Multi-Omics Approach Identifies Molecular Mechanisms of Plant-Fungus Mycorrhizal Interaction.
Identifieur interne : 001C35 ( Main/Exploration ); précédent : 001C34; suivant : 001C36Multi-Omics Approach Identifies Molecular Mechanisms of Plant-Fungus Mycorrhizal Interaction.
Auteurs : Peter E. Larsen [États-Unis] ; Avinash Sreedasyam [États-Unis] ; Geetika Trivedi [États-Unis] ; Shalaka Desai [États-Unis] ; Yang Dai [États-Unis] ; Leland J. Cseke [États-Unis] ; Frank R. Collart [États-Unis]Source :
- Frontiers in plant science [ 1664-462X ] ; 2015.
Abstract
In mycorrhizal symbiosis, plant roots form close, mutually beneficial interactions with soil fungi. Before this mycorrhizal interaction can be established however, plant roots must be capable of detecting potential beneficial fungal partners and initiating the gene expression patterns necessary to begin symbiosis. To predict a plant root-mycorrhizal fungi sensor systems, we analyzed in vitro experiments of Populus tremuloides (aspen tree) and Laccaria bicolor (mycorrhizal fungi) interaction and leveraged over 200 previously published transcriptomic experimental data sets, 159 experimentally validated plant transcription factor binding motifs, and more than 120-thousand experimentally validated protein-protein interactions to generate models of pre-mycorrhizal sensor systems in aspen root. These sensor mechanisms link extracellular signaling molecules with gene regulation through a network comprised of membrane receptors, signal cascade proteins, transcription factors, and transcription factor biding DNA motifs. Modeling predicted four pre-mycorrhizal sensor complexes in aspen that interact with 15 transcription factors to regulate the expression of 1184 genes in response to extracellular signals synthesized by Laccaria. Predicted extracellular signaling molecules include common signaling molecules such as phenylpropanoids, salicylate, and jasmonic acid. This multi-omic computational modeling approach for predicting the complex sensory networks yielded specific, testable biological hypotheses for mycorrhizal interaction signaling compounds, sensor complexes, and mechanisms of gene regulation.
DOI: 10.3389/fpls.2015.01061
PubMed: 26834754
PubMed Central: PMC4717292
Affiliations:
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Cseke</name><affiliation wicri:level="2"><nlm:affiliation>Department of Biological Sciences, University of Alabama in Huntsville Huntsville, AL, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Biological Sciences, University of Alabama in Huntsville Huntsville, AL</wicri:regionArea><placeName><region type="state">Alabama</region></placeName></affiliation></author><author><name sortKey="Collart, Frank R" sort="Collart, Frank R" uniqKey="Collart F" first="Frank R" last="Collart">Frank R. Collart</name><affiliation wicri:level="2"><nlm:affiliation>Argonne National Laboratory, Biosciences Division Lemont, IL, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Argonne National Laboratory, Biosciences Division Lemont, IL</wicri:regionArea><placeName><region type="state">Illinois</region></placeName></affiliation></author></analytic><series><title level="j">Frontiers in plant science</title><idno type="ISSN">1664-462X</idno><imprint><date when="2015" type="published">2015</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">In mycorrhizal symbiosis, plant roots form close, mutually beneficial interactions with soil fungi. Before this mycorrhizal interaction can be established however, plant roots must be capable of detecting potential beneficial fungal partners and initiating the gene expression patterns necessary to begin symbiosis. To predict a plant root-mycorrhizal fungi sensor systems, we analyzed in vitro experiments of Populus tremuloides (aspen tree) and Laccaria bicolor (mycorrhizal fungi) interaction and leveraged over 200 previously published transcriptomic experimental data sets, 159 experimentally validated plant transcription factor binding motifs, and more than 120-thousand experimentally validated protein-protein interactions to generate models of pre-mycorrhizal sensor systems in aspen root. These sensor mechanisms link extracellular signaling molecules with gene regulation through a network comprised of membrane receptors, signal cascade proteins, transcription factors, and transcription factor biding DNA motifs. Modeling predicted four pre-mycorrhizal sensor complexes in aspen that interact with 15 transcription factors to regulate the expression of 1184 genes in response to extracellular signals synthesized by Laccaria. Predicted extracellular signaling molecules include common signaling molecules such as phenylpropanoids, salicylate, and jasmonic acid. This multi-omic computational modeling approach for predicting the complex sensory networks yielded specific, testable biological hypotheses for mycorrhizal interaction signaling compounds, sensor complexes, and mechanisms of gene regulation. </div></front></TEI><pubmed><MedlineCitation Status="PubMed-not-MEDLINE" Owner="NLM"><PMID Version="1">26834754</PMID><DateCompleted><Year>2016</Year><Month>02</Month><Day>02</Day></DateCompleted><DateRevised><Year>2020</Year><Month>09</Month><Day>30</Day></DateRevised><Article PubModel="Electronic-eCollection"><Journal><ISSN IssnType="Print">1664-462X</ISSN><JournalIssue CitedMedium="Print"><Volume>6</Volume><PubDate><Year>2015</Year></PubDate></JournalIssue><Title>Frontiers in plant science</Title><ISOAbbreviation>Front Plant Sci</ISOAbbreviation></Journal><ArticleTitle>Multi-Omics Approach Identifies Molecular Mechanisms of Plant-Fungus Mycorrhizal Interaction.</ArticleTitle><Pagination><MedlinePgn>1061</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.3389/fpls.2015.01061</ELocationID><Abstract><AbstractText>In mycorrhizal symbiosis, plant roots form close, mutually beneficial interactions with soil fungi. Before this mycorrhizal interaction can be established however, plant roots must be capable of detecting potential beneficial fungal partners and initiating the gene expression patterns necessary to begin symbiosis. To predict a plant root-mycorrhizal fungi sensor systems, we analyzed in vitro experiments of Populus tremuloides (aspen tree) and Laccaria bicolor (mycorrhizal fungi) interaction and leveraged over 200 previously published transcriptomic experimental data sets, 159 experimentally validated plant transcription factor binding motifs, and more than 120-thousand experimentally validated protein-protein interactions to generate models of pre-mycorrhizal sensor systems in aspen root. These sensor mechanisms link extracellular signaling molecules with gene regulation through a network comprised of membrane receptors, signal cascade proteins, transcription factors, and transcription factor biding DNA motifs. Modeling predicted four pre-mycorrhizal sensor complexes in aspen that interact with 15 transcription factors to regulate the expression of 1184 genes in response to extracellular signals synthesized by Laccaria. Predicted extracellular signaling molecules include common signaling molecules such as phenylpropanoids, salicylate, and jasmonic acid. This multi-omic computational modeling approach for predicting the complex sensory networks yielded specific, testable biological hypotheses for mycorrhizal interaction signaling compounds, sensor complexes, and mechanisms of gene regulation. </AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Larsen</LastName><ForeName>Peter E</ForeName><Initials>PE</Initials><AffiliationInfo><Affiliation>Argonne National Laboratory, Biosciences DivisionLemont, IL, USA; Department of Bioengineering, University of Illinois at ChicagoChicago IL, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Sreedasyam</LastName><ForeName>Avinash</ForeName><Initials>A</Initials><AffiliationInfo><Affiliation>Department of Biological Sciences, University of Alabama in Huntsville Huntsville, AL, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Trivedi</LastName><ForeName>Geetika</ForeName><Initials>G</Initials><AffiliationInfo><Affiliation>Department of Biological Sciences, University of Alabama in Huntsville Huntsville, AL, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Desai</LastName><ForeName>Shalaka</ForeName><Initials>S</Initials><AffiliationInfo><Affiliation>Argonne National Laboratory, Biosciences Division Lemont, IL, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Dai</LastName><ForeName>Yang</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>Department of Bioengineering, University of Illinois at Chicago Chicago IL, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Cseke</LastName><ForeName>Leland J</ForeName><Initials>LJ</Initials><AffiliationInfo><Affiliation>Department of Biological Sciences, University of Alabama in Huntsville Huntsville, AL, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Collart</LastName><ForeName>Frank R</ForeName><Initials>FR</Initials><AffiliationInfo><Affiliation>Argonne National Laboratory, Biosciences Division Lemont, IL, USA.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2016</Year><Month>01</Month><Day>19</Day></ArticleDate></Article><MedlineJournalInfo><Country>Switzerland</Country><MedlineTA>Front Plant Sci</MedlineTA><NlmUniqueID>101568200</NlmUniqueID><ISSNLinking>1664-462X</ISSNLinking></MedlineJournalInfo><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">Laccaria bicolor</Keyword><Keyword MajorTopicYN="N">Populus tremuloides</Keyword><Keyword MajorTopicYN="N">metabolomics</Keyword><Keyword MajorTopicYN="N">mycorrhizae</Keyword><Keyword MajorTopicYN="N">proteomics</Keyword><Keyword MajorTopicYN="N">system modeling</Keyword><Keyword 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Larsen</name></noRegion><name sortKey="Collart, Frank R" sort="Collart, Frank R" uniqKey="Collart F" first="Frank R" last="Collart">Frank R. Collart</name><name sortKey="Cseke, Leland J" sort="Cseke, Leland J" uniqKey="Cseke L" first="Leland J" last="Cseke">Leland J. Cseke</name><name sortKey="Dai, Yang" sort="Dai, Yang" uniqKey="Dai Y" first="Yang" last="Dai">Yang Dai</name><name sortKey="Desai, Shalaka" sort="Desai, Shalaka" uniqKey="Desai S" first="Shalaka" last="Desai">Shalaka Desai</name><name sortKey="Sreedasyam, Avinash" sort="Sreedasyam, Avinash" uniqKey="Sreedasyam A" first="Avinash" last="Sreedasyam">Avinash Sreedasyam</name><name sortKey="Trivedi, Geetika" sort="Trivedi, Geetika" uniqKey="Trivedi G" first="Geetika" last="Trivedi">Geetika Trivedi</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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