Comprehensive Transcriptome Analyses Reveal Differential Gene Expression Profiles of Camellia sinensis Axillary Buds at Para-, Endo-, Ecodormancy, and Bud Flush Stages.
Identifieur interne : 001462 ( Main/Exploration ); précédent : 001461; suivant : 001463Comprehensive Transcriptome Analyses Reveal Differential Gene Expression Profiles of Camellia sinensis Axillary Buds at Para-, Endo-, Ecodormancy, and Bud Flush Stages.
Auteurs : Xinyuan Hao [République populaire de Chine] ; Yajun Yang [République populaire de Chine] ; Chuan Yue [République populaire de Chine] ; Lu Wang [République populaire de Chine] ; David P. Horvath [États-Unis] ; Xinchao Wang [République populaire de Chine]Source :
- Frontiers in plant science [ 1664-462X ] ; 2017.
Abstract
Winter dormancy is an important biological feature for tea plant to survive cold winters, and it also affects the economic output of tea plant, one of the few woody plants in the world whose leaves are harvested and one of the few non-conifer evergreen species with characterized dormancies. To discover the bud dormancy regulation mechanism of tea plant in winter, we analyzed the global gene expression profiles of axillary buds at the paradormancy, endodormancy, ecodormancy, and bud flush stages by RNA-Seq analysis. In total, 16,125 differentially expressed genes (DEGs) were identified among the different measured conditions. Gene set enrichment analysis was performed on the DEGs identified from each dormancy transition. Enriched gene ontology terms, gene sets and transcription factors were mainly associated with epigenetic mechanisms, phytohormone signaling pathways, and callose-related cellular communication regulation. Furthermore, differentially expressed transcription factors as well as chromatin- and phytohormone-associated genes were identified. GI-, CAL-, SVP-, PHYB-, SFR6-, LHY-, ZTL-, PIF4/6-, ABI4-, EIN3-, ETR1-, CCA1-, PIN3-, CDK-, and CO-related gene sets were enriched. Based on sequence homology analysis, we summarized the key genes with significant expression differences in poplar and tea plant. The major molecular pathways involved in tea plant dormancy regulation are consistent with those of poplar to a certain extent; however, the gene expression patterns varied. This study provides the global transcriptome profiles of overwintering buds at different dormancy stages and is meaningful for improving the understanding of bud dormancy in tea plant.
DOI: 10.3389/fpls.2017.00553
PubMed: 28458678
PubMed Central: PMC5394108
Affiliations:
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wicri:level="1"><nlm:affiliation>National Center for Tea Improvement, Key Laboratory of Tea Biology and Resources Utilization, Ministry of AgricultureHangzhou, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>National Center for Tea Improvement, Key Laboratory of Tea Biology and Resources Utilization, Ministry of AgricultureHangzhou</wicri:regionArea><wicri:noRegion>Ministry of AgricultureHangzhou</wicri:noRegion></affiliation></author><author><name sortKey="Yang, Yajun" sort="Yang, Yajun" uniqKey="Yang Y" first="Yajun" last="Yang">Yajun Yang</name><affiliation wicri:level="1"><nlm:affiliation>Tea Research Institute, Chinese Academy of Agricultural SciencesHangzhou, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Tea Research Institute, Chinese Academy of Agricultural SciencesHangzhou</wicri:regionArea><wicri:noRegion>Chinese Academy of Agricultural SciencesHangzhou</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>National Center for Tea Improvement, Key Laboratory of Tea Biology and Resources Utilization, Ministry of AgricultureHangzhou, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>National Center for Tea Improvement, Key Laboratory of Tea Biology and Resources Utilization, Ministry of AgricultureHangzhou</wicri:regionArea><wicri:noRegion>Ministry of AgricultureHangzhou</wicri:noRegion></affiliation></author><author><name sortKey="Yue, Chuan" sort="Yue, Chuan" uniqKey="Yue C" first="Chuan" last="Yue">Chuan Yue</name><affiliation wicri:level="1"><nlm:affiliation>Tea Research Institute, Chinese Academy of Agricultural SciencesHangzhou, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Tea Research Institute, Chinese Academy of Agricultural SciencesHangzhou</wicri:regionArea><wicri:noRegion>Chinese Academy of Agricultural SciencesHangzhou</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>National Center for Tea Improvement, Key Laboratory of Tea Biology and Resources Utilization, Ministry of AgricultureHangzhou, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>National Center for Tea Improvement, Key Laboratory of Tea Biology and Resources Utilization, Ministry of AgricultureHangzhou</wicri:regionArea><wicri:noRegion>Ministry of AgricultureHangzhou</wicri:noRegion></affiliation></author><author><name sortKey="Wang, Lu" sort="Wang, Lu" uniqKey="Wang L" first="Lu" last="Wang">Lu Wang</name><affiliation wicri:level="1"><nlm:affiliation>Tea Research Institute, Chinese Academy of Agricultural SciencesHangzhou, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Tea Research Institute, Chinese Academy of Agricultural SciencesHangzhou</wicri:regionArea><wicri:noRegion>Chinese Academy of Agricultural SciencesHangzhou</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>National Center for Tea Improvement, Key Laboratory of Tea Biology and Resources Utilization, Ministry of AgricultureHangzhou, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>National Center for Tea Improvement, Key Laboratory of Tea Biology and Resources Utilization, Ministry of AgricultureHangzhou</wicri:regionArea><wicri:noRegion>Ministry of AgricultureHangzhou</wicri:noRegion></affiliation></author><author><name sortKey="Horvath, David P" sort="Horvath, David P" uniqKey="Horvath D" first="David P" last="Horvath">David P. Horvath</name><affiliation wicri:level="1"><nlm:affiliation>Biosciences Research Laboratory, Sunflower and Plant Biology Research Unit, United States Department of Agriculture-Agricultural Research Service, FargoND, USA.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Biosciences Research Laboratory, Sunflower and Plant Biology Research Unit, United States Department of Agriculture-Agricultural Research Service, FargoND</wicri:regionArea><wicri:noRegion>FargoND</wicri:noRegion></affiliation></author><author><name sortKey="Wang, Xinchao" sort="Wang, Xinchao" uniqKey="Wang X" first="Xinchao" last="Wang">Xinchao Wang</name><affiliation wicri:level="1"><nlm:affiliation>Tea Research Institute, Chinese Academy of Agricultural SciencesHangzhou, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Tea Research Institute, Chinese Academy of Agricultural SciencesHangzhou</wicri:regionArea><wicri:noRegion>Chinese Academy of Agricultural SciencesHangzhou</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>National Center for Tea Improvement, Key Laboratory of Tea Biology and Resources Utilization, Ministry of AgricultureHangzhou, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>National Center for Tea Improvement, Key Laboratory of Tea Biology and Resources Utilization, Ministry of AgricultureHangzhou</wicri:regionArea><wicri:noRegion>Ministry of AgricultureHangzhou</wicri:noRegion></affiliation></author></analytic><series><title level="j">Frontiers in plant science</title><idno type="ISSN">1664-462X</idno><imprint><date when="2017" type="published">2017</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Winter dormancy is an important biological feature for tea plant to survive cold winters, and it also affects the economic output of tea plant, one of the few woody plants in the world whose leaves are harvested and one of the few non-conifer evergreen species with characterized dormancies. To discover the bud dormancy regulation mechanism of tea plant in winter, we analyzed the global gene expression profiles of axillary buds at the paradormancy, endodormancy, ecodormancy, and bud flush stages by RNA-Seq analysis. In total, 16,125 differentially expressed genes (DEGs) were identified among the different measured conditions. Gene set enrichment analysis was performed on the DEGs identified from each dormancy transition. Enriched gene ontology terms, gene sets and transcription factors were mainly associated with epigenetic mechanisms, phytohormone signaling pathways, and callose-related cellular communication regulation. Furthermore, differentially expressed transcription factors as well as chromatin- and phytohormone-associated genes were identified. GI-, CAL-, SVP-, PHYB-, SFR6-, LHY-, ZTL-, PIF4/6-, ABI4-, EIN3-, ETR1-, CCA1-, PIN3-, CDK-, and CO-related gene sets were enriched. Based on sequence homology analysis, we summarized the key genes with significant expression differences in poplar and tea plant. The major molecular pathways involved in tea plant dormancy regulation are consistent with those of poplar to a certain extent; however, the gene expression patterns varied. This study provides the global transcriptome profiles of overwintering buds at different dormancy stages and is meaningful for improving the understanding of bud dormancy in tea plant.</div></front></TEI><pubmed><MedlineCitation Status="PubMed-not-MEDLINE" Owner="NLM"><PMID Version="1">28458678</PMID><DateRevised><Year>2020</Year><Month>10</Month><Day>01</Day></DateRevised><Article PubModel="Electronic-eCollection"><Journal><ISSN IssnType="Print">1664-462X</ISSN><JournalIssue CitedMedium="Print"><Volume>8</Volume><PubDate><Year>2017</Year></PubDate></JournalIssue><Title>Frontiers in plant science</Title><ISOAbbreviation>Front Plant Sci</ISOAbbreviation></Journal><ArticleTitle>Comprehensive Transcriptome Analyses Reveal Differential Gene Expression Profiles of <i>Camellia sinensis</i> Axillary Buds at Para-, Endo-, Ecodormancy, and Bud Flush Stages.</ArticleTitle><Pagination><MedlinePgn>553</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.3389/fpls.2017.00553</ELocationID><Abstract><AbstractText>Winter dormancy is an important biological feature for tea plant to survive cold winters, and it also affects the economic output of tea plant, one of the few woody plants in the world whose leaves are harvested and one of the few non-conifer evergreen species with characterized dormancies. To discover the bud dormancy regulation mechanism of tea plant in winter, we analyzed the global gene expression profiles of axillary buds at the paradormancy, endodormancy, ecodormancy, and bud flush stages by RNA-Seq analysis. In total, 16,125 differentially expressed genes (DEGs) were identified among the different measured conditions. Gene set enrichment analysis was performed on the DEGs identified from each dormancy transition. Enriched gene ontology terms, gene sets and transcription factors were mainly associated with epigenetic mechanisms, phytohormone signaling pathways, and callose-related cellular communication regulation. Furthermore, differentially expressed transcription factors as well as chromatin- and phytohormone-associated genes were identified. GI-, CAL-, SVP-, PHYB-, SFR6-, LHY-, ZTL-, PIF4/6-, ABI4-, EIN3-, ETR1-, CCA1-, PIN3-, CDK-, and CO-related gene sets were enriched. Based on sequence homology analysis, we summarized the key genes with significant expression differences in poplar and tea plant. The major molecular pathways involved in tea plant dormancy regulation are consistent with those of poplar to a certain extent; however, the gene expression patterns varied. This study provides the global transcriptome profiles of overwintering buds at different dormancy stages and is meaningful for improving the understanding of bud dormancy in tea plant.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Hao</LastName><ForeName>Xinyuan</ForeName><Initials>X</Initials><AffiliationInfo><Affiliation>Tea Research Institute, Chinese Academy of Agricultural SciencesHangzhou, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>National Center for Tea Improvement, Key Laboratory of Tea Biology and Resources Utilization, Ministry of AgricultureHangzhou, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Yang</LastName><ForeName>Yajun</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>Tea Research Institute, Chinese Academy of Agricultural SciencesHangzhou, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>National Center for Tea Improvement, Key Laboratory of Tea Biology and Resources Utilization, Ministry of AgricultureHangzhou, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Yue</LastName><ForeName>Chuan</ForeName><Initials>C</Initials><AffiliationInfo><Affiliation>Tea Research Institute, Chinese Academy of Agricultural SciencesHangzhou, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>National Center for Tea Improvement, Key Laboratory of Tea Biology and Resources Utilization, Ministry of AgricultureHangzhou, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Wang</LastName><ForeName>Lu</ForeName><Initials>L</Initials><AffiliationInfo><Affiliation>Tea Research Institute, Chinese Academy of Agricultural SciencesHangzhou, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>National Center for Tea Improvement, Key Laboratory of Tea Biology and Resources Utilization, Ministry of AgricultureHangzhou, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Horvath</LastName><ForeName>David P</ForeName><Initials>DP</Initials><AffiliationInfo><Affiliation>Biosciences Research Laboratory, Sunflower and Plant Biology Research Unit, United States Department of Agriculture-Agricultural Research Service, FargoND, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Wang</LastName><ForeName>Xinchao</ForeName><Initials>X</Initials><AffiliationInfo><Affiliation>Tea Research Institute, Chinese Academy of Agricultural SciencesHangzhou, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>National Center for Tea Improvement, Key Laboratory of Tea Biology and Resources Utilization, Ministry of AgricultureHangzhou, China.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2017</Year><Month>04</Month><Day>18</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">bud dormancy</Keyword><Keyword MajorTopicYN="N">epigenetic mechanism</Keyword><Keyword MajorTopicYN="N">phytohormone</Keyword><Keyword MajorTopicYN="N">tea plant</Keyword><Keyword MajorTopicYN="N">transcriptome analysis</Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2017</Year><Month>01</Month><Day>20</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2017</Year><Month>03</Month><Day>27</Day></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2017</Year><Month>5</Month><Day>2</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate 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