><Country>Germany</Country><MedlineTA>Planta</MedlineTA><NlmUniqueID>1250576</NlmUniqueID><ISSNLinking>0032-0935</ISSNLinking></MedlineJournalInfo><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D002874" MajorTopicYN="Y">Chromosome Mapping</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D017343" MajorTopicYN="N">Genes, Plant</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D060005" MajorTopicYN="N">Genotyping Techniques</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D059014" MajorTopicYN="N">High-Throughput Nucleotide Sequencing</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D010641" MajorTopicYN="N">Phenotype</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D018515" MajorTopicYN="N">Plant Leaves</DescriptorName><QualifierName UI="Q000033" MajorTopicYN="N">anatomy & histology</QualifierName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D032107" MajorTopicYN="N">Populus</DescriptorName><QualifierName UI="Q000033" MajorTopicYN="N">anatomy & histology</QualifierName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D040641" MajorTopicYN="N">Quantitative Trait Loci</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading></MeshHeadingList><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">Genetic maps</Keyword><Keyword MajorTopicYN="N">Leaf shape variation</Keyword><Keyword MajorTopicYN="N">Poplars</Keyword><Keyword MajorTopicYN="N">QTL mapping</Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2018</Year><Month>06</Month><Day>06</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2018</Year><Month>07</Month><Day>17</Day></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2018</Year><Month>8</Month><Day>9</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2018</Year><Month>10</Month><Day>26</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2018</Year><Month>8</Month><Day>9</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">30088086</ArticleId><ArticleId 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first="Zheng'Ang" last="Xiao">Zheng'Ang Xiao</name><name sortKey="Zhang, Yan" sort="Zhang, Yan" uniqKey="Zhang Y" first="Yan" last="Zhang">Yan Zhang</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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