De novo Transcriptome Analysis of Rhizoctonia solani AG1 IA Strain Early Invasion in Zoysia japonica Root
Identifieur interne : 000654 ( Pmc/Checkpoint ); précédent : 000653; suivant : 000655De novo Transcriptome Analysis of Rhizoctonia solani AG1 IA Strain Early Invasion in Zoysia japonica Root
Auteurs : Chen Zhu [République populaire de Chine] ; Lin Ai [République populaire de Chine] ; Li Wang [République populaire de Chine] ; Pingping Yin [République populaire de Chine] ; Chenglan Liu [République populaire de Chine] ; Shanshan Li [République populaire de Chine] ; Huiming Zeng [République populaire de Chine]Source :
- Frontiers in Microbiology [ 1664-302X ] ; 2016.
Abstract
Url:
DOI: 10.3389/fmicb.2016.00708
PubMed: 27242730
PubMed Central: 4870862
Affiliations:
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en"><italic>De novo</italic> Transcriptome Analysis of <italic>Rhizoctonia solani</italic> AG1 IA Strain Early Invasion in <italic>Zoysia japonica</italic> Root</title><author><name sortKey="Zhu, Chen" sort="Zhu, Chen" uniqKey="Zhu C" first="Chen" last="Zhu">Chen Zhu</name><affiliation wicri:level="1"><nlm:aff id="aff1"><institution>Biochemistry and Molecular Biology Department, College of Biological Sciences and Technology, Beijing Forestry University</institution><country>Beijing, China</country></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea></wicri:regionArea></affiliation></author><author><name sortKey="Ai, Lin" sort="Ai, Lin" uniqKey="Ai L" first="Lin" last="Ai">Lin Ai</name><affiliation wicri:level="1"><nlm:aff id="aff2"><institution>Ecology Department, College of Forestry, Beijing Forestry University</institution><country>Beijing, China</country></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea></wicri:regionArea></affiliation></author><author><name sortKey="Wang, Li" sort="Wang, Li" uniqKey="Wang L" first="Li" last="Wang">Li Wang</name><affiliation wicri:level="1"><nlm:aff id="aff3"><institution>Silviculture Forestry Department, College of Forestry, Beijing Forestry University</institution><country>Beijing, China</country></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea></wicri:regionArea></affiliation></author><author><name sortKey="Yin, Pingping" sort="Yin, Pingping" uniqKey="Yin P" first="Pingping" last="Yin">Pingping Yin</name><affiliation wicri:level="1"><nlm:aff id="aff4"><institution>Turfgrass Management Department, College of Forestry, Beijing Forestry University</institution><country>Beijing, China</country></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea></wicri:regionArea></affiliation></author><author><name sortKey="Liu, Chenglan" sort="Liu, Chenglan" uniqKey="Liu C" first="Chenglan" last="Liu">Chenglan Liu</name><affiliation wicri:level="1"><nlm:aff id="aff4"><institution>Turfgrass Management Department, College of Forestry, Beijing Forestry University</institution><country>Beijing, China</country></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea></wicri:regionArea></affiliation></author><author><name sortKey="Li, Shanshan" sort="Li, Shanshan" uniqKey="Li S" first="Shanshan" last="Li">Shanshan Li</name><affiliation wicri:level="1"><nlm:aff id="aff4"><institution>Turfgrass Management Department, College of Forestry, Beijing Forestry University</institution><country>Beijing, China</country></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea></wicri:regionArea></affiliation></author><author><name sortKey="Zeng, Huiming" sort="Zeng, Huiming" uniqKey="Zeng H" first="Huiming" last="Zeng">Huiming Zeng</name><affiliation wicri:level="1"><nlm:aff id="aff4"><institution>Turfgrass Management Department, College of Forestry, Beijing Forestry University</institution><country>Beijing, China</country></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea></wicri:regionArea></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">27242730</idno><idno type="pmc">4870862</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4870862</idno><idno type="RBID">PMC:4870862</idno><idno type="doi">10.3389/fmicb.2016.00708</idno><date when="2016">2016</date><idno type="wicri:Area/Pmc/Corpus">000056</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Corpus" wicri:corpus="PMC">000056</idno><idno type="wicri:Area/Pmc/Curation">000056</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Curation">000056</idno><idno type="wicri:Area/Pmc/Checkpoint">000654</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Checkpoint">000654</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main"><italic>De novo</italic> Transcriptome Analysis of <italic>Rhizoctonia solani</italic> AG1 IA Strain Early Invasion in <italic>Zoysia japonica</italic> Root</title><author><name sortKey="Zhu, Chen" sort="Zhu, Chen" uniqKey="Zhu C" first="Chen" last="Zhu">Chen Zhu</name><affiliation wicri:level="1"><nlm:aff id="aff1"><institution>Biochemistry and Molecular Biology Department, College of Biological Sciences and Technology, Beijing Forestry University</institution><country>Beijing, China</country></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea></wicri:regionArea></affiliation></author><author><name sortKey="Ai, Lin" sort="Ai, Lin" uniqKey="Ai L" first="Lin" last="Ai">Lin Ai</name><affiliation wicri:level="1"><nlm:aff id="aff2"><institution>Ecology Department, College of Forestry, Beijing Forestry University</institution><country>Beijing, China</country></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea></wicri:regionArea></affiliation></author><author><name sortKey="Wang, Li" sort="Wang, Li" uniqKey="Wang L" first="Li" last="Wang">Li Wang</name><affiliation wicri:level="1"><nlm:aff id="aff3"><institution>Silviculture Forestry Department, College of Forestry, Beijing Forestry University</institution><country>Beijing, China</country></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea></wicri:regionArea></affiliation></author><author><name sortKey="Yin, Pingping" sort="Yin, Pingping" uniqKey="Yin P" first="Pingping" last="Yin">Pingping Yin</name><affiliation wicri:level="1"><nlm:aff id="aff4"><institution>Turfgrass Management Department, College of Forestry, Beijing Forestry University</institution><country>Beijing, China</country></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea></wicri:regionArea></affiliation></author><author><name sortKey="Liu, Chenglan" sort="Liu, Chenglan" uniqKey="Liu C" first="Chenglan" last="Liu">Chenglan Liu</name><affiliation wicri:level="1"><nlm:aff id="aff4"><institution>Turfgrass Management Department, College of Forestry, Beijing Forestry University</institution><country>Beijing, China</country></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea></wicri:regionArea></affiliation></author><author><name sortKey="Li, Shanshan" sort="Li, Shanshan" uniqKey="Li S" first="Shanshan" last="Li">Shanshan Li</name><affiliation wicri:level="1"><nlm:aff id="aff4"><institution>Turfgrass Management Department, College of Forestry, Beijing Forestry University</institution><country>Beijing, China</country></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea></wicri:regionArea></affiliation></author><author><name sortKey="Zeng, Huiming" sort="Zeng, Huiming" uniqKey="Zeng H" first="Huiming" last="Zeng">Huiming Zeng</name><affiliation wicri:level="1"><nlm:aff id="aff4"><institution>Turfgrass Management Department, College of Forestry, Beijing Forestry University</institution><country>Beijing, China</country></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea></wicri:regionArea></affiliation></author></analytic><series><title level="j">Frontiers in Microbiology</title><idno type="eISSN">1664-302X</idno><imprint><date when="2016">2016</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p><italic>Zoysia japonica</italic> brown spot was caused by necrotrophic fungus <italic>Rhizoctonia solani</italic> invasion, which led to severe financial loss in city lawn and golf ground maintenance. However, little was known about the molecular mechanism of <italic>R. solani</italic> pathogenicity in <italic>Z. japonica</italic>. In this study we examined early stage interaction between <italic>R. solani</italic> AG1 IA strain and <italic>Z. japonica</italic> cultivar “Zenith” root by cell ultra-structure analysis, pathogenesis-related proteins assay and transcriptome analysis to explore molecular clues for AG1 IA strain pathogenicity in <italic>Z. japonica</italic>. No obvious cell structure damage was found in infected roots and most pathogenesis-related protein activities showedg a downward trend especially in 36 h post inoculation, which exhibits AG1 IA strain stealthy invasion characteristic. According to Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) database classification, most DEGs in infected “Zenith” roots dynamically changed especially in three aspects, signal transduction, gene translation, and protein synthesis. Total 3422 unigenes of “Zenith” root were predicted into 14 kinds of resistance (R) gene class. Potential fungal resistance related unigenes of “Zenith” root were involved in ligin biosynthesis, phytoalexin synthesis, oxidative burst, wax biosynthesis, while two down-regulated unigenes encoding leucine-rich repeat receptor protein kinase and subtilisin-like protease might be important for host-derived signal perception to AG1 IA strain invasion. According to Pathogen Host Interaction (PHI) database annotation, 1508 unigenes of AG1 IA strain were predicted and classified into 37 known pathogen species, in addition, unigenes encoding virulence, signaling, host stress tolerance, and potential effector were also predicted. This research uncovered transcriptional profiling during the early phase interaction between <italic>R. solani</italic> AG1 IA strain and <italic>Z. japonica</italic>, and will greatly help identify key pathogenicity of AG1 IA strain.</p></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Ballhorn, D J" uniqKey="Ballhorn D">D. J. Ballhorn</name></author><author><name sortKey="Younginger, B S" uniqKey="Younginger B">B. S. Younginger</name></author><author><name sortKey="Kautz, S" uniqKey="Kautz S">S. Kautz</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Beffa, R S" uniqKey="Beffa R">R. S. Beffa</name></author><author><name sortKey="Neuhaus, J M" uniqKey="Neuhaus J">J. M. Neuhaus</name></author><author><name sortKey="Meins, F J" uniqKey="Meins F">F. J. Meins</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Bradford, M M" uniqKey="Bradford M">M. M. 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<front><journal-meta><journal-id journal-id-type="nlm-ta">Front Microbiol</journal-id><journal-id journal-id-type="iso-abbrev">Front Microbiol</journal-id><journal-id journal-id-type="publisher-id">Front. Microbiol.</journal-id><journal-title-group><journal-title>Frontiers in Microbiology</journal-title></journal-title-group><issn pub-type="epub">1664-302X</issn><publisher><publisher-name>Frontiers Media S.A.</publisher-name></publisher></journal-meta><article-meta><article-id pub-id-type="pmid">27242730</article-id><article-id pub-id-type="pmc">4870862</article-id><article-id pub-id-type="doi">10.3389/fmicb.2016.00708</article-id><article-categories><subj-group subj-group-type="heading"><subject>Microbiology</subject><subj-group><subject>Original Research</subject></subj-group></subj-group></article-categories><title-group><article-title><italic>De novo</italic> Transcriptome Analysis of <italic>Rhizoctonia solani</italic> AG1 IA Strain Early Invasion in <italic>Zoysia japonica</italic> Root</article-title></title-group><contrib-group><contrib contrib-type="author"><name><surname>Zhu</surname><given-names>Chen</given-names></name><xref ref-type="aff" rid="aff1"><sup>1</sup></xref><xref ref-type="author-notes" rid="fn003"><sup>†</sup></xref><uri xlink:type="simple" xlink:href="http://loop.frontiersin.org/people/283281/overview"></uri></contrib><contrib contrib-type="author"><name><surname>Ai</surname><given-names>Lin</given-names></name><xref ref-type="aff" rid="aff2"><sup>2</sup></xref><xref ref-type="author-notes" rid="fn003"><sup>†</sup></xref><uri xlink:type="simple" xlink:href="http://loop.frontiersin.org/people/342248/overview"></uri></contrib><contrib contrib-type="author"><name><surname>Wang</surname><given-names>Li</given-names></name><xref ref-type="aff" rid="aff3"><sup>3</sup></xref></contrib><contrib contrib-type="author"><name><surname>Yin</surname><given-names>Pingping</given-names></name><xref ref-type="aff" rid="aff4"><sup>4</sup></xref></contrib><contrib contrib-type="author"><name><surname>Liu</surname><given-names>Chenglan</given-names></name><xref ref-type="aff" rid="aff4"><sup>4</sup></xref></contrib><contrib contrib-type="author"><name><surname>Li</surname><given-names>Shanshan</given-names></name><xref ref-type="aff" rid="aff4"><sup>4</sup></xref></contrib><contrib contrib-type="author"><name><surname>Zeng</surname><given-names>Huiming</given-names></name><xref ref-type="aff" rid="aff4"><sup>4</sup></xref><xref ref-type="author-notes" rid="fn001"><sup>*</sup></xref></contrib></contrib-group><aff id="aff1"><sup>1</sup><institution>Biochemistry and Molecular Biology Department, College of Biological Sciences and Technology, Beijing Forestry University</institution><country>Beijing, China</country></aff><aff id="aff2"><sup>2</sup><institution>Ecology Department, College of Forestry, Beijing Forestry University</institution><country>Beijing, China</country></aff><aff id="aff3"><sup>3</sup><institution>Silviculture Forestry Department, College of Forestry, Beijing Forestry University</institution><country>Beijing, China</country></aff><aff id="aff4"><sup>4</sup><institution>Turfgrass Management Department, College of Forestry, Beijing Forestry University</institution><country>Beijing, China</country></aff><author-notes><fn fn-type="edited-by"><p>Edited by: Vijai Kumar Gupta, NUI Galway, Ireland</p></fn><fn fn-type="edited-by"><p>Reviewed by: Christian P. Kubicek, Vienna University of Technology, Austria; Anita Hilda Straus, Universidade Federal de São Paulo, Brazil</p></fn><corresp id="fn001">*Correspondence: Huiming Zeng <email xlink:type="simple">sciinfo@bjfu.edu.cn</email></corresp><fn fn-type="other" id="fn002"><p>This article was submitted to Fungi and Their Interactions, a section of the journal Frontiers in Microbiology</p></fn><fn fn-type="other" id="fn003"><p>†These authors have contributed equally to this work.</p></fn></author-notes><pub-date pub-type="epub"><day>18</day><month>5</month><year>2016</year></pub-date><pub-date pub-type="collection"><year>2016</year></pub-date><volume>7</volume><elocation-id>708</elocation-id><history><date date-type="received"><day>28</day><month>1</month><year>2016</year></date><date date-type="accepted"><day>28</day><month>4</month><year>2016</year></date></history><permissions><copyright-statement>Copyright © 2016 Zhu, Ai, Wang, Yin, Liu, Li and Zeng.</copyright-statement><copyright-year>2016</copyright-year><copyright-holder>Zhu, Ai, Wang, Yin, Liu, Li and Zeng</copyright-holder><license xlink:href="http://creativecommons.org/licenses/by/4.0/"><license-p>This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.</license-p></license></permissions><abstract><p><italic>Zoysia japonica</italic> brown spot was caused by necrotrophic fungus <italic>Rhizoctonia solani</italic> invasion, which led to severe financial loss in city lawn and golf ground maintenance. However, little was known about the molecular mechanism of <italic>R. solani</italic> pathogenicity in <italic>Z. japonica</italic>. In this study we examined early stage interaction between <italic>R. solani</italic> AG1 IA strain and <italic>Z. japonica</italic> cultivar “Zenith” root by cell ultra-structure analysis, pathogenesis-related proteins assay and transcriptome analysis to explore molecular clues for AG1 IA strain pathogenicity in <italic>Z. japonica</italic>. No obvious cell structure damage was found in infected roots and most pathogenesis-related protein activities showedg a downward trend especially in 36 h post inoculation, which exhibits AG1 IA strain stealthy invasion characteristic. According to Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) database classification, most DEGs in infected “Zenith” roots dynamically changed especially in three aspects, signal transduction, gene translation, and protein synthesis. Total 3422 unigenes of “Zenith” root were predicted into 14 kinds of resistance (R) gene class. Potential fungal resistance related unigenes of “Zenith” root were involved in ligin biosynthesis, phytoalexin synthesis, oxidative burst, wax biosynthesis, while two down-regulated unigenes encoding leucine-rich repeat receptor protein kinase and subtilisin-like protease might be important for host-derived signal perception to AG1 IA strain invasion. According to Pathogen Host Interaction (PHI) database annotation, 1508 unigenes of AG1 IA strain were predicted and classified into 37 known pathogen species, in addition, unigenes encoding virulence, signaling, host stress tolerance, and potential effector were also predicted. This research uncovered transcriptional profiling during the early phase interaction between <italic>R. solani</italic> AG1 IA strain and <italic>Z. japonica</italic>, and will greatly help identify key pathogenicity of AG1 IA strain.</p></abstract><kwd-group><kwd><italic>Zoysia japonica</italic> steud</kwd><kwd><italic>Rhizoctonia solani</italic> AG1 IA strain</kwd><kwd>brown spot</kwd><kwd>RNA sequencing</kwd><kwd>transcriptome analysis</kwd></kwd-group><funding-group><award-group><funding-source id="cn001">National High Technology Research and Development Program of China (863 program)</funding-source><award-id rid="cn001">2013AA102607</award-id></award-group><award-group><funding-source id="cn002">Fundamental Research Funds for the Central University</funding-source><award-id rid="cn002">BLYJ201506</award-id></award-group><award-group><funding-source id="cn003">Beijing Municipal Commission of Education<named-content content-type="fundref-id">10.13039/501100002888</named-content></funding-source><award-id rid="cn003">BLCXY201514</award-id></award-group></funding-group><counts><fig-count count="6"></fig-count><table-count count="3"></table-count><equation-count count="0"></equation-count><ref-count count="55"></ref-count><page-count count="12"></page-count><word-count count="8689"></word-count></counts></article-meta></front></pmc><affiliations><list><country><li>République populaire de Chine</li></country></list><tree><country name="République populaire de Chine"><noRegion><name sortKey="Zhu, Chen" sort="Zhu, Chen" uniqKey="Zhu C" first="Chen" last="Zhu">Chen Zhu</name></noRegion><name sortKey="Ai, Lin" sort="Ai, Lin" uniqKey="Ai L" first="Lin" last="Ai">Lin Ai</name><name sortKey="Li, Shanshan" sort="Li, Shanshan" uniqKey="Li S" first="Shanshan" last="Li">Shanshan Li</name><name sortKey="Liu, Chenglan" sort="Liu, Chenglan" uniqKey="Liu C" first="Chenglan" last="Liu">Chenglan Liu</name><name sortKey="Wang, Li" sort="Wang, Li" uniqKey="Wang L" first="Li" last="Wang">Li Wang</name><name sortKey="Yin, Pingping" sort="Yin, Pingping" uniqKey="Yin P" first="Pingping" last="Yin">Pingping Yin</name><name sortKey="Zeng, Huiming" sort="Zeng, Huiming" uniqKey="Zeng H" first="Huiming" last="Zeng">Huiming Zeng</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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