[Identification and Characterization of circRNAs in the Developing Stem Cambium of Poplar Seedlings].
Identifieur interne : 000002 ( Main/Exploration ); précédent : 000001; suivant : 000003[Identification and Characterization of circRNAs in the Developing Stem Cambium of Poplar Seedlings].
Auteurs : W Q Zheng [République populaire de Chine] ; Y. Zhang [République populaire de Chine] ; B. Chen [République populaire de Chine] ; M. Wei [République populaire de Chine] ; X W Wang [République populaire de Chine] ; L. Du [République populaire de Chine]Source :
- Molekuliarnaia biologiia [ 0026-8984 ]
Abstract
Non-coding RNAs are a class of RNAs with multiple roles in plant life. Covalently closed circular RNA molecules (circRNAs) have been recently shown to be a group of RNA isoforms that show widespread tissue-specific expression in plants, often cooperating with the corresponding linear mRNAs to regulate gene function. However, no previous study of poplar has identified circRNAs in the cambium and determined their potential roles in the cambium or xylem development. In the present study, we sequenced RNAs in the cambium of poplar seedlings at two developmental stages, and identified and characterized 4912 circRNAs. Alternative back-splicing circularization events for 87 genes were identified among the circRNAs derived from different chromosomes. A total of 1138 circRNAs originated from 928 host genes, which were classified among the three major functional categories by GO analysis. Thirty-nine circRNAs were differentially expressed between cambium samples of stems at two developmental stages. Twenty-four DEcircRNAs interacted with 98 miRNAs as targets, of which some were associated with cambium growth and development. The results suggest that circRNAs play important roles in the cambium in relation to the regulation of stem growth and development in poplar seedlings.
DOI: 10.31857/S0026898420050134
PubMed: 33009790
Affiliations:
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Zhang</name><affiliation wicri:level="3"><nlm:affiliation>Beijing Advanced Innovation Center of Tree Breeding by Molecular Design, Beijing Forestry University, Beijing, 100083 China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Beijing Advanced Innovation Center of Tree Breeding by Molecular Design, Beijing Forestry University, Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation><affiliation wicri:level="3"><nlm:affiliation>College of Biological Sciences and Technology, Beijing Forestry University, Beijing, 100083 China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Biological Sciences and Technology, Beijing Forestry University, Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation></author><author><name sortKey="Chen, B" sort="Chen, B" uniqKey="Chen B" first="B" last="Chen">B. Chen</name><affiliation wicri:level="3"><nlm:affiliation>Beijing Advanced Innovation Center of Tree Breeding by Molecular Design, Beijing Forestry University, Beijing, 100083 China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Beijing Advanced Innovation Center of Tree Breeding by Molecular Design, Beijing Forestry University, Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation><affiliation wicri:level="3"><nlm:affiliation>College of Biological Sciences and Technology, Beijing Forestry University, Beijing, 100083 China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Biological Sciences and Technology, Beijing Forestry University, Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation></author><author><name sortKey="Wei, M" sort="Wei, M" uniqKey="Wei M" first="M" last="Wei">M. Wei</name><affiliation wicri:level="3"><nlm:affiliation>COFCO Nutrition and Health Research Institute, Beijing, 102209 China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>COFCO Nutrition and Health Research Institute, Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation></author><author><name sortKey="Wang, X W" sort="Wang, X W" uniqKey="Wang X" first="X W" last="Wang">X W Wang</name><affiliation wicri:level="3"><nlm:affiliation>Beijing Advanced Innovation Center of Tree Breeding by Molecular Design, Beijing Forestry University, Beijing, 100083 China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Beijing Advanced Innovation Center of Tree Breeding by Molecular Design, Beijing Forestry University, Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation><affiliation wicri:level="3"><nlm:affiliation>College of Biological Sciences and Technology, Beijing Forestry University, Beijing, 100083 China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Biological Sciences and Technology, Beijing Forestry University, Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation></author><author><name sortKey="Du, L" sort="Du, L" uniqKey="Du L" first="L" last="Du">L. Du</name><affiliation wicri:level="3"><nlm:affiliation>Beijing Advanced Innovation Center of Tree Breeding by Molecular Design, Beijing Forestry University, Beijing, 100083 China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Beijing Advanced Innovation Center of Tree Breeding by Molecular Design, Beijing Forestry University, Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation><affiliation wicri:level="3"><nlm:affiliation>College of Biological Sciences and Technology, Beijing Forestry University, Beijing, 100083 China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Biological Sciences and Technology, Beijing Forestry University, Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation><affiliation wicri:level="1"><nlm:affiliation>duliang@bjfu.edu.cn.</nlm:affiliation><country wicri:rule="url">République populaire de Chine</country></affiliation></author></analytic><series><title level="j">Molekuliarnaia biologiia</title><idno type="ISSN">0026-8984</idno></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Non-coding RNAs are a class of RNAs with multiple roles in plant life. Covalently closed circular RNA molecules (circRNAs) have been recently shown to be a group of RNA isoforms that show widespread tissue-specific expression in plants, often cooperating with the corresponding linear mRNAs to regulate gene function. However, no previous study of poplar has identified circRNAs in the cambium and determined their potential roles in the cambium or xylem development. In the present study, we sequenced RNAs in the cambium of poplar seedlings at two developmental stages, and identified and characterized 4912 circRNAs. Alternative back-splicing circularization events for 87 genes were identified among the circRNAs derived from different chromosomes. A total of 1138 circRNAs originated from 928 host genes, which were classified among the three major functional categories by GO analysis. Thirty-nine circRNAs were differentially expressed between cambium samples of stems at two developmental stages. Twenty-four DEcircRNAs interacted with 98 miRNAs as targets, of which some were associated with cambium growth and development. The results suggest that circRNAs play important roles in the cambium in relation to the regulation of stem growth and development in poplar seedlings.</div></front></TEI><pubmed><MedlineCitation Status="In-Process" Owner="NLM"><PMID Version="1">33009790</PMID><DateRevised><Year>2020</Year><Month>10</Month><Day>05</Day></DateRevised><Article PubModel="Print"><Journal><ISSN IssnType="Print">0026-8984</ISSN><JournalIssue CitedMedium="Print"><Volume>54</Volume><Issue>5</Issue><PubDate><MedlineDate>2020 Sep-Oct</MedlineDate></PubDate></JournalIssue><Title>Molekuliarnaia biologiia</Title><ISOAbbreviation>Mol Biol (Mosk)</ISOAbbreviation></Journal><ArticleTitle>[Identification and Characterization of circRNAs in the Developing Stem Cambium of Poplar Seedlings].</ArticleTitle><Pagination><MedlinePgn>802-812</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.31857/S0026898420050134</ELocationID><Abstract><AbstractText>Non-coding RNAs are a class of RNAs with multiple roles in plant life. Covalently closed circular RNA molecules (circRNAs) have been recently shown to be a group of RNA isoforms that show widespread tissue-specific expression in plants, often cooperating with the corresponding linear mRNAs to regulate gene function. However, no previous study of poplar has identified circRNAs in the cambium and determined their potential roles in the cambium or xylem development. In the present study, we sequenced RNAs in the cambium of poplar seedlings at two developmental stages, and identified and characterized 4912 circRNAs. Alternative back-splicing circularization events for 87 genes were identified among the circRNAs derived from different chromosomes. A total of 1138 circRNAs originated from 928 host genes, which were classified among the three major functional categories by GO analysis. Thirty-nine circRNAs were differentially expressed between cambium samples of stems at two developmental stages. Twenty-four DEcircRNAs interacted with 98 miRNAs as targets, of which some were associated with cambium growth and development. The results suggest that circRNAs play important roles in the cambium in relation to the regulation of stem growth and development in poplar seedlings.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Zheng</LastName><ForeName>W Q</ForeName><Initials>WQ</Initials><AffiliationInfo><Affiliation>Beijing Advanced Innovation Center of Tree Breeding by Molecular Design, Beijing Forestry University, Beijing, 100083 China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>College of Biological Sciences and Technology, Beijing Forestry University, Beijing, 100083 China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Zhang</LastName><ForeName>Y</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>Beijing Advanced Innovation Center of Tree Breeding by Molecular Design, Beijing Forestry University, Beijing, 100083 China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>College of Biological Sciences and Technology, Beijing Forestry University, Beijing, 100083 China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Chen</LastName><ForeName>B</ForeName><Initials>B</Initials><AffiliationInfo><Affiliation>Beijing Advanced Innovation Center of Tree Breeding by Molecular Design, Beijing Forestry University, Beijing, 100083 China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>College of Biological Sciences and Technology, Beijing Forestry University, Beijing, 100083 China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Wei</LastName><ForeName>M</ForeName><Initials>M</Initials><AffiliationInfo><Affiliation>COFCO Nutrition and Health Research Institute, Beijing, 102209 China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Wang</LastName><ForeName>X W</ForeName><Initials>XW</Initials><AffiliationInfo><Affiliation>Beijing Advanced Innovation Center of Tree Breeding by Molecular Design, Beijing Forestry University, Beijing, 100083 China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>College of Biological Sciences and Technology, Beijing Forestry University, Beijing, 100083 China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Du</LastName><ForeName>L</ForeName><Initials>L</Initials><AffiliationInfo><Affiliation>Beijing Advanced Innovation Center of Tree Breeding by Molecular Design, Beijing Forestry University, Beijing, 100083 China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>College of Biological Sciences and Technology, Beijing Forestry University, Beijing, 100083 China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>duliang@bjfu.edu.cn.</Affiliation></AffiliationInfo></Author></AuthorList><Language>rus</Language><PublicationTypeList><PublicationType UI="D004740">English Abstract</PublicationType><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList></Article><MedlineJournalInfo><Country>Russia (Federation)</Country><MedlineTA>Mol Biol (Mosk)</MedlineTA><NlmUniqueID>0105454</NlmUniqueID><ISSNLinking>0026-8984</ISSNLinking></MedlineJournalInfo><CitationSubset>IM</CitationSubset><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">GO analysis</Keyword><Keyword MajorTopicYN="N">cambium</Keyword><Keyword MajorTopicYN="N">circRNA</Keyword><Keyword MajorTopicYN="N">differential expression</Keyword><Keyword MajorTopicYN="N">miRNA</Keyword><Keyword MajorTopicYN="N">poplar</Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2020</Year><Month>01</Month><Day>02</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2020</Year><Month>03</Month><Day>05</Day></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2020</Year><Month>10</Month><Day>3</Day><Hour>8</Hour><Minute>33</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2020</Year><Month>10</Month><Day>4</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2020</Year><Month>10</Month><Day>4</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">33009790</ArticleId><ArticleId IdType="doi">10.31857/S0026898420050134</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list><country><li>République populaire de Chine</li></country><settlement><li>Pékin</li></settlement></list><tree><country name="République populaire de Chine"><noRegion><name sortKey="Zheng, W Q" sort="Zheng, W Q" uniqKey="Zheng W" first="W Q" last="Zheng">W Q Zheng</name></noRegion><name sortKey="Chen, B" sort="Chen, B" uniqKey="Chen B" first="B" last="Chen">B. Chen</name><name sortKey="Chen, B" sort="Chen, B" uniqKey="Chen B" first="B" last="Chen">B. Chen</name><name sortKey="Du, L" sort="Du, L" uniqKey="Du L" first="L" last="Du">L. Du</name><name sortKey="Du, L" sort="Du, L" uniqKey="Du L" first="L" last="Du">L. Du</name><name sortKey="Du, L" sort="Du, L" uniqKey="Du L" first="L" last="Du">L. Du</name><name sortKey="Wang, X W" sort="Wang, X W" uniqKey="Wang X" first="X W" last="Wang">X W Wang</name><name sortKey="Wang, X W" sort="Wang, X W" uniqKey="Wang X" first="X W" last="Wang">X W Wang</name><name sortKey="Wei, M" sort="Wei, M" uniqKey="Wei M" first="M" last="Wei">M. Wei</name><name sortKey="Zhang, Y" sort="Zhang, Y" uniqKey="Zhang Y" first="Y" last="Zhang">Y. Zhang</name><name sortKey="Zhang, Y" sort="Zhang, Y" uniqKey="Zhang Y" first="Y" last="Zhang">Y. 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