Molecular Remodeling in Populus PdKOR RNAi Roots Profiled Using LC-MS/MS Proteomics.
Identifieur interne : 000261 ( Main/Exploration ); précédent : 000260; suivant : 000262Molecular Remodeling in Populus PdKOR RNAi Roots Profiled Using LC-MS/MS Proteomics.
Auteurs : Paul E. Abraham [États-Unis] ; Anna Matthiadis [États-Unis] ; Robert L. Hettich [États-Unis] ; Udaya C. Kalluri [États-Unis]Source :
- Proteomics [ 1615-9861 ] ; 2020.
Abstract
Plant endo-β-1,4-glucanases belonging to the Glycoside Hydrolase Family 9 have functional roles in cell wall biosynthesis and remodeling via endohydrolysis of (1→4)-β-d-glucosidic linkages. Modification of cell wall chemistry via RNA interference (RNAi)-mediated downregulation of Populus deltoides KORRIGAN (PdKOR), an endo-β-1,4-glucanase familygene was shown to have functional consequences on the composition of secondary metabolome and the ability of modified roots to interact with beneficial microbes. The molecular remodeling that underlies the observed differences at metabolic, physiological, and morphological levels in roots is not well understood. Here a liquid chromatography (LC)-tandem mass spectrometry (MS/MS)-based proteome profiling approach is used to survey the molecular remodeling in root tissues of PdKOR and control plants. A total of 14316 peptides are identified and these mapped to 7139 P. deltoides proteins. Based on 90% sequence identity, the measured protein accessions represent 1187 functional protein groups. Analysis of Gene Ontology (GO) categories and specific individual proteins show differential expression of proteins relevant to plant-microbe interactions, cell wall chemistry, and metabolism. The new proteome dataset serves as a useful resource for deriving new hypotheses and empirical testing pertaining to functional roles of proteins and pathways in differential priming of plant roots to interactions with microbes.
DOI: 10.1002/pmic.202000067
PubMed: 32846035
Affiliations:
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Abraham</name><affiliation wicri:level="1"><nlm:affiliation>Chemical Sciences Division, P. O. BOX 2008, Oak Ridge National Laboratory, Oak Ridge, TN, 37831-6422, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Chemical Sciences Division, P. O. BOX 2008, Oak Ridge National Laboratory, Oak Ridge, TN, 37831-6422</wicri:regionArea><wicri:noRegion>37831-6422</wicri:noRegion></affiliation></author><author><name sortKey="Matthiadis, Anna" sort="Matthiadis, Anna" uniqKey="Matthiadis A" first="Anna" last="Matthiadis">Anna Matthiadis</name><affiliation wicri:level="1"><nlm:affiliation>Biosciences Division, P. O. BOX 2008, Oak Ridge National Laboratory, Oak Ridge, TN, 37831-6422, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Biosciences Division, P. O. BOX 2008, Oak Ridge National Laboratory, Oak Ridge, TN, 37831-6422</wicri:regionArea><wicri:noRegion>37831-6422</wicri:noRegion></affiliation></author><author><name sortKey="Hettich, Robert L" sort="Hettich, Robert L" uniqKey="Hettich R" first="Robert L" last="Hettich">Robert L. Hettich</name><affiliation wicri:level="1"><nlm:affiliation>Chemical Sciences Division, P. O. BOX 2008, Oak Ridge National Laboratory, Oak Ridge, TN, 37831-6422, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Chemical Sciences Division, P. O. BOX 2008, Oak Ridge National Laboratory, Oak Ridge, TN, 37831-6422</wicri:regionArea><wicri:noRegion>37831-6422</wicri:noRegion></affiliation></author><author><name sortKey="Kalluri, Udaya C" sort="Kalluri, Udaya C" uniqKey="Kalluri U" first="Udaya C" last="Kalluri">Udaya C. Kalluri</name><affiliation wicri:level="1"><nlm:affiliation>Biosciences Division, P. O. BOX 2008, Oak Ridge National Laboratory, Oak Ridge, TN, 37831-6422, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Biosciences Division, P. O. BOX 2008, Oak Ridge National Laboratory, Oak Ridge, TN, 37831-6422</wicri:regionArea><wicri:noRegion>37831-6422</wicri:noRegion></affiliation></author></analytic><series><title level="j">Proteomics</title><idno type="eISSN">1615-9861</idno><imprint><date when="2020" type="published">2020</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Plant endo-β-1,4-glucanases belonging to the Glycoside Hydrolase Family 9 have functional roles in cell wall biosynthesis and remodeling via endohydrolysis of (1→4)-β-d-glucosidic linkages. Modification of cell wall chemistry via RNA interference (RNAi)-mediated downregulation of Populus deltoides KORRIGAN (PdKOR), an endo-β-1,4-glucanase familygene was shown to have functional consequences on the composition of secondary metabolome and the ability of modified roots to interact with beneficial microbes. The molecular remodeling that underlies the observed differences at metabolic, physiological, and morphological levels in roots is not well understood. Here a liquid chromatography (LC)-tandem mass spectrometry (MS/MS)-based proteome profiling approach is used to survey the molecular remodeling in root tissues of PdKOR and control plants. A total of 14316 peptides are identified and these mapped to 7139 P. deltoides proteins. Based on 90% sequence identity, the measured protein accessions represent 1187 functional protein groups. Analysis of Gene Ontology (GO) categories and specific individual proteins show differential expression of proteins relevant to plant-microbe interactions, cell wall chemistry, and metabolism. The new proteome dataset serves as a useful resource for deriving new hypotheses and empirical testing pertaining to functional roles of proteins and pathways in differential priming of plant roots to interactions with microbes.</div></front></TEI><pubmed><MedlineCitation Status="Publisher" Owner="NLM"><PMID Version="1">32846035</PMID><DateRevised><Year>2020</Year><Month>10</Month><Day>07</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1615-9861</ISSN><JournalIssue CitedMedium="Internet"><PubDate><Year>2020</Year><Month>Aug</Month><Day>26</Day></PubDate></JournalIssue><Title>Proteomics</Title><ISOAbbreviation>Proteomics</ISOAbbreviation></Journal><ArticleTitle>Molecular Remodeling in Populus PdKOR RNAi Roots Profiled Using LC-MS/MS Proteomics.</ArticleTitle><Pagination><MedlinePgn>e2000067</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1002/pmic.202000067</ELocationID><Abstract><AbstractText>Plant endo-β-1,4-glucanases belonging to the Glycoside Hydrolase Family 9 have functional roles in cell wall biosynthesis and remodeling via endohydrolysis of (1→4)-β-d-glucosidic linkages. Modification of cell wall chemistry via RNA interference (RNAi)-mediated downregulation of Populus deltoides KORRIGAN (PdKOR), an endo-β-1,4-glucanase familygene was shown to have functional consequences on the composition of secondary metabolome and the ability of modified roots to interact with beneficial microbes. The molecular remodeling that underlies the observed differences at metabolic, physiological, and morphological levels in roots is not well understood. Here a liquid chromatography (LC)-tandem mass spectrometry (MS/MS)-based proteome profiling approach is used to survey the molecular remodeling in root tissues of PdKOR and control plants. A total of 14316 peptides are identified and these mapped to 7139 P. deltoides proteins. Based on 90% sequence identity, the measured protein accessions represent 1187 functional protein groups. Analysis of Gene Ontology (GO) categories and specific individual proteins show differential expression of proteins relevant to plant-microbe interactions, cell wall chemistry, and metabolism. The new proteome dataset serves as a useful resource for deriving new hypotheses and empirical testing pertaining to functional roles of proteins and pathways in differential priming of plant roots to interactions with microbes.</AbstractText><CopyrightInformation>© 2020 Wiley-VCH GmbH.</CopyrightInformation></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Abraham</LastName><ForeName>Paul E</ForeName><Initials>PE</Initials><Identifier Source="ORCID">https://orcid.org/0000-0003-2685-9123</Identifier><AffiliationInfo><Affiliation>Chemical Sciences Division, P. O. BOX 2008, Oak Ridge National Laboratory, Oak Ridge, TN, 37831-6422, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Matthiadis</LastName><ForeName>Anna</ForeName><Initials>A</Initials><AffiliationInfo><Affiliation>Biosciences Division, P. O. BOX 2008, Oak Ridge National Laboratory, Oak Ridge, TN, 37831-6422, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Hettich</LastName><ForeName>Robert L</ForeName><Initials>RL</Initials><AffiliationInfo><Affiliation>Chemical Sciences Division, P. O. BOX 2008, Oak Ridge National Laboratory, Oak Ridge, TN, 37831-6422, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Kalluri</LastName><ForeName>Udaya C</ForeName><Initials>UC</Initials><Identifier Source="ORCID">https://orcid.org/0000-0002-5963-8370</Identifier><AffiliationInfo><Affiliation>Biosciences Division, P. O. BOX 2008, Oak Ridge National Laboratory, Oak Ridge, TN, 37831-6422, USA.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><GrantList CompleteYN="Y"><Grant><Agency>U.S. Department of Energy</Agency><Country></Country></Grant></GrantList><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2020</Year><Month>08</Month><Day>26</Day></ArticleDate></Article><MedlineJournalInfo><Country>Germany</Country><MedlineTA>Proteomics</MedlineTA><NlmUniqueID>101092707</NlmUniqueID><ISSNLinking>1615-9853</ISSNLinking></MedlineJournalInfo><CitationSubset>IM</CitationSubset><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">Populus</Keyword><Keyword MajorTopicYN="N">cell wall chemistry</Keyword><Keyword MajorTopicYN="N">host</Keyword><Keyword MajorTopicYN="N">metabolome</Keyword><Keyword MajorTopicYN="N">plant-microbe interaction</Keyword><Keyword MajorTopicYN="N">proteome</Keyword><Keyword MajorTopicYN="N">root</Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2020</Year><Month>03</Month><Day>20</Day></PubMedPubDate><PubMedPubDate PubStatus="revised"><Year>2020</Year><Month>08</Month><Day>11</Day></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2020</Year><Month>8</Month><Day>28</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2020</Year><Month>8</Month><Day>28</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2020</Year><Month>8</Month><Day>27</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>aheadofprint</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">32846035</ArticleId><ArticleId IdType="doi">10.1002/pmic.202000067</ArticleId></ArticleIdList><ReferenceList><Reference><Citation>U. 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Tenhaken, Planta 2005, 221, 243.</Citation></Reference></ReferenceList></PubmedData></pubmed><affiliations><list><country><li>États-Unis</li></country></list><tree><country name="États-Unis"><noRegion><name sortKey="Abraham, Paul E" sort="Abraham, Paul E" uniqKey="Abraham P" first="Paul E" last="Abraham">Paul E. Abraham</name></noRegion><name sortKey="Hettich, Robert L" sort="Hettich, Robert L" uniqKey="Hettich R" first="Robert L" last="Hettich">Robert L. Hettich</name><name sortKey="Kalluri, Udaya C" sort="Kalluri, Udaya C" uniqKey="Kalluri U" first="Udaya C" last="Kalluri">Udaya C. Kalluri</name><name sortKey="Matthiadis, Anna" sort="Matthiadis, Anna" uniqKey="Matthiadis A" first="Anna" last="Matthiadis">Anna Matthiadis</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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