Identification of phasiRNAs and their drought- responsiveness in Populus trichocarpa.
Identifieur interne : 001821 ( Main/Exploration ); précédent : 001820; suivant : 001822Identification of phasiRNAs and their drought- responsiveness in Populus trichocarpa.
Auteurs : Peng Shuai [République populaire de Chine] ; Yanyan Su [République populaire de Chine] ; Dan Liang [République populaire de Chine] ; Zhoujia Zhang [République populaire de Chine] ; Xinli Xia [République populaire de Chine] ; Weilun Yin [République populaire de Chine]Source :
- FEBS letters [ 1873-3468 ] ; 2016.
Descripteurs français
- KwdFr :
- MESH :
English descriptors
- KwdEn :
- MESH :
- chemical , genetics : RNA, Plant, RNA, Small Interfering.
- genetics : Populus.
- Droughts, Gene Expression Regulation, Plant.
Abstract
Phased, secondary, small interfering RNA (phasiRNA) perform essential biological functions in plants. However, limited information is available on the role of phasiRNA genes in Populus (poplar), especially during drought stress. In this study, we identified 20 PHAS loci generating 91 phasiRNA in the genome of the model forest tree Populus trichocarpa (P. trichocarpa; western balsam-poplar) using the control and drought libraries. Our analysis indicated that six PHAS (PtPHA14-20) initiated by two Populus-specific miRNAs (miR6445 and miR6427) were specific to Populus. In addition, a total of 47 phasiRNA were found to be drought responsive, and five of them were confirmed by RT-qPCR. The phase cleavage of three PHAS loci by miRNA, and degradation of nine transcript targets by phasiRNA were experimentally confirmed based on degradome data. The identification of these Populus phasiRNA will contribute to a better understanding of their function and regulation during drought stress.
DOI: 10.1002/1873-3468.12419
PubMed: 27616639
Affiliations:
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Shuai</name><affiliation wicri:level="1"><nlm:affiliation>College of Biological Sciences and Technology, National Engineering Laboratory of Tree Breeding, Beijing Forestry University, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Biological Sciences and Technology, National Engineering Laboratory of Tree Breeding, Beijing Forestry University</wicri:regionArea><wicri:noRegion>Beijing Forestry University</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>College of Forestry, Fujian Agriculture and Forestry University, Fuzhou, Fujian, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Forestry, Fujian Agriculture and Forestry University, Fuzhou, Fujian</wicri:regionArea><wicri:noRegion>Fujian</wicri:noRegion></affiliation></author><author><name sortKey="Su, Yanyan" sort="Su, Yanyan" uniqKey="Su Y" first="Yanyan" last="Su">Yanyan Su</name><affiliation wicri:level="1"><nlm:affiliation>College of Biological Sciences and Technology, National Engineering Laboratory of Tree Breeding, Beijing Forestry University, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Biological Sciences and Technology, National Engineering Laboratory of Tree Breeding, Beijing Forestry University</wicri:regionArea><wicri:noRegion>Beijing Forestry University</wicri:noRegion></affiliation></author><author><name sortKey="Liang, Dan" sort="Liang, Dan" uniqKey="Liang D" first="Dan" last="Liang">Dan Liang</name><affiliation wicri:level="1"><nlm:affiliation>College of Biological Sciences and Technology, National Engineering Laboratory of Tree Breeding, Beijing Forestry University, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Biological Sciences and Technology, National Engineering Laboratory of Tree Breeding, 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interférent</term><term>Populus</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Droughts</term><term>Gene Expression Regulation, Plant</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Régulation de l'expression des gènes végétaux</term><term>Sécheresses</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Phased, secondary, small interfering RNA (phasiRNA) perform essential biological functions in plants. However, limited information is available on the role of phasiRNA genes in Populus (poplar), especially during drought stress. In this study, we identified 20 PHAS loci generating 91 phasiRNA in the genome of the model forest tree Populus trichocarpa (P. trichocarpa; western balsam-poplar) using the control and drought libraries. Our analysis indicated that six PHAS (PtPHA14-20) initiated by two Populus-specific miRNAs (miR6445 and miR6427) were specific to Populus. In addition, a total of 47 phasiRNA were found to be drought responsive, and five of them were confirmed by RT-qPCR. The phase cleavage of three PHAS loci by miRNA, and degradation of nine transcript targets by phasiRNA were experimentally confirmed based on degradome data. The identification of these Populus phasiRNA will contribute to a better understanding of their function and regulation during drought stress.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">27616639</PMID><DateCompleted><Year>2017</Year><Month>05</Month><Day>15</Day></DateCompleted><DateRevised><Year>2017</Year><Month>05</Month><Day>15</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1873-3468</ISSN><JournalIssue CitedMedium="Internet"><Volume>590</Volume><Issue>20</Issue><PubDate><Year>2016</Year><Month>Oct</Month></PubDate></JournalIssue><Title>FEBS letters</Title><ISOAbbreviation>FEBS Lett</ISOAbbreviation></Journal><ArticleTitle>Identification of phasiRNAs and their drought- responsiveness in Populus trichocarpa.</ArticleTitle><Pagination><MedlinePgn>3616-3627</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1002/1873-3468.12419</ELocationID><Abstract><AbstractText>Phased, secondary, small interfering RNA (phasiRNA) perform essential biological functions in plants. However, limited information is available on the role of phasiRNA genes in Populus (poplar), especially during drought stress. In this study, we identified 20 PHAS loci generating 91 phasiRNA in the genome of the model forest tree Populus trichocarpa (P. trichocarpa; western balsam-poplar) using the control and drought libraries. Our analysis indicated that six PHAS (PtPHA14-20) initiated by two Populus-specific miRNAs (miR6445 and miR6427) were specific to Populus. In addition, a total of 47 phasiRNA were found to be drought responsive, and five of them were confirmed by RT-qPCR. The phase cleavage of three PHAS loci by miRNA, and degradation of nine transcript targets by phasiRNA were experimentally confirmed based on degradome data. The identification of these Populus phasiRNA will contribute to a better understanding of their function and regulation during drought stress.</AbstractText><CopyrightInformation>© 2016 Federation of European Biochemical Societies.</CopyrightInformation></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Shuai</LastName><ForeName>Peng</ForeName><Initials>P</Initials><AffiliationInfo><Affiliation>College of Biological Sciences and Technology, National Engineering Laboratory of Tree Breeding, Beijing Forestry University, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>College of Forestry, Fujian Agriculture and Forestry University, Fuzhou, Fujian, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Su</LastName><ForeName>Yanyan</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>College of Biological Sciences and Technology, National Engineering Laboratory of Tree Breeding, Beijing Forestry University, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Liang</LastName><ForeName>Dan</ForeName><Initials>D</Initials><AffiliationInfo><Affiliation>College of Biological Sciences and Technology, National Engineering Laboratory of Tree Breeding, Beijing Forestry University, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Zhang</LastName><ForeName>Zhoujia</ForeName><Initials>Z</Initials><AffiliationInfo><Affiliation>Gu Xian Middle School, Pingdu, Shandong Province, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Xia</LastName><ForeName>Xinli</ForeName><Initials>X</Initials><AffiliationInfo><Affiliation>College of Biological Sciences and Technology, National Engineering Laboratory of Tree Breeding, Beijing Forestry University, China. xiaxl@bjfu.edu.cn.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Yin</LastName><ForeName>Weilun</ForeName><Initials>W</Initials><AffiliationInfo><Affiliation>College of Biological Sciences and Technology, National Engineering Laboratory of Tree Breeding, Beijing Forestry University, China. yinwl@bjfu.edu.cn.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016422">Letter</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2016</Year><Month>10</Month><Day>04</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>FEBS Lett</MedlineTA><NlmUniqueID>0155157</NlmUniqueID><ISSNLinking>0014-5793</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D018749">RNA, Plant</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D034741">RNA, Small Interfering</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D055864" MajorTopicYN="Y">Droughts</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D018506" MajorTopicYN="N">Gene Expression Regulation, Plant</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D032107" MajorTopicYN="N">Populus</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D018749" MajorTopicYN="N">RNA, Plant</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D034741" MajorTopicYN="N">RNA, Small Interfering</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading></MeshHeadingList><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="Y">drought</Keyword><Keyword MajorTopicYN="Y">microRNA</Keyword><Keyword MajorTopicYN="Y">phased, secondary, small interfering RNA</Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2016</Year><Month>06</Month><Day>16</Day></PubMedPubDate><PubMedPubDate PubStatus="revised"><Year>2016</Year><Month>08</Month><Day>12</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2016</Year><Month>08</Month><Day>24</Day></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2016</Year><Month>10</Month><Day>25</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2017</Year><Month>5</Month><Day>16</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2016</Year><Month>9</Month><Day>13</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">27616639</ArticleId><ArticleId IdType="doi">10.1002/1873-3468.12419</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="Shuai, Peng" sort="Shuai, Peng" uniqKey="Shuai P" first="Peng" last="Shuai">Peng Shuai</name></noRegion><name sortKey="Liang, Dan" sort="Liang, Dan" uniqKey="Liang D" first="Dan" last="Liang">Dan Liang</name><name sortKey="Shuai, Peng" sort="Shuai, Peng" uniqKey="Shuai P" first="Peng" last="Shuai">Peng Shuai</name><name sortKey="Su, Yanyan" sort="Su, Yanyan" uniqKey="Su Y" first="Yanyan" last="Su">Yanyan Su</name><name sortKey="Xia, Xinli" sort="Xia, Xinli" uniqKey="Xia X" first="Xinli" last="Xia">Xinli Xia</name><name sortKey="Yin, Weilun" sort="Yin, Weilun" uniqKey="Yin W" first="Weilun" last="Yin">Weilun Yin</name><name sortKey="Zhang, Zhoujia" sort="Zhang, Zhoujia" uniqKey="Zhang Z" first="Zhoujia" last="Zhang">Zhoujia 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