Transcriptome analysis of diploid and triploid Populus tomentosa.
Identifieur interne : 000043 ( Main/Exploration ); précédent : 000042; suivant : 000044Transcriptome analysis of diploid and triploid Populus tomentosa.
Auteurs : Wen Bian [République populaire de Chine] ; Xiaozhen Liu [République populaire de Chine] ; Zhiming Zhang [République populaire de Chine] ; Hanyao Zhang [République populaire de Chine]Source :
- PeerJ [ 2167-8359 ] ; 2020.
Abstract
Triploid Chinese white poplar (Populus tomentosa Carr., Salicaceae) has stronger advantages in growth and better stress resistance and wood quality than diploid P. tomentosa. Using transcriptome sequencing technology to identify candidate transcriptome-based markers for growth vigor in young tree tissue is of great significance for the breeding of P. tomentosa varieties in the future. In this study, the cuttings of diploid and triploid P. tomentosa were used as plant materials, transcriptome sequencing was carried out, and their tissue culture materials were used for RT-qPCR verification of the expression of genes. The results showed that 12,240 differentially expressed genes in diploid and triploid P. tomentosa transcripts were annotated and enriched into 135 metabolic pathways. The top six pathways that enriched the most significantly different genes were plant-pathogen interaction, phenylpropanoid biosynthesis, MAPK signalling pathway-plant, ascorbate and aldarate metabolism, diterpenoid biosynthesis, and the betalain biosynthesis pathway. Ten growth-related genes were selected from pathways of plant hormone signal transduction and carbon fixation in photosynthetic organisms for RT-qPCR verification. The expression levels of MDH and CYCD3 in tissue-cultured and greenhouse planted triploid P. tomentosa were higher than those in tissue-cultured diploid P. tomentosa, which was consist ent with the TMM values calculated by transcriptome.
DOI: 10.7717/peerj.10204
PubMed: 33194408
PubMed Central: PMC7602689
Affiliations:
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Laboratory for Forest Resources Conservation and Utilization in the Southwest Mountains of China, Ministry of Education, Southwest Forestry University, Kunming, Yunnan</wicri:regionArea><wicri:noRegion>Yunnan</wicri:noRegion></affiliation></author><author><name sortKey="Liu, Xiaozhen" sort="Liu, Xiaozhen" uniqKey="Liu X" first="Xiaozhen" last="Liu">Xiaozhen Liu</name><affiliation wicri:level="1"><nlm:affiliation>Key Laboratory of Biodiversity Conservation in Southwest China, State Forest Administration, Southwest Forestry University, Kunming, Yunnan, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Biodiversity Conservation in Southwest China, State Forest Administration, Southwest Forestry University, Kunming, Yunnan</wicri:regionArea><wicri:noRegion>Yunnan</wicri:noRegion></affiliation></author><author><name sortKey="Zhang, Zhiming" sort="Zhang, Zhiming" uniqKey="Zhang Z" first="Zhiming" last="Zhang">Zhiming Zhang</name><affiliation wicri:level="1"><nlm:affiliation>Key Laboratory of Biodiversity Conservation in Southwest China, State Forest Administration, Southwest Forestry University, Kunming, Yunnan, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Biodiversity Conservation in Southwest China, State Forest Administration, Southwest Forestry University, Kunming, Yunnan</wicri:regionArea><wicri:noRegion>Yunnan</wicri:noRegion></affiliation></author><author><name sortKey="Zhang, Hanyao" sort="Zhang, Hanyao" uniqKey="Zhang H" first="Hanyao" last="Zhang">Hanyao Zhang</name><affiliation wicri:level="1"><nlm:affiliation>Key Laboratory for Forest Resources Conservation and Utilization in the Southwest Mountains of China, Ministry of Education, Southwest Forestry University, Kunming, Yunnan, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory for Forest Resources Conservation and Utilization in the Southwest Mountains of China, Ministry of Education, Southwest Forestry University, Kunming, Yunnan</wicri:regionArea><wicri:noRegion>Yunnan</wicri:noRegion></affiliation></author></analytic><series><title level="j">PeerJ</title><idno type="ISSN">2167-8359</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">Triploid Chinese white poplar (<i>Populus tomentosa</i> Carr., Salicaceae) has stronger advantages in growth and better stress resistance and wood quality than diploid <i>P. tomentosa</i>. Using transcriptome sequencing technology to identify candidate transcriptome-based markers for growth vigor in young tree tissue is of great significance for the breeding of <i>P. tomentosa</i> varieties in the future. In this study, the cuttings of diploid and triploid <i>P. tomentosa</i> were used as plant materials, transcriptome sequencing was carried out, and their tissue culture materials were used for RT-qPCR verification of the expression of genes. The results showed that 12,240 differentially expressed genes in diploid and triploid <i>P. tomentosa</i> transcripts were annotated and enriched into 135 metabolic pathways. The top six pathways that enriched the most significantly different genes were plant-pathogen interaction, phenylpropanoid biosynthesis, MAPK signalling pathway-plant, ascorbate and aldarate metabolism, diterpenoid biosynthesis, and the betalain biosynthesis pathway. Ten growth-related genes were selected from pathways of plant hormone signal transduction and carbon fixation in photosynthetic organisms for RT-qPCR verification. The expression levels of <i>MDH</i> and <i>CYCD3</i> in tissue-cultured and greenhouse planted triploid <i>P. tomentosa</i> were higher than those in tissue-cultured diploid <i>P. tomentosa</i>, which was consist ent with the TMM values calculated by transcriptome.</div></front></TEI><pubmed><MedlineCitation Status="PubMed-not-MEDLINE" Owner="NLM"><PMID Version="1">33194408</PMID><DateRevised><Year>2020</Year><Month>11</Month><Day>17</Day></DateRevised><Article PubModel="Electronic-eCollection"><Journal><ISSN IssnType="Print">2167-8359</ISSN><JournalIssue CitedMedium="Print"><Volume>8</Volume><PubDate><Year>2020</Year></PubDate></JournalIssue><Title>PeerJ</Title><ISOAbbreviation>PeerJ</ISOAbbreviation></Journal><ArticleTitle>Transcriptome analysis of diploid and triploid <i>Populus tomentosa</i>.</ArticleTitle><Pagination><MedlinePgn>e10204</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.7717/peerj.10204</ELocationID><Abstract><AbstractText>Triploid Chinese white poplar (<i>Populus tomentosa</i> Carr., Salicaceae) has stronger advantages in growth and better stress resistance and wood quality than diploid <i>P. tomentosa</i>. Using transcriptome sequencing technology to identify candidate transcriptome-based markers for growth vigor in young tree tissue is of great significance for the breeding of <i>P. tomentosa</i> varieties in the future. In this study, the cuttings of diploid and triploid <i>P. tomentosa</i> were used as plant materials, transcriptome sequencing was carried out, and their tissue culture materials were used for RT-qPCR verification of the expression of genes. The results showed that 12,240 differentially expressed genes in diploid and triploid <i>P. tomentosa</i> transcripts were annotated and enriched into 135 metabolic pathways. The top six pathways that enriched the most significantly different genes were plant-pathogen interaction, phenylpropanoid biosynthesis, MAPK signalling pathway-plant, ascorbate and aldarate metabolism, diterpenoid biosynthesis, and the betalain biosynthesis pathway. Ten growth-related genes were selected from pathways of plant hormone signal transduction and carbon fixation in photosynthetic organisms for RT-qPCR verification. The expression levels of <i>MDH</i> and <i>CYCD3</i> in tissue-cultured and greenhouse planted triploid <i>P. tomentosa</i> were higher than those in tissue-cultured diploid <i>P. tomentosa</i>, which was consist ent with the TMM values calculated by transcriptome.</AbstractText><CopyrightInformation>©2020 Bian et al.</CopyrightInformation></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y" EqualContrib="Y"><LastName>Bian</LastName><ForeName>Wen</ForeName><Initials>W</Initials><AffiliationInfo><Affiliation>Key Laboratory for Forest Resources Conservation and Utilization in the Southwest Mountains of China, Ministry of Education, Southwest Forestry University, Kunming, Yunnan, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y" EqualContrib="Y"><LastName>Liu</LastName><ForeName>Xiaozhen</ForeName><Initials>X</Initials><AffiliationInfo><Affiliation>Key Laboratory of Biodiversity Conservation in Southwest China, State Forest Administration, Southwest Forestry University, Kunming, Yunnan, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Zhang</LastName><ForeName>Zhiming</ForeName><Initials>Z</Initials><AffiliationInfo><Affiliation>Key Laboratory of Biodiversity Conservation in Southwest China, State Forest Administration, Southwest Forestry University, Kunming, Yunnan, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Zhang</LastName><ForeName>Hanyao</ForeName><Initials>H</Initials><AffiliationInfo><Affiliation>Key Laboratory for Forest Resources Conservation and Utilization in the Southwest Mountains of China, Ministry of Education, Southwest Forestry University, Kunming, Yunnan, China.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2020</Year><Month>10</Month><Day>28</Day></ArticleDate></Article><MedlineJournalInfo><Country>United States</Country><MedlineTA>PeerJ</MedlineTA><NlmUniqueID>101603425</NlmUniqueID><ISSNLinking>2167-8359</ISSNLinking></MedlineJournalInfo><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">GO categories</Keyword><Keyword MajorTopicYN="N">KEGG categories</Keyword><Keyword MajorTopicYN="N">Populus tomentosa</Keyword><Keyword MajorTopicYN="N">RT-qPCR analysis</Keyword><Keyword MajorTopicYN="N">Transcriptome analysis</Keyword></KeywordList><CoiStatement>The authors declare there are no competing interests.</CoiStatement></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2020</Year><Month>05</Month><Day>04</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2020</Year><Month>09</Month><Day>28</Day></PubMedPubDate><PubMedPubDate 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uniqKey="Zhang H" first="Hanyao" last="Zhang">Hanyao Zhang</name><name sortKey="Zhang, Zhiming" sort="Zhang, Zhiming" uniqKey="Zhang Z" first="Zhiming" last="Zhang">Zhiming Zhang</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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