MicroRNA comparison between poplar and larch provides insight into the different mechanism of wood formation.
Identifieur interne : 000270 ( Main/Exploration ); précédent : 000269; suivant : 000271MicroRNA comparison between poplar and larch provides insight into the different mechanism of wood formation.
Auteurs : Hui Li [République populaire de Chine] ; Xiong Huang [République populaire de Chine] ; Wanfeng Li [République populaire de Chine] ; Yan Lu [République populaire de Chine] ; Xinren Dai [République populaire de Chine] ; Zaizhi Zhou [République populaire de Chine] ; Quanzi Li [République populaire de Chine]Source :
- Plant cell reports [ 1432-203X ] ; 2020.
Abstract
KEY MESSAGE
MiRNA transcriptome analysis of different tissues in poplar and larch suggests variant roles of miRNAs in regulating wood formation between two kinds of phyla. Poplar and larch belong to two different phyla. Both are ecological woody species and major resources for wood-related industrial applications. However, wood properties are different between these two species and the molecular basis is largely unknown. In this study, we performed high-throughput sequencing of microRNAs (miRNAs) in the three tissues, xylem, phloem and leaf of Populus alba × Populus glandulosa and Larix kaempferi. Differentially expressed miRNA (DEmiRNA) analysis identified 85 xylem-specific miRNAs in P. alba × P. glandulosa and 158 xylem-specific miRNAs in L. kaempferi. Among 36 common miRNAs, 12 were conserved between the two species. GO and KEGG analyses of the miRNA target genes showed similar metabolism in two species. Through KEGG and BLASTN, we predicted target genes of xylem differentially expressed (DEmiRNA) in the wood formation-related pathways and located DEmiRNAs in these pathways. A network was built for wood formation-related DEmiRNAs, their target genes and orthologous genes in Arabidopsis thaliana. Comparison of DEmiRNA and target gene annotation between P. alba × P. glandulosa and L. kaempferi suggested the different functions of DEmiRNAs and divergent mechanism in wood formation between two species, providing knowledge to understand wood formation mechanism in gymnosperm and angiosperm woody plants.
DOI: 10.1007/s00299-020-02559-3
PubMed: 32577818
Affiliations:
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Chine</country><wicri:regionArea>State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry, Beijing, 100091</wicri:regionArea><wicri:noRegion>100091</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>Research Institute of Forestry, Chinese Academy of Forestry, Beijing, 100091, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Research Institute of Forestry, Chinese Academy of Forestry, Beijing, 100091</wicri:regionArea><wicri:noRegion>100091</wicri:noRegion></affiliation></author></analytic><series><title level="j">Plant cell reports</title><idno type="eISSN">1432-203X</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"><p><b>KEY MESSAGE</b></p><p>MiRNA transcriptome analysis of different tissues in poplar and larch suggests variant roles of miRNAs in regulating wood formation between two kinds of phyla. Poplar and larch belong to two different phyla. Both are ecological woody species and major resources for wood-related industrial applications. However, wood properties are different between these two species and the molecular basis is largely unknown. In this study, we performed high-throughput sequencing of microRNAs (miRNAs) in the three tissues, xylem, phloem and leaf of Populus alba × Populus glandulosa and Larix kaempferi. Differentially expressed miRNA (DEmiRNA) analysis identified 85 xylem-specific miRNAs in P. alba × P. glandulosa and 158 xylem-specific miRNAs in L. kaempferi. Among 36 common miRNAs, 12 were conserved between the two species. GO and KEGG analyses of the miRNA target genes showed similar metabolism in two species. Through KEGG and BLASTN, we predicted target genes of xylem differentially expressed (DEmiRNA) in the wood formation-related pathways and located DEmiRNAs in these pathways. A network was built for wood formation-related DEmiRNAs, their target genes and orthologous genes in Arabidopsis thaliana. Comparison of DEmiRNA and target gene annotation between P. alba × P. glandulosa and L. kaempferi suggested the different functions of DEmiRNAs and divergent mechanism in wood formation between two species, providing knowledge to understand wood formation mechanism in gymnosperm and angiosperm woody plants.</p></div></front></TEI><pubmed><MedlineCitation Status="In-Process" Owner="NLM"><PMID Version="1">32577818</PMID><DateRevised><Year>2020</Year><Month>09</Month><Day>30</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1432-203X</ISSN><JournalIssue CitedMedium="Internet"><Volume>39</Volume><Issue>9</Issue><PubDate><Year>2020</Year><Month>Sep</Month></PubDate></JournalIssue><Title>Plant cell reports</Title><ISOAbbreviation>Plant Cell Rep</ISOAbbreviation></Journal><ArticleTitle>MicroRNA comparison between poplar and larch provides insight into the different mechanism of wood formation.</ArticleTitle><Pagination><MedlinePgn>1199-1217</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1007/s00299-020-02559-3</ELocationID><Abstract><AbstractText Label="KEY MESSAGE" NlmCategory="UNASSIGNED">MiRNA transcriptome analysis of different tissues in poplar and larch suggests variant roles of miRNAs in regulating wood formation between two kinds of phyla. Poplar and larch belong to two different phyla. Both are ecological woody species and major resources for wood-related industrial applications. However, wood properties are different between these two species and the molecular basis is largely unknown. In this study, we performed high-throughput sequencing of microRNAs (miRNAs) in the three tissues, xylem, phloem and leaf of Populus alba × Populus glandulosa and Larix kaempferi. Differentially expressed miRNA (DEmiRNA) analysis identified 85 xylem-specific miRNAs in P. alba × P. glandulosa and 158 xylem-specific miRNAs in L. kaempferi. Among 36 common miRNAs, 12 were conserved between the two species. GO and KEGG analyses of the miRNA target genes showed similar metabolism in two species. Through KEGG and BLASTN, we predicted target genes of xylem differentially expressed (DEmiRNA) in the wood formation-related pathways and located DEmiRNAs in these pathways. A network was built for wood formation-related DEmiRNAs, their target genes and orthologous genes in Arabidopsis thaliana. Comparison of DEmiRNA and target gene annotation between P. alba × P. glandulosa and L. kaempferi suggested the different functions of DEmiRNAs and divergent mechanism in wood formation between two species, providing knowledge to understand wood formation mechanism in gymnosperm and angiosperm woody plants.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Li</LastName><ForeName>Hui</ForeName><Initials>H</Initials><Identifier Source="ORCID">http://orcid.org/0000-0002-0406-9203</Identifier><AffiliationInfo><Affiliation>Research Institute of Tropical Forestry, Chinese Academy of Forestry, Guangzhou, 510520, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry, Beijing, 100091, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Huang</LastName><ForeName>Xiong</ForeName><Initials>X</Initials><AffiliationInfo><Affiliation>State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry, Beijing, 100091, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Research Institute of Forestry, Chinese Academy of Forestry, Beijing, 100091, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Li</LastName><ForeName>Wanfeng</ForeName><Initials>W</Initials><AffiliationInfo><Affiliation>Research Institute of Forestry, Chinese Academy of Forestry, Beijing, 100091, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Lu</LastName><ForeName>Yan</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry, Beijing, 100091, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Research Institute of Forestry, Chinese Academy of Forestry, Beijing, 100091, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Dai</LastName><ForeName>Xinren</ForeName><Initials>X</Initials><AffiliationInfo><Affiliation>State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry, Beijing, 100091, China. xinrend@caf.ac.cn.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Zhou</LastName><ForeName>Zaizhi</ForeName><Initials>Z</Initials><AffiliationInfo><Affiliation>Research Institute of Tropical Forestry, Chinese Academy of Forestry, Guangzhou, 510520, China. zzzhoucn@126.com.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Li</LastName><ForeName>Quanzi</ForeName><Initials>Q</Initials><AffiliationInfo><Affiliation>State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry, Beijing, 100091, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Research Institute of Forestry, Chinese Academy of Forestry, Beijing, 100091, China.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><GrantList CompleteYN="Y"><Grant><GrantID>CAFYBB2017ZY001</GrantID><Agency>Fundamental Research Funds of the Chinese Academy of Forestry</Agency><Country></Country></Grant></GrantList><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2020</Year><Month>06</Month><Day>23</Day></ArticleDate></Article><MedlineJournalInfo><Country>Germany</Country><MedlineTA>Plant Cell Rep</MedlineTA><NlmUniqueID>9880970</NlmUniqueID><ISSNLinking>0721-7714</ISSNLinking></MedlineJournalInfo><CitationSubset>IM</CitationSubset><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">Angiosperm</Keyword><Keyword MajorTopicYN="N">Conservation analysis</Keyword><Keyword MajorTopicYN="N">GO analysis</Keyword><Keyword MajorTopicYN="N">Gymnosperm</Keyword><Keyword MajorTopicYN="N">KEGG analysis</Keyword><Keyword MajorTopicYN="N">microRNAs</Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2019</Year><Month>10</Month><Day>10</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2020</Year><Month>06</Month><Day>12</Day></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2020</Year><Month>6</Month><Day>25</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2020</Year><Month>6</Month><Day>25</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2020</Year><Month>6</Month><Day>25</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">32577818</ArticleId><ArticleId IdType="doi">10.1007/s00299-020-02559-3</ArticleId><ArticleId IdType="pii">10.1007/s00299-020-02559-3</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list><country><li>République populaire de Chine</li></country></list><tree><country name="République populaire de Chine"><noRegion><name sortKey="Li, Hui" sort="Li, Hui" uniqKey="Li H" first="Hui" last="Li">Hui Li</name></noRegion><name sortKey="Dai, Xinren" sort="Dai, Xinren" uniqKey="Dai X" first="Xinren" last="Dai">Xinren Dai</name><name sortKey="Huang, Xiong" sort="Huang, Xiong" uniqKey="Huang X" first="Xiong" last="Huang">Xiong Huang</name><name sortKey="Huang, Xiong" sort="Huang, Xiong" uniqKey="Huang X" first="Xiong" last="Huang">Xiong Huang</name><name sortKey="Li, Hui" sort="Li, Hui" uniqKey="Li H" first="Hui" last="Li">Hui Li</name><name sortKey="Li, Quanzi" sort="Li, Quanzi" uniqKey="Li Q" first="Quanzi" last="Li">Quanzi Li</name><name sortKey="Li, Quanzi" sort="Li, Quanzi" uniqKey="Li Q" first="Quanzi" last="Li">Quanzi Li</name><name sortKey="Li, Wanfeng" sort="Li, Wanfeng" uniqKey="Li W" first="Wanfeng" last="Li">Wanfeng Li</name><name sortKey="Lu, Yan" sort="Lu, Yan" uniqKey="Lu Y" first="Yan" last="Lu">Yan Lu</name><name sortKey="Lu, Yan" sort="Lu, Yan" uniqKey="Lu Y" first="Yan" last="Lu">Yan Lu</name><name sortKey="Zhou, Zaizhi" sort="Zhou, Zaizhi" uniqKey="Zhou Z" first="Zaizhi" last="Zhou">Zaizhi Zhou</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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