Quantitative trait locus mapping of Populus bark features and stem diameter.
Identifieur interne : 001224 ( Main/Exploration ); précédent : 001223; suivant : 001225Quantitative trait locus mapping of Populus bark features and stem diameter.
Auteurs : Roba Bdeir [États-Unis] ; Wellington Muchero [États-Unis] ; Yordan Yordanov [États-Unis] ; Gerald A. Tuskan [États-Unis] ; Victor Busov [États-Unis] ; Oliver Gailing [États-Unis, Allemagne]Source :
- BMC plant biology [ 1471-2229 ] ; 2017.
Descripteurs français
- KwdFr :
- Cartographie chromosomique (MeSH), Chromosomes de plante (MeSH), Gènes de plante (MeSH), Locus de caractère quantitatif (MeSH), Populus (anatomie et histologie), Populus (génétique), Tiges de plante (anatomie et histologie), Tiges de plante (génétique), Écorce (anatomie et histologie), Écorce (génétique).
- MESH :
- anatomie et histologie : Populus, Tiges de plante, Écorce.
- génétique : Populus, Tiges de plante, Écorce.
- Cartographie chromosomique, Chromosomes de plante, Gènes de plante, Locus de caractère quantitatif.
English descriptors
- KwdEn :
- MESH :
- anatomy & histology : Plant Bark, Plant Stems, Populus.
- genetics : Plant Bark, Plant Stems, Populus.
- Chromosome Mapping, Chromosomes, Plant, Genes, Plant, Quantitative Trait Loci.
Abstract
BACKGROUND
Bark plays important roles in photosynthate transport and storage, along with physical and chemical protection. Bark texture varies extensively among species, from smooth to fissured to deeply furrowed, but its genetic control is unknown. This study sought to determine the main genomic regions associated with natural variation in bark features and stem diameter. Quantitative trait loci (QTL) were mapped using an interspecific pseudo-backcross pedigree (Populus trichocarpa x P. deltoides and P. deltoides) for bark texture, bark thickness and diameter collected across three years, two sites and three biological replicates per site.
RESULTS
QTL specific to bark texture were highly reproducible in shared intervals across sites, years and replicates. Significant positive correlations and co-localization between trait QTL suggest pleiotropic regulators or closely linked genes. A list of candidate genes with related putative function, location close to QTL maxima and with the highest expression level in the phloem, xylem and cambium was identified.
CONCLUSION
Candidate genes for bark texture included an ortholog of Arabidopsis ANAC104 (PopNAC128), which plays a role in lignified fiber cell and ray development, as well as Pinin and Fasciclin (PopFLA) genes with a role in cell adhesion, cell shape and migration. The results presented in this study provide a basis for future genomic characterization of genes found within the QTL for bark texture, bark thickness and diameter in order to better understand stem and bark development in Populus and other woody perennial plants. The QTL mapping approach identified a list of prime candidate genes for further validation using functional genomics or forward genetics approaches.
DOI: 10.1186/s12870-017-1166-4
PubMed: 29179673
PubMed Central: PMC5704590
Affiliations:
Links toward previous steps (curation, corpus...)
Le document en format XML
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Tuskan</name><affiliation wicri:level="1"><nlm:affiliation>Biosciences Division, Oak Ridge National Laboratory, 1 Bethel Valley Road, Oak Ridge, TN, 37831, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Biosciences Division, Oak Ridge National Laboratory, 1 Bethel Valley Road, Oak Ridge, TN, 37831</wicri:regionArea><wicri:noRegion>37831</wicri:noRegion></affiliation></author><author><name sortKey="Busov, Victor" sort="Busov, Victor" uniqKey="Busov V" first="Victor" last="Busov">Victor Busov</name><affiliation wicri:level="1"><nlm:affiliation>School of Forest Resources and Environmental Science, Michigan Technological University, 1400 Townsend Drive, Houghton, MI, 49931, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>School of Forest Resources and Environmental Science, Michigan Technological University, 1400 Townsend Drive, Houghton, MI, 49931</wicri:regionArea><wicri:noRegion>49931</wicri:noRegion></affiliation></author><author><name sortKey="Gailing, Oliver" sort="Gailing, Oliver" uniqKey="Gailing O" first="Oliver" last="Gailing">Oliver Gailing</name><affiliation wicri:level="1"><nlm:affiliation>School of Forest Resources and Environmental Science, Michigan Technological University, 1400 Townsend Drive, Houghton, MI, 49931, USA. ogailing@mtu.edu.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>School of Forest Resources and Environmental Science, Michigan Technological University, 1400 Townsend Drive, Houghton, MI, 49931</wicri:regionArea><wicri:noRegion>49931</wicri:noRegion></affiliation><affiliation wicri:level="3"><nlm:affiliation>Present address: Forest Genetics and Forest Tree Breeding, Faculty of Forest Sciences, University of Göttingen, Büsgenweg 2, 37077, Göttingen, Germany. ogailing@mtu.edu.</nlm:affiliation><country xml:lang="fr">Allemagne</country><wicri:regionArea>Present address: Forest Genetics and Forest Tree Breeding, Faculty of Forest Sciences, University of Göttingen, Büsgenweg 2, 37077, Göttingen</wicri:regionArea><placeName><region type="land" nuts="2">Basse-Saxe</region><settlement type="city">Göttingen</settlement></placeName></affiliation></author></analytic><series><title level="j">BMC plant biology</title><idno type="eISSN">1471-2229</idno><imprint><date when="2017" type="published">2017</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Chromosome Mapping (MeSH)</term><term>Chromosomes, Plant (MeSH)</term><term>Genes, Plant (MeSH)</term><term>Plant Bark (anatomy & histology)</term><term>Plant Bark (genetics)</term><term>Plant Stems (anatomy & histology)</term><term>Plant Stems (genetics)</term><term>Populus (anatomy & histology)</term><term>Populus (genetics)</term><term>Quantitative Trait Loci (MeSH)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Cartographie chromosomique (MeSH)</term><term>Chromosomes de plante (MeSH)</term><term>Gènes de plante (MeSH)</term><term>Locus de caractère quantitatif (MeSH)</term><term>Populus (anatomie et histologie)</term><term>Populus (génétique)</term><term>Tiges de plante (anatomie et histologie)</term><term>Tiges de plante (génétique)</term><term>Écorce (anatomie et histologie)</term><term>Écorce (génétique)</term></keywords><keywords scheme="MESH" qualifier="anatomie et histologie" xml:lang="fr"><term>Populus</term><term>Tiges de plante</term><term>Écorce</term></keywords><keywords scheme="MESH" qualifier="anatomy & histology" xml:lang="en"><term>Plant Bark</term><term>Plant Stems</term><term>Populus</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Plant Bark</term><term>Plant Stems</term><term>Populus</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Populus</term><term>Tiges de plante</term><term>Écorce</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Chromosome Mapping</term><term>Chromosomes, Plant</term><term>Genes, Plant</term><term>Quantitative Trait Loci</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Cartographie chromosomique</term><term>Chromosomes de plante</term><term>Gènes de plante</term><term>Locus de caractère quantitatif</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p><b>BACKGROUND</b></p><p>Bark plays important roles in photosynthate transport and storage, along with physical and chemical protection. Bark texture varies extensively among species, from smooth to fissured to deeply furrowed, but its genetic control is unknown. This study sought to determine the main genomic regions associated with natural variation in bark features and stem diameter. Quantitative trait loci (QTL) were mapped using an interspecific pseudo-backcross pedigree (Populus trichocarpa x P. deltoides and P. deltoides) for bark texture, bark thickness and diameter collected across three years, two sites and three biological replicates per site.</p></div><div type="abstract" xml:lang="en"><p><b>RESULTS</b></p><p>QTL specific to bark texture were highly reproducible in shared intervals across sites, years and replicates. Significant positive correlations and co-localization between trait QTL suggest pleiotropic regulators or closely linked genes. A list of candidate genes with related putative function, location close to QTL maxima and with the highest expression level in the phloem, xylem and cambium was identified.</p></div><div type="abstract" xml:lang="en"><p><b>CONCLUSION</b></p><p>Candidate genes for bark texture included an ortholog of Arabidopsis ANAC104 (PopNAC128), which plays a role in lignified fiber cell and ray development, as well as Pinin and Fasciclin (PopFLA) genes with a role in cell adhesion, cell shape and migration. The results presented in this study provide a basis for future genomic characterization of genes found within the QTL for bark texture, bark thickness and diameter in order to better understand stem and bark development in Populus and other woody perennial plants. The QTL mapping approach identified a list of prime candidate genes for further validation using functional genomics or forward genetics approaches.</p></div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">29179673</PMID><DateCompleted><Year>2018</Year><Month>06</Month><Day>05</Day></DateCompleted><DateRevised><Year>2018</Year><Month>11</Month><Day>13</Day></DateRevised><Article PubModel="Electronic"><Journal><ISSN IssnType="Electronic">1471-2229</ISSN><JournalIssue CitedMedium="Internet"><Volume>17</Volume><Issue>1</Issue><PubDate><Year>2017</Year><Month>Nov</Month><Day>28</Day></PubDate></JournalIssue><Title>BMC plant biology</Title><ISOAbbreviation>BMC Plant Biol</ISOAbbreviation></Journal><ArticleTitle>Quantitative trait locus mapping of Populus bark features and stem diameter.</ArticleTitle><Pagination><MedlinePgn>224</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1186/s12870-017-1166-4</ELocationID><Abstract><AbstractText Label="BACKGROUND" NlmCategory="BACKGROUND">Bark plays important roles in photosynthate transport and storage, along with physical and chemical protection. Bark texture varies extensively among species, from smooth to fissured to deeply furrowed, but its genetic control is unknown. This study sought to determine the main genomic regions associated with natural variation in bark features and stem diameter. Quantitative trait loci (QTL) were mapped using an interspecific pseudo-backcross pedigree (Populus trichocarpa x P. deltoides and P. deltoides) for bark texture, bark thickness and diameter collected across three years, two sites and three biological replicates per site.</AbstractText><AbstractText Label="RESULTS" NlmCategory="RESULTS">QTL specific to bark texture were highly reproducible in shared intervals across sites, years and replicates. Significant positive correlations and co-localization between trait QTL suggest pleiotropic regulators or closely linked genes. A list of candidate genes with related putative function, location close to QTL maxima and with the highest expression level in the phloem, xylem and cambium was identified.</AbstractText><AbstractText Label="CONCLUSION" NlmCategory="CONCLUSIONS">Candidate genes for bark texture included an ortholog of Arabidopsis ANAC104 (PopNAC128), which plays a role in lignified fiber cell and ray development, as well as Pinin and Fasciclin (PopFLA) genes with a role in cell adhesion, cell shape and migration. The results presented in this study provide a basis for future genomic characterization of genes found within the QTL for bark texture, bark thickness and diameter in order to better understand stem and bark development in Populus and other woody perennial plants. The QTL mapping approach identified a list of prime candidate genes for further validation using functional genomics or forward genetics approaches.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Bdeir</LastName><ForeName>Roba</ForeName><Initials>R</Initials><AffiliationInfo><Affiliation>School of Forest Resources and Environmental Science, Michigan Technological University, 1400 Townsend Drive, Houghton, MI, 49931, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Muchero</LastName><ForeName>Wellington</ForeName><Initials>W</Initials><AffiliationInfo><Affiliation>Biosciences Division, Oak Ridge National Laboratory, 1 Bethel Valley Road, Oak Ridge, TN, 37831, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Yordanov</LastName><ForeName>Yordan</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>Departement of Biology, Eastern Illinois University, 600 Lincoln Ave, Charleston, IL, 61920, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Tuskan</LastName><ForeName>Gerald A</ForeName><Initials>GA</Initials><AffiliationInfo><Affiliation>Biosciences Division, Oak Ridge National Laboratory, 1 Bethel Valley Road, Oak Ridge, TN, 37831, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Busov</LastName><ForeName>Victor</ForeName><Initials>V</Initials><AffiliationInfo><Affiliation>School of Forest Resources and Environmental Science, Michigan Technological University, 1400 Townsend Drive, Houghton, MI, 49931, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Gailing</LastName><ForeName>Oliver</ForeName><Initials>O</Initials><AffiliationInfo><Affiliation>School of Forest Resources and Environmental Science, Michigan Technological University, 1400 Townsend Drive, Houghton, MI, 49931, USA. ogailing@mtu.edu.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Present address: Forest Genetics and Forest Tree Breeding, Faculty of Forest Sciences, University of Göttingen, Büsgenweg 2, 37077, Göttingen, Germany. ogailing@mtu.edu.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><GrantList CompleteYN="Y"><Grant><GrantID>2012-67013-19389</GrantID><Agency>USDA-NIFA</Agency><Country></Country></Grant><Grant><GrantID>1230803</GrantID><Agency>National Science Foundation grant</Agency><Country></Country></Grant></GrantList><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2017</Year><Month>11</Month><Day>28</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>BMC Plant Biol</MedlineTA><NlmUniqueID>100967807</NlmUniqueID><ISSNLinking>1471-2229</ISSNLinking></MedlineJournalInfo><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D002874" MajorTopicYN="N">Chromosome Mapping</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D032461" MajorTopicYN="Y">Chromosomes, Plant</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D017343" MajorTopicYN="Y">Genes, Plant</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D024301" MajorTopicYN="N">Plant Bark</DescriptorName><QualifierName UI="Q000033" MajorTopicYN="N">anatomy & histology</QualifierName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D018547" MajorTopicYN="N">Plant Stems</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></MeshHeading></MeshHeadingList><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">Bark texture</Keyword><Keyword MajorTopicYN="N">Bark thickness</Keyword><Keyword MajorTopicYN="N">Diameter</Keyword><Keyword MajorTopicYN="N">Populus trichocarpa</Keyword><Keyword MajorTopicYN="N">Quantitative trait loci (QTL)</Keyword><Keyword MajorTopicYN="N">Stem</Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2017</Year><Month>05</Month><Day>29</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2017</Year><Month>11</Month><Day>10</Day></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2017</Year><Month>11</Month><Day>29</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate 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Tuskan</name><name sortKey="Yordanov, Yordan" sort="Yordanov, Yordan" uniqKey="Yordanov Y" first="Yordan" last="Yordanov">Yordan Yordanov</name></country><country name="Allemagne"><region name="Basse-Saxe"><name sortKey="Gailing, Oliver" sort="Gailing, Oliver" uniqKey="Gailing O" first="Oliver" last="Gailing">Oliver Gailing</name></region></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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