Coexpression analysis of a large-scale transcriptome identified a calmodulin-like protein regulating the development of adventitious roots in poplar.
Identifieur interne : 000513 ( Main/Exploration ); précédent : 000512; suivant : 000514Coexpression analysis of a large-scale transcriptome identified a calmodulin-like protein regulating the development of adventitious roots in poplar.
Auteurs : Zheng'Ang Xiao [République populaire de Chine] ; Yan Zhang [République populaire de Chine] ; Meifeng Liu [République populaire de Chine] ; Chang Zhan [République populaire de Chine] ; Xiaoqing Yang [République populaire de Chine] ; Tashbek Nvsvrot [République populaire de Chine] ; Zhaogui Yan [République populaire de Chine] ; Nian Wang [République populaire de Chine]Source :
- Tree physiology [ 1758-4469 ] ; 2020.
Abstract
Poplars are important woody plants, and the ability to form adventitious roots (ARs) is the key factor for their cultivation because most poplars are propagated by cloning. In previous studies, Ca2+ was confirmed to regulate AR formation in poplar. In this study, wild-type poplar cuttings grown in 1.0 mM Ca2+ solution showed the best visible performance of AR development. Coexpression analysis of a large-scale RNA-Seq transcriptome was conducted to identify Ca2+-related genes that regulate AR development in poplar. A total of 15 coexpression modules (CMs) were identified, and two CMs showed high association with AR development. Functional analysis identified a number of biological pathways, including 'oxidation-reduction process', 'response to biotic stimulus' and 'metabolic process', in tissues of AR development. The Ca2+-related pathway was specifically selected, and its regulation in poplar AR development was predicted. A Ca2+ sensor, PdeCML23-1, which is a member of the calmodulin-like protein (CML) family, was found to promote AR development by phenotypic assay of overexpressed PdeCML23-1 transgenic lines at various growing conditions. By measuring cytosolic Ca2+ in AR tips, PdeCML23-1 seemed to play a role in decreasing cytosolic Ca2+ concentration. Additionally, the expression profiles of some genes and phytohormone indole acetic acid (IAA) were also changed in the overexpressed PdeCML23-1 transgenic lines. According to this study, we were able to provide a global view of gene regulation for poplar AR development. Moreover, we also observed the regulation of cytosolic Ca2+ concentration by PdeCML23-1, and this regulation was involved in AR development in poplar. We also predicted that PdeCML23-1 possibly regulates AR development by modulating IAA content in poplar.
DOI: 10.1093/treephys/tpaa078
PubMed: 32578840
Affiliations:
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Huazhong Agricultural University, Wuhan 430070, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Forestry Department, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070</wicri:regionArea><placeName><settlement type="city">Wuhan</settlement><region type="région">Hubei</region></placeName></affiliation></author><author><name sortKey="Zhang, Yan" sort="Zhang, Yan" uniqKey="Zhang Y" first="Yan" last="Zhang">Yan Zhang</name><affiliation wicri:level="1"><nlm:affiliation>Forestry Department, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Forestry Department, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070</wicri:regionArea><placeName><settlement type="city">Wuhan</settlement><region type="région">Hubei</region></placeName></affiliation></author><author><name sortKey="Liu, Meifeng" sort="Liu, Meifeng" uniqKey="Liu M" first="Meifeng" last="Liu">Meifeng Liu</name><affiliation wicri:level="1"><nlm:affiliation>Forestry Department, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Forestry Department, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070</wicri:regionArea><placeName><settlement type="city">Wuhan</settlement><region type="région">Hubei</region></placeName></affiliation></author><author><name sortKey="Zhan, Chang" sort="Zhan, Chang" uniqKey="Zhan C" first="Chang" last="Zhan">Chang Zhan</name><affiliation wicri:level="1"><nlm:affiliation>Forestry Department, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Forestry Department, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070</wicri:regionArea><placeName><settlement type="city">Wuhan</settlement><region type="région">Hubei</region></placeName></affiliation></author><author><name sortKey="Yang, Xiaoqing" sort="Yang, Xiaoqing" uniqKey="Yang X" first="Xiaoqing" last="Yang">Xiaoqing Yang</name><affiliation wicri:level="1"><nlm:affiliation>Forestry Department, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Forestry Department, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070</wicri:regionArea><placeName><settlement type="city">Wuhan</settlement><region type="région">Hubei</region></placeName></affiliation></author><author><name sortKey="Nvsvrot, Tashbek" sort="Nvsvrot, Tashbek" uniqKey="Nvsvrot T" first="Tashbek" last="Nvsvrot">Tashbek Nvsvrot</name><affiliation wicri:level="1"><nlm:affiliation>Forestry Department, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Forestry Department, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070</wicri:regionArea><placeName><settlement type="city">Wuhan</settlement><region type="région">Hubei</region></placeName></affiliation></author><author><name sortKey="Yan, Zhaogui" sort="Yan, Zhaogui" uniqKey="Yan Z" first="Zhaogui" last="Yan">Zhaogui Yan</name><affiliation wicri:level="1"><nlm:affiliation>Forestry Department, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Forestry Department, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070</wicri:regionArea><placeName><settlement type="city">Wuhan</settlement><region type="région">Hubei</region></placeName></affiliation></author><author><name sortKey="Wang, Nian" sort="Wang, Nian" uniqKey="Wang N" first="Nian" last="Wang">Nian Wang</name><affiliation wicri:level="1"><nlm:affiliation>Forestry Department, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Forestry Department, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070</wicri:regionArea><placeName><settlement type="city">Wuhan</settlement><region type="région">Hubei</region></placeName></affiliation><affiliation wicri:level="1"><nlm:affiliation>Hubei Engineering Technology Research Center for Forestry Information, Huazhong Agricultural University, Wuhan 430070, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Hubei Engineering Technology Research Center for Forestry Information, Huazhong Agricultural University, Wuhan 430070</wicri:regionArea><placeName><settlement type="city">Wuhan</settlement><region type="région">Hubei</region></placeName></affiliation></author></analytic><series><title level="j">Tree physiology</title><idno type="eISSN">1758-4469</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">Poplars are important woody plants, and the ability to form adventitious roots (ARs) is the key factor for their cultivation because most poplars are propagated by cloning. In previous studies, Ca2+ was confirmed to regulate AR formation in poplar. In this study, wild-type poplar cuttings grown in 1.0 mM Ca2+ solution showed the best visible performance of AR development. Coexpression analysis of a large-scale RNA-Seq transcriptome was conducted to identify Ca2+-related genes that regulate AR development in poplar. A total of 15 coexpression modules (CMs) were identified, and two CMs showed high association with AR development. Functional analysis identified a number of biological pathways, including 'oxidation-reduction process', 'response to biotic stimulus' and 'metabolic process', in tissues of AR development. The Ca2+-related pathway was specifically selected, and its regulation in poplar AR development was predicted. A Ca2+ sensor, PdeCML23-1, which is a member of the calmodulin-like protein (CML) family, was found to promote AR development by phenotypic assay of overexpressed PdeCML23-1 transgenic lines at various growing conditions. By measuring cytosolic Ca2+ in AR tips, PdeCML23-1 seemed to play a role in decreasing cytosolic Ca2+ concentration. Additionally, the expression profiles of some genes and phytohormone indole acetic acid (IAA) were also changed in the overexpressed PdeCML23-1 transgenic lines. According to this study, we were able to provide a global view of gene regulation for poplar AR development. Moreover, we also observed the regulation of cytosolic Ca2+ concentration by PdeCML23-1, and this regulation was involved in AR development in poplar. We also predicted that PdeCML23-1 possibly regulates AR development by modulating IAA content in poplar.</div></front></TEI><pubmed><MedlineCitation Status="In-Data-Review" Owner="NLM"><PMID Version="1">32578840</PMID><DateRevised><Year>2020</Year><Month>10</Month><Day>23</Day></DateRevised><Article PubModel="Print"><Journal><ISSN IssnType="Electronic">1758-4469</ISSN><JournalIssue CitedMedium="Internet"><Volume>40</Volume><Issue>10</Issue><PubDate><Year>2020</Year><Month>Oct</Month><Day>07</Day></PubDate></JournalIssue><Title>Tree physiology</Title><ISOAbbreviation>Tree Physiol</ISOAbbreviation></Journal><ArticleTitle>Coexpression analysis of a large-scale transcriptome identified a calmodulin-like protein regulating the development of adventitious roots in poplar.</ArticleTitle><Pagination><MedlinePgn>1405-1419</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1093/treephys/tpaa078</ELocationID><Abstract><AbstractText>Poplars are important woody plants, and the ability to form adventitious roots (ARs) is the key factor for their cultivation because most poplars are propagated by cloning. In previous studies, Ca2+ was confirmed to regulate AR formation in poplar. In this study, wild-type poplar cuttings grown in 1.0 mM Ca2+ solution showed the best visible performance of AR development. Coexpression analysis of a large-scale RNA-Seq transcriptome was conducted to identify Ca2+-related genes that regulate AR development in poplar. A total of 15 coexpression modules (CMs) were identified, and two CMs showed high association with AR development. Functional analysis identified a number of biological pathways, including 'oxidation-reduction process', 'response to biotic stimulus' and 'metabolic process', in tissues of AR development. The Ca2+-related pathway was specifically selected, and its regulation in poplar AR development was predicted. A Ca2+ sensor, PdeCML23-1, which is a member of the calmodulin-like protein (CML) family, was found to promote AR development by phenotypic assay of overexpressed PdeCML23-1 transgenic lines at various growing conditions. By measuring cytosolic Ca2+ in AR tips, PdeCML23-1 seemed to play a role in decreasing cytosolic Ca2+ concentration. Additionally, the expression profiles of some genes and phytohormone indole acetic acid (IAA) were also changed in the overexpressed PdeCML23-1 transgenic lines. According to this study, we were able to provide a global view of gene regulation for poplar AR development. Moreover, we also observed the regulation of cytosolic Ca2+ concentration by PdeCML23-1, and this regulation was involved in AR development in poplar. We also predicted that PdeCML23-1 possibly regulates AR development by modulating IAA content in poplar.</AbstractText><CopyrightInformation>© The Author(s) 2020. Published by Oxford University Press. All rights reserved. For permissions, please e-mail: journals.permission@oup.com.</CopyrightInformation></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Xiao</LastName><ForeName>Zheng'ang</ForeName><Initials>Z</Initials><AffiliationInfo><Affiliation>Forestry Department, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Zhang</LastName><ForeName>Yan</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>Forestry Department, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Liu</LastName><ForeName>Meifeng</ForeName><Initials>M</Initials><AffiliationInfo><Affiliation>Forestry Department, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Zhan</LastName><ForeName>Chang</ForeName><Initials>C</Initials><AffiliationInfo><Affiliation>Forestry Department, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Yang</LastName><ForeName>Xiaoqing</ForeName><Initials>X</Initials><AffiliationInfo><Affiliation>Forestry Department, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Nvsvrot</LastName><ForeName>Tashbek</ForeName><Initials>T</Initials><AffiliationInfo><Affiliation>Forestry Department, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Yan</LastName><ForeName>Zhaogui</ForeName><Initials>Z</Initials><AffiliationInfo><Affiliation>Forestry Department, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Wang</LastName><ForeName>Nian</ForeName><Initials>N</Initials><AffiliationInfo><Affiliation>Forestry Department, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Hubei Engineering Technology Research Center for Forestry Information, Huazhong Agricultural University, Wuhan 430070, China.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList></Article><MedlineJournalInfo><Country>Canada</Country><MedlineTA>Tree Physiol</MedlineTA><NlmUniqueID>100955338</NlmUniqueID><ISSNLinking>0829-318X</ISSNLinking></MedlineJournalInfo><CitationSubset>IM</CitationSubset><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">Ca2+</Keyword><Keyword MajorTopicYN="N">adventitious roots</Keyword><Keyword MajorTopicYN="N">calmodulin-like protein</Keyword><Keyword MajorTopicYN="N">coexpression analysis</Keyword><Keyword MajorTopicYN="N">cytosolic Ca2+ concentration</Keyword><Keyword MajorTopicYN="N">poplars</Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2020</Year><Month>02</Month><Day>25</Day></PubMedPubDate><PubMedPubDate PubStatus="revised"><Year>2020</Year><Month>05</Month><Day>19</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2020</Year><Month>06</Month><Day>16</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 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sort="Wang, Nian" uniqKey="Wang N" first="Nian" last="Wang">Nian Wang</name><name sortKey="Wang, Nian" sort="Wang, Nian" uniqKey="Wang N" first="Nian" last="Wang">Nian Wang</name><name sortKey="Yan, Zhaogui" sort="Yan, Zhaogui" uniqKey="Yan Z" first="Zhaogui" last="Yan">Zhaogui Yan</name><name sortKey="Yang, Xiaoqing" sort="Yang, Xiaoqing" uniqKey="Yang X" first="Xiaoqing" last="Yang">Xiaoqing Yang</name><name sortKey="Zhan, Chang" sort="Zhan, Chang" uniqKey="Zhan C" first="Chang" last="Zhan">Chang Zhan</name><name sortKey="Zhang, Yan" sort="Zhang, Yan" uniqKey="Zhang Y" first="Yan" last="Zhang">Yan Zhang</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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