Integrative transcriptome analysis discloses the molecular basis of a heterogeneous fungal phytopathogen complex, Rhizoctonia solani AG-1 subgroups.
Identifieur interne : 000466 ( Main/Exploration ); précédent : 000465; suivant : 000467Integrative transcriptome analysis discloses the molecular basis of a heterogeneous fungal phytopathogen complex, Rhizoctonia solani AG-1 subgroups.
Auteurs : Naoki Yamamoto [République populaire de Chine] ; Yanran Wang [République populaire de Chine] ; Runmao Lin [République populaire de Chine] ; Yueyang Liang [République populaire de Chine] ; Yao Liu [République populaire de Chine] ; Jun Zhu [République populaire de Chine] ; Lingxia Wang [République populaire de Chine] ; Shiquan Wang [République populaire de Chine] ; Huainian Liu [République populaire de Chine] ; Qiming Deng [République populaire de Chine] ; Shuangcheng Li [République populaire de Chine] ; Ping Li [République populaire de Chine] ; Aiping Zheng [République populaire de Chine]Source :
- Scientific reports [ 2045-2322 ] ; 2019.
Descripteurs français
- KwdFr :
- MESH :
- génétique : Rhizoctonia.
- métabolisme : Rhizoctonia.
- physiologie : Régulation de l'expression des gènes fongiques, Transcriptome.
- Analyse de profil d'expression de gènes, Bases de données génétiques, Évolution moléculaire.
English descriptors
- KwdEn :
- MESH :
- genetics : Rhizoctonia.
- metabolism : Rhizoctonia.
- physiology : Gene Expression Regulation, Fungal, Transcriptome.
- Databases, Genetic, Evolution, Molecular, Gene Expression Profiling.
Abstract
Rhizoctonia solani is a fungal species complex that causes necrotrophic crop diseases. It comprises several anastomosis groups, some of which include intra-subgroups, such as AG-1 IA and AG-1 IB, exhibiting varying pathogenicity. Owing to its heterozygous and multinucleate features, genomic analyses of R. solani are still challenging, and understanding of its genetic diversity and genic components is limited. In this study, in order to elucidate the molecular basis of this phytopathogen complex, an integrated transcriptome analysis was undertaken for three subgroups of AG-1, i.e. AG-1 IA, AG-1 IB, and AG-1 IC. Sequence variations suggested substantial evolutionary distances within AG-1. Transcript simple sequence repeats showed comparable characteristics among AG-1, but contained polymorphic sites. Intra-subgroup polymorphisms suggested varying genic heterozygosity within AG-1, suggesting their independent evolutionary trajectory. Sequences of pathogenic factors, phytotoxin biosynthesis pathway enzymes, secreted lignocellulosic enzymes, secreted reactive oxygen species detoxification enzymes, apoplastic/cytoplasmic effector candidates, were conserved among those subgroups. dN/dS ratios of a secretome subset suggested core secreted proteins in AG-1 and distinct evolution of Cys-rich small secreted proteins after differentiation of AG-1 subgroups. Identification of likely pathogenic factors including allergen protein homologues, oxidative phosphorylation and ethylene biosynthesis pathways, and diversification of polysaccharide monooxygenases provides molecular insight into key genomic components that play a role in R. solani pathogenesis.
DOI: 10.1038/s41598-019-55734-2
PubMed: 31873088
PubMed Central: PMC6928066
Affiliations:
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Ministry of Education, Sichuan Agricultural University, Ya'an, 625014, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Southwest Crop Gene Resource and Genetic Improvement of Ministry of Education, Sichuan Agricultural University, Ya'an, 625014</wicri:regionArea><wicri:noRegion>625014</wicri:noRegion></affiliation></author><author><name sortKey="Li, Ping" sort="Li, Ping" uniqKey="Li P" first="Ping" last="Li">Ping Li</name><affiliation wicri:level="1"><nlm:affiliation>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130</wicri:regionArea><wicri:noRegion>611130</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>Key Laboratory of Southwest Crop Gene Resource and Genetic Improvement of Ministry of Education, Sichuan Agricultural University, Ya'an, 625014, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Southwest Crop Gene Resource and Genetic Improvement of Ministry of Education, Sichuan Agricultural University, Ya'an, 625014</wicri:regionArea><wicri:noRegion>625014</wicri:noRegion></affiliation></author><author><name sortKey="Zheng, Aiping" sort="Zheng, Aiping" uniqKey="Zheng A" first="Aiping" last="Zheng">Aiping Zheng</name><affiliation wicri:level="1"><nlm:affiliation>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130, China. apzh0602@gmail.com.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130</wicri:regionArea><wicri:noRegion>611130</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>Key Laboratory of Sichuan Crop Major Diseases, Sichuan Agricultural University, Chengdu, 611130, China. apzh0602@gmail.com.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Sichuan Crop Major Diseases, Sichuan Agricultural University, Chengdu, 611130</wicri:regionArea><wicri:noRegion>611130</wicri:noRegion></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2019">2019</date><idno type="RBID">pubmed:31873088</idno><idno type="pmid">31873088</idno><idno type="doi">10.1038/s41598-019-55734-2</idno><idno type="pmc">PMC6928066</idno><idno type="wicri:Area/Main/Corpus">000250</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Corpus" wicri:corpus="PubMed">000250</idno><idno type="wicri:Area/Main/Curation">000250</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Curation">000250</idno><idno type="wicri:Area/Main/Exploration">000250</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Integrative transcriptome analysis discloses the molecular basis of a heterogeneous fungal phytopathogen complex, Rhizoctonia solani AG-1 subgroups.</title><author><name sortKey="Yamamoto, Naoki" sort="Yamamoto, Naoki" uniqKey="Yamamoto N" first="Naoki" last="Yamamoto">Naoki Yamamoto</name><affiliation wicri:level="1"><nlm:affiliation>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130</wicri:regionArea><wicri:noRegion>611130</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>Key Laboratory of Sichuan Crop Major Diseases, Sichuan Agricultural University, Chengdu, 611130, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Sichuan Crop Major Diseases, Sichuan Agricultural University, Chengdu, 611130</wicri:regionArea><wicri:noRegion>611130</wicri:noRegion></affiliation></author><author><name sortKey="Wang, Yanran" sort="Wang, Yanran" uniqKey="Wang Y" first="Yanran" last="Wang">Yanran Wang</name><affiliation wicri:level="1"><nlm:affiliation>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130</wicri:regionArea><wicri:noRegion>611130</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>Key Laboratory of Sichuan Crop Major Diseases, Sichuan Agricultural University, Chengdu, 611130, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Sichuan Crop Major Diseases, Sichuan Agricultural University, Chengdu, 611130</wicri:regionArea><wicri:noRegion>611130</wicri:noRegion></affiliation></author><author><name sortKey="Lin, Runmao" sort="Lin, Runmao" uniqKey="Lin R" first="Runmao" last="Lin">Runmao Lin</name><affiliation wicri:level="1"><nlm:affiliation>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130</wicri:regionArea><wicri:noRegion>611130</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>Key Laboratory of Sichuan Crop Major Diseases, Sichuan Agricultural University, Chengdu, 611130, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Sichuan Crop Major Diseases, Sichuan Agricultural University, Chengdu, 611130</wicri:regionArea><wicri:noRegion>611130</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing, 100081, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing, 100081</wicri:regionArea><wicri:noRegion>100081</wicri:noRegion></affiliation></author><author><name sortKey="Liang, Yueyang" sort="Liang, Yueyang" uniqKey="Liang Y" first="Yueyang" last="Liang">Yueyang Liang</name><affiliation wicri:level="1"><nlm:affiliation>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130</wicri:regionArea><wicri:noRegion>611130</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>Key Laboratory of Southwest Crop Gene Resource and Genetic Improvement of Ministry of Education, Sichuan Agricultural University, Ya'an, 625014, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Southwest Crop Gene Resource and Genetic Improvement of Ministry of Education, Sichuan Agricultural University, Ya'an, 625014</wicri:regionArea><wicri:noRegion>625014</wicri:noRegion></affiliation></author><author><name sortKey="Liu, Yao" sort="Liu, Yao" uniqKey="Liu Y" first="Yao" last="Liu">Yao Liu</name><affiliation wicri:level="1"><nlm:affiliation>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130</wicri:regionArea><wicri:noRegion>611130</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>Key Laboratory of Sichuan Crop Major Diseases, Sichuan Agricultural University, Chengdu, 611130, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Sichuan Crop Major Diseases, Sichuan Agricultural University, Chengdu, 611130</wicri:regionArea><wicri:noRegion>611130</wicri:noRegion></affiliation></author><author><name sortKey="Zhu, Jun" sort="Zhu, Jun" uniqKey="Zhu J" first="Jun" last="Zhu">Jun Zhu</name><affiliation wicri:level="1"><nlm:affiliation>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130</wicri:regionArea><wicri:noRegion>611130</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>Key Laboratory of Southwest Crop Gene Resource and Genetic Improvement of Ministry of Education, Sichuan Agricultural University, Ya'an, 625014, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Southwest Crop Gene Resource and Genetic Improvement of Ministry of Education, Sichuan Agricultural University, Ya'an, 625014</wicri:regionArea><wicri:noRegion>625014</wicri:noRegion></affiliation></author><author><name sortKey="Wang, Lingxia" sort="Wang, Lingxia" uniqKey="Wang L" first="Lingxia" last="Wang">Lingxia Wang</name><affiliation wicri:level="1"><nlm:affiliation>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130</wicri:regionArea><wicri:noRegion>611130</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>Key Laboratory of Southwest Crop Gene Resource and Genetic Improvement of Ministry of Education, Sichuan Agricultural University, Ya'an, 625014, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Southwest Crop Gene Resource and Genetic Improvement of Ministry of Education, Sichuan Agricultural University, Ya'an, 625014</wicri:regionArea><wicri:noRegion>625014</wicri:noRegion></affiliation></author><author><name sortKey="Wang, Shiquan" sort="Wang, Shiquan" uniqKey="Wang S" first="Shiquan" last="Wang">Shiquan Wang</name><affiliation wicri:level="1"><nlm:affiliation>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130</wicri:regionArea><wicri:noRegion>611130</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>Key Laboratory of Southwest Crop Gene Resource and Genetic Improvement of Ministry of Education, Sichuan Agricultural University, Ya'an, 625014, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Southwest Crop Gene Resource and Genetic Improvement of Ministry of Education, Sichuan Agricultural University, Ya'an, 625014</wicri:regionArea><wicri:noRegion>625014</wicri:noRegion></affiliation></author><author><name sortKey="Liu, Huainian" sort="Liu, Huainian" uniqKey="Liu H" first="Huainian" last="Liu">Huainian Liu</name><affiliation wicri:level="1"><nlm:affiliation>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130</wicri:regionArea><wicri:noRegion>611130</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>Key Laboratory of Southwest Crop Gene Resource and Genetic Improvement of Ministry of Education, Sichuan Agricultural University, Ya'an, 625014, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Southwest Crop Gene Resource and Genetic Improvement of Ministry of Education, Sichuan Agricultural University, Ya'an, 625014</wicri:regionArea><wicri:noRegion>625014</wicri:noRegion></affiliation></author><author><name sortKey="Deng, Qiming" sort="Deng, Qiming" uniqKey="Deng Q" first="Qiming" last="Deng">Qiming Deng</name><affiliation wicri:level="1"><nlm:affiliation>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130</wicri:regionArea><wicri:noRegion>611130</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>Key Laboratory of Southwest Crop Gene Resource and Genetic Improvement of Ministry of Education, Sichuan Agricultural University, Ya'an, 625014, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Southwest Crop Gene Resource and Genetic Improvement of Ministry of Education, Sichuan Agricultural University, Ya'an, 625014</wicri:regionArea><wicri:noRegion>625014</wicri:noRegion></affiliation></author><author><name sortKey="Li, Shuangcheng" sort="Li, Shuangcheng" uniqKey="Li S" first="Shuangcheng" last="Li">Shuangcheng Li</name><affiliation wicri:level="1"><nlm:affiliation>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130</wicri:regionArea><wicri:noRegion>611130</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>Key Laboratory of Southwest Crop Gene Resource and Genetic Improvement of Ministry of Education, Sichuan Agricultural University, Ya'an, 625014, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Southwest Crop Gene Resource and Genetic Improvement of Ministry of Education, Sichuan Agricultural University, Ya'an, 625014</wicri:regionArea><wicri:noRegion>625014</wicri:noRegion></affiliation></author><author><name sortKey="Li, Ping" sort="Li, Ping" uniqKey="Li P" first="Ping" last="Li">Ping Li</name><affiliation wicri:level="1"><nlm:affiliation>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130</wicri:regionArea><wicri:noRegion>611130</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>Key Laboratory of Southwest Crop Gene Resource and Genetic Improvement of Ministry of Education, Sichuan Agricultural University, Ya'an, 625014, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Southwest Crop Gene Resource and Genetic Improvement of Ministry of Education, Sichuan Agricultural University, Ya'an, 625014</wicri:regionArea><wicri:noRegion>625014</wicri:noRegion></affiliation></author><author><name sortKey="Zheng, Aiping" sort="Zheng, Aiping" uniqKey="Zheng A" first="Aiping" last="Zheng">Aiping Zheng</name><affiliation wicri:level="1"><nlm:affiliation>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130, China. apzh0602@gmail.com.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130</wicri:regionArea><wicri:noRegion>611130</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>Key Laboratory of Sichuan Crop Major Diseases, Sichuan Agricultural University, Chengdu, 611130, China. apzh0602@gmail.com.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Sichuan Crop Major Diseases, Sichuan Agricultural University, Chengdu, 611130</wicri:regionArea><wicri:noRegion>611130</wicri:noRegion></affiliation></author></analytic><series><title level="j">Scientific reports</title><idno type="eISSN">2045-2322</idno><imprint><date when="2019" type="published">2019</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Databases, Genetic (MeSH)</term><term>Evolution, Molecular (MeSH)</term><term>Gene Expression Profiling (MeSH)</term><term>Gene Expression Regulation, Fungal (physiology)</term><term>Rhizoctonia (genetics)</term><term>Rhizoctonia (metabolism)</term><term>Transcriptome (physiology)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Analyse de profil d'expression de gènes (MeSH)</term><term>Bases de données génétiques (MeSH)</term><term>Rhizoctonia (génétique)</term><term>Rhizoctonia (métabolisme)</term><term>Régulation de l'expression des gènes fongiques (physiologie)</term><term>Transcriptome (physiologie)</term><term>Évolution moléculaire (MeSH)</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Rhizoctonia</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Rhizoctonia</term></keywords><keywords scheme="MESH" qualifier="metabolism" xml:lang="en"><term>Rhizoctonia</term></keywords><keywords scheme="MESH" qualifier="métabolisme" xml:lang="fr"><term>Rhizoctonia</term></keywords><keywords scheme="MESH" qualifier="physiologie" xml:lang="fr"><term>Régulation de l'expression des gènes fongiques</term><term>Transcriptome</term></keywords><keywords scheme="MESH" qualifier="physiology" xml:lang="en"><term>Gene Expression Regulation, Fungal</term><term>Transcriptome</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Databases, Genetic</term><term>Evolution, Molecular</term><term>Gene Expression Profiling</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Analyse de profil d'expression de gènes</term><term>Bases de données génétiques</term><term>Évolution moléculaire</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Rhizoctonia solani is a fungal species complex that causes necrotrophic crop diseases. It comprises several anastomosis groups, some of which include intra-subgroups, such as AG-1 IA and AG-1 IB, exhibiting varying pathogenicity. Owing to its heterozygous and multinucleate features, genomic analyses of R. solani are still challenging, and understanding of its genetic diversity and genic components is limited. In this study, in order to elucidate the molecular basis of this phytopathogen complex, an integrated transcriptome analysis was undertaken for three subgroups of AG-1, i.e. AG-1 IA, AG-1 IB, and AG-1 IC. Sequence variations suggested substantial evolutionary distances within AG-1. Transcript simple sequence repeats showed comparable characteristics among AG-1, but contained polymorphic sites. Intra-subgroup polymorphisms suggested varying genic heterozygosity within AG-1, suggesting their independent evolutionary trajectory. Sequences of pathogenic factors, phytotoxin biosynthesis pathway enzymes, secreted lignocellulosic enzymes, secreted reactive oxygen species detoxification enzymes, apoplastic/cytoplasmic effector candidates, were conserved among those subgroups. d<sub>N</sub>/d<sub>S</sub> ratios of a secretome subset suggested core secreted proteins in AG-1 and distinct evolution of Cys-rich small secreted proteins after differentiation of AG-1 subgroups. Identification of likely pathogenic factors including allergen protein homologues, oxidative phosphorylation and ethylene biosynthesis pathways, and diversification of polysaccharide monooxygenases provides molecular insight into key genomic components that play a role in R. solani pathogenesis.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">31873088</PMID><DateCompleted><Year>2020</Year><Month>11</Month><Day>04</Day></DateCompleted><DateRevised><Year>2020</Year><Month>11</Month><Day>04</Day></DateRevised><Article PubModel="Electronic"><Journal><ISSN IssnType="Electronic">2045-2322</ISSN><JournalIssue CitedMedium="Internet"><Volume>9</Volume><Issue>1</Issue><PubDate><Year>2019</Year><Month>12</Month><Day>23</Day></PubDate></JournalIssue><Title>Scientific reports</Title><ISOAbbreviation>Sci Rep</ISOAbbreviation></Journal><ArticleTitle>Integrative transcriptome analysis discloses the molecular basis of a heterogeneous fungal phytopathogen complex, Rhizoctonia solani AG-1 subgroups.</ArticleTitle><Pagination><MedlinePgn>19626</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1038/s41598-019-55734-2</ELocationID><Abstract><AbstractText>Rhizoctonia solani is a fungal species complex that causes necrotrophic crop diseases. It comprises several anastomosis groups, some of which include intra-subgroups, such as AG-1 IA and AG-1 IB, exhibiting varying pathogenicity. Owing to its heterozygous and multinucleate features, genomic analyses of R. solani are still challenging, and understanding of its genetic diversity and genic components is limited. In this study, in order to elucidate the molecular basis of this phytopathogen complex, an integrated transcriptome analysis was undertaken for three subgroups of AG-1, i.e. AG-1 IA, AG-1 IB, and AG-1 IC. Sequence variations suggested substantial evolutionary distances within AG-1. Transcript simple sequence repeats showed comparable characteristics among AG-1, but contained polymorphic sites. Intra-subgroup polymorphisms suggested varying genic heterozygosity within AG-1, suggesting their independent evolutionary trajectory. Sequences of pathogenic factors, phytotoxin biosynthesis pathway enzymes, secreted lignocellulosic enzymes, secreted reactive oxygen species detoxification enzymes, apoplastic/cytoplasmic effector candidates, were conserved among those subgroups. d<sub>N</sub>/d<sub>S</sub> ratios of a secretome subset suggested core secreted proteins in AG-1 and distinct evolution of Cys-rich small secreted proteins after differentiation of AG-1 subgroups. Identification of likely pathogenic factors including allergen protein homologues, oxidative phosphorylation and ethylene biosynthesis pathways, and diversification of polysaccharide monooxygenases provides molecular insight into key genomic components that play a role in R. solani pathogenesis.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Yamamoto</LastName><ForeName>Naoki</ForeName><Initials>N</Initials><AffiliationInfo><Affiliation>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Key Laboratory of Sichuan Crop Major Diseases, Sichuan Agricultural University, Chengdu, 611130, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Wang</LastName><ForeName>Yanran</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Key Laboratory of Sichuan Crop Major Diseases, Sichuan Agricultural University, Chengdu, 611130, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Lin</LastName><ForeName>Runmao</ForeName><Initials>R</Initials><AffiliationInfo><Affiliation>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Key Laboratory of Sichuan Crop Major Diseases, Sichuan Agricultural University, Chengdu, 611130, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing, 100081, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Liang</LastName><ForeName>Yueyang</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Key Laboratory of Southwest Crop Gene Resource and Genetic Improvement of Ministry of Education, Sichuan Agricultural University, Ya'an, 625014, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Liu</LastName><ForeName>Yao</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Key Laboratory of Sichuan Crop Major Diseases, Sichuan Agricultural University, Chengdu, 611130, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Zhu</LastName><ForeName>Jun</ForeName><Initials>J</Initials><AffiliationInfo><Affiliation>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Key Laboratory of Southwest Crop Gene Resource and Genetic Improvement of Ministry of Education, Sichuan Agricultural University, Ya'an, 625014, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Wang</LastName><ForeName>Lingxia</ForeName><Initials>L</Initials><AffiliationInfo><Affiliation>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Key Laboratory of Southwest Crop Gene Resource and Genetic Improvement of Ministry of Education, Sichuan Agricultural University, Ya'an, 625014, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Wang</LastName><ForeName>Shiquan</ForeName><Initials>S</Initials><AffiliationInfo><Affiliation>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Key Laboratory of Southwest Crop Gene Resource and Genetic Improvement of Ministry of Education, Sichuan Agricultural University, Ya'an, 625014, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Liu</LastName><ForeName>Huainian</ForeName><Initials>H</Initials><AffiliationInfo><Affiliation>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Key Laboratory of Southwest Crop Gene Resource and Genetic Improvement of Ministry of Education, Sichuan Agricultural University, Ya'an, 625014, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Deng</LastName><ForeName>Qiming</ForeName><Initials>Q</Initials><AffiliationInfo><Affiliation>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Key Laboratory of Southwest Crop Gene Resource and Genetic Improvement of Ministry of Education, Sichuan Agricultural University, Ya'an, 625014, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Li</LastName><ForeName>Shuangcheng</ForeName><Initials>S</Initials><AffiliationInfo><Affiliation>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Key Laboratory of Southwest Crop Gene Resource and Genetic Improvement of Ministry of Education, Sichuan Agricultural University, Ya'an, 625014, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Li</LastName><ForeName>Ping</ForeName><Initials>P</Initials><AffiliationInfo><Affiliation>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Key Laboratory of Southwest Crop Gene Resource and Genetic Improvement of Ministry of Education, Sichuan Agricultural University, Ya'an, 625014, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Zheng</LastName><ForeName>Aiping</ForeName><Initials>A</Initials><AffiliationInfo><Affiliation>Rice Research Institute, Sichuan Agricultural University, Chengdu, 611130, China. apzh0602@gmail.com.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Key Laboratory of Sichuan Crop Major Diseases, Sichuan Agricultural University, Chengdu, 611130, China. apzh0602@gmail.com.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2019</Year><Month>12</Month><Day>23</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>Sci Rep</MedlineTA><NlmUniqueID>101563288</NlmUniqueID><ISSNLinking>2045-2322</ISSNLinking></MedlineJournalInfo><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D030541" MajorTopicYN="Y">Databases, Genetic</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D019143" MajorTopicYN="Y">Evolution, Molecular</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D020869" MajorTopicYN="Y">Gene Expression Profiling</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D015966" MajorTopicYN="N">Gene Expression Regulation, Fungal</DescriptorName><QualifierName UI="Q000502" MajorTopicYN="Y">physiology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D012232" MajorTopicYN="N">Rhizoctonia</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName><QualifierName UI="Q000378" MajorTopicYN="Y">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D059467" 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sort="Li, Shuangcheng" uniqKey="Li S" first="Shuangcheng" last="Li">Shuangcheng Li</name><name sortKey="Liang, Yueyang" sort="Liang, Yueyang" uniqKey="Liang Y" first="Yueyang" last="Liang">Yueyang Liang</name><name sortKey="Liang, Yueyang" sort="Liang, Yueyang" uniqKey="Liang Y" first="Yueyang" last="Liang">Yueyang Liang</name><name sortKey="Lin, Runmao" sort="Lin, Runmao" uniqKey="Lin R" first="Runmao" last="Lin">Runmao Lin</name><name sortKey="Lin, Runmao" sort="Lin, Runmao" uniqKey="Lin R" first="Runmao" last="Lin">Runmao Lin</name><name sortKey="Lin, Runmao" sort="Lin, Runmao" uniqKey="Lin R" first="Runmao" last="Lin">Runmao Lin</name><name sortKey="Liu, Huainian" sort="Liu, Huainian" uniqKey="Liu H" first="Huainian" last="Liu">Huainian Liu</name><name sortKey="Liu, Huainian" sort="Liu, Huainian" uniqKey="Liu H" first="Huainian" last="Liu">Huainian Liu</name><name sortKey="Liu, Yao" sort="Liu, Yao" uniqKey="Liu Y" first="Yao" last="Liu">Yao Liu</name><name sortKey="Liu, Yao" sort="Liu, Yao" uniqKey="Liu Y" first="Yao" last="Liu">Yao Liu</name><name sortKey="Wang, Lingxia" sort="Wang, Lingxia" uniqKey="Wang L" first="Lingxia" last="Wang">Lingxia Wang</name><name sortKey="Wang, Lingxia" sort="Wang, Lingxia" uniqKey="Wang L" first="Lingxia" last="Wang">Lingxia Wang</name><name sortKey="Wang, Shiquan" sort="Wang, Shiquan" uniqKey="Wang S" first="Shiquan" last="Wang">Shiquan Wang</name><name sortKey="Wang, Shiquan" sort="Wang, Shiquan" uniqKey="Wang S" first="Shiquan" last="Wang">Shiquan Wang</name><name sortKey="Wang, Yanran" sort="Wang, Yanran" uniqKey="Wang Y" first="Yanran" last="Wang">Yanran Wang</name><name sortKey="Wang, Yanran" sort="Wang, Yanran" uniqKey="Wang Y" first="Yanran" last="Wang">Yanran Wang</name><name sortKey="Yamamoto, Naoki" sort="Yamamoto, Naoki" uniqKey="Yamamoto N" first="Naoki" last="Yamamoto">Naoki Yamamoto</name><name sortKey="Zheng, Aiping" sort="Zheng, Aiping" uniqKey="Zheng A" first="Aiping" last="Zheng">Aiping Zheng</name><name sortKey="Zheng, Aiping" sort="Zheng, Aiping" uniqKey="Zheng A" first="Aiping" last="Zheng">Aiping Zheng</name><name sortKey="Zhu, Jun" sort="Zhu, Jun" uniqKey="Zhu J" first="Jun" last="Zhu">Jun Zhu</name><name sortKey="Zhu, Jun" sort="Zhu, Jun" uniqKey="Zhu J" first="Jun" last="Zhu">Jun Zhu</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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