Validation of Reference Genes for Gene Expression by Quantitative Real-Time RT-PCR in Stem Segments Spanning Primary to Secondary Growth in Populus tomentosa.
Identifieur interne : 001607 ( Main/Exploration ); précédent : 001606; suivant : 001608Validation of Reference Genes for Gene Expression by Quantitative Real-Time RT-PCR in Stem Segments Spanning Primary to Secondary Growth in Populus tomentosa.
Auteurs : Ying Wang [République populaire de Chine] ; Yajuan Chen [République populaire de Chine] ; Liping Ding [République populaire de Chine] ; Jiewei Zhang [République populaire de Chine] ; Jianhua Wei [République populaire de Chine] ; Hongzhi Wang [République populaire de Chine]Source :
- PloS one [ 1932-6203 ] ; 2016.
Descripteurs français
- KwdFr :
- ARN des plantes (génétique), ARN des plantes (isolement et purification), Gènes de plante (MeSH), Populus (croissance et développement), Populus (génétique), RT-PCR (méthodes), Réaction de polymérisation en chaine en temps réel (méthodes), Régulation de l'expression des gènes végétaux (MeSH), Tiges de plante (croissance et développement), Tiges de plante (génétique), Transcription génétique (MeSH).
- MESH :
- croissance et développement : Populus, Tiges de plante.
- génétique : ARN des plantes, Populus, Tiges de plante.
- isolement et purification : ARN des plantes.
- méthodes : RT-PCR, Réaction de polymérisation en chaine en temps réel.
- Gènes de plante, Régulation de l'expression des gènes végétaux, Transcription génétique.
English descriptors
- KwdEn :
- Gene Expression Regulation, Plant (MeSH), Genes, Plant (MeSH), Plant Stems (genetics), Plant Stems (growth & development), Populus (genetics), Populus (growth & development), RNA, Plant (genetics), RNA, Plant (isolation & purification), Real-Time Polymerase Chain Reaction (methods), Reverse Transcriptase Polymerase Chain Reaction (methods), Transcription, Genetic (MeSH).
- MESH :
- chemical , genetics : RNA, Plant.
- genetics : Plant Stems, Populus.
- growth & development : Plant Stems, Populus.
- chemical , isolation & purification : RNA, Plant.
- methods : Real-Time Polymerase Chain Reaction, Reverse Transcriptase Polymerase Chain Reaction.
- Gene Expression Regulation, Plant, Genes, Plant, Transcription, Genetic.
Abstract
The vertical segments of Populus stems are an ideal experimental system for analyzing the gene expression patterns involved in primary and secondary growth during wood formation. Suitable internal control genes are indispensable to quantitative real time PCR (qRT-PCR) assays of gene expression. In this study, the expression stability of eight candidate reference genes was evaluated in a series of vertical stem segments of Populus tomentosa. Analysis through software packages geNorm, NormFinder and BestKeeper showed that genes ribosomal protein (RP) and tubulin beta (TUBB) were the most unstable across the developmental stages of P. tomentosa stems, and the combination of the three reference genes, eukaryotic translation initiation factor 5A (eIF5A), Actin (ACT6) and elongation factor 1-beta (EF1-beta) can provide accurate and reliable normalization of qRT-PCR analysis for target gene expression in stem segments undergoing primary and secondary growth in P. tomentosa. These results provide crucial information for transcriptional analysis in the P. tomentosa stem, which may help to improve the quality of gene expression data in these vertical stem segments, which constitute an excellent plant system for the study of wood formation.
DOI: 10.1371/journal.pone.0157370
PubMed: 27300480
PubMed Central: PMC4907450
Affiliations:
Links toward previous steps (curation, corpus...)
Le document en format XML
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China.</nlm:affiliation><country xml:lang="fr" wicri:curation="lc">République populaire de Chine</country><wicri:regionArea>Beijing Key Laboratory of Agriculture Gene Resource and Biotechnology, Beijing Academy of Agriculture and Forestry Sciences, Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation></author></analytic><series><title level="j">PloS one</title><idno type="eISSN">1932-6203</idno><imprint><date when="2016" type="published">2016</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Gene Expression Regulation, Plant (MeSH)</term><term>Genes, Plant (MeSH)</term><term>Plant Stems (genetics)</term><term>Plant Stems (growth & development)</term><term>Populus (genetics)</term><term>Populus (growth & development)</term><term>RNA, Plant (genetics)</term><term>RNA, Plant (isolation & purification)</term><term>Real-Time Polymerase Chain Reaction (methods)</term><term>Reverse Transcriptase Polymerase Chain Reaction (methods)</term><term>Transcription, Genetic (MeSH)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>ARN des plantes (génétique)</term><term>ARN des plantes (isolement et purification)</term><term>Gènes de plante (MeSH)</term><term>Populus (croissance et développement)</term><term>Populus (génétique)</term><term>RT-PCR (méthodes)</term><term>Réaction de polymérisation en chaine en temps réel (méthodes)</term><term>Régulation de l'expression des gènes végétaux (MeSH)</term><term>Tiges de plante (croissance et développement)</term><term>Tiges de plante (génétique)</term><term>Transcription génétique (MeSH)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>RNA, Plant</term></keywords><keywords scheme="MESH" qualifier="croissance et développement" xml:lang="fr"><term>Populus</term><term>Tiges de plante</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Plant Stems</term><term>Populus</term></keywords><keywords scheme="MESH" qualifier="growth & development" xml:lang="en"><term>Plant Stems</term><term>Populus</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>ARN des plantes</term><term>Populus</term><term>Tiges de plante</term></keywords><keywords scheme="MESH" type="chemical" qualifier="isolation & purification" xml:lang="en"><term>RNA, Plant</term></keywords><keywords scheme="MESH" qualifier="isolement et purification" xml:lang="fr"><term>ARN des plantes</term></keywords><keywords scheme="MESH" qualifier="methods" xml:lang="en"><term>Real-Time Polymerase Chain Reaction</term><term>Reverse Transcriptase Polymerase Chain Reaction</term></keywords><keywords scheme="MESH" qualifier="méthodes" xml:lang="fr"><term>RT-PCR</term><term>Réaction de polymérisation en chaine en temps réel</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Gene Expression Regulation, Plant</term><term>Genes, Plant</term><term>Transcription, Genetic</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Gènes de plante</term><term>Régulation de l'expression des gènes végétaux</term><term>Transcription génétique</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">The vertical segments of Populus stems are an ideal experimental system for analyzing the gene expression patterns involved in primary and secondary growth during wood formation. Suitable internal control genes are indispensable to quantitative real time PCR (qRT-PCR) assays of gene expression. In this study, the expression stability of eight candidate reference genes was evaluated in a series of vertical stem segments of Populus tomentosa. Analysis through software packages geNorm, NormFinder and BestKeeper showed that genes ribosomal protein (RP) and tubulin beta (TUBB) were the most unstable across the developmental stages of P. tomentosa stems, and the combination of the three reference genes, eukaryotic translation initiation factor 5A (eIF5A), Actin (ACT6) and elongation factor 1-beta (EF1-beta) can provide accurate and reliable normalization of qRT-PCR analysis for target gene expression in stem segments undergoing primary and secondary growth in P. tomentosa. These results provide crucial information for transcriptional analysis in the P. tomentosa stem, which may help to improve the quality of gene expression data in these vertical stem segments, which constitute an excellent plant system for the study of wood formation. </div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">27300480</PMID><DateCompleted><Year>2017</Year><Month>07</Month><Day>17</Day></DateCompleted><DateRevised><Year>2019</Year><Month>02</Month><Day>13</Day></DateRevised><Article PubModel="Electronic-eCollection"><Journal><ISSN IssnType="Electronic">1932-6203</ISSN><JournalIssue CitedMedium="Internet"><Volume>11</Volume><Issue>6</Issue><PubDate><Year>2016</Year></PubDate></JournalIssue><Title>PloS one</Title><ISOAbbreviation>PLoS One</ISOAbbreviation></Journal><ArticleTitle>Validation of Reference Genes for Gene Expression by Quantitative Real-Time RT-PCR in Stem Segments Spanning Primary to Secondary Growth in Populus tomentosa.</ArticleTitle><Pagination><MedlinePgn>e0157370</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1371/journal.pone.0157370</ELocationID><Abstract><AbstractText>The vertical segments of Populus stems are an ideal experimental system for analyzing the gene expression patterns involved in primary and secondary growth during wood formation. Suitable internal control genes are indispensable to quantitative real time PCR (qRT-PCR) assays of gene expression. In this study, the expression stability of eight candidate reference genes was evaluated in a series of vertical stem segments of Populus tomentosa. Analysis through software packages geNorm, NormFinder and BestKeeper showed that genes ribosomal protein (RP) and tubulin beta (TUBB) were the most unstable across the developmental stages of P. tomentosa stems, and the combination of the three reference genes, eukaryotic translation initiation factor 5A (eIF5A), Actin (ACT6) and elongation factor 1-beta (EF1-beta) can provide accurate and reliable normalization of qRT-PCR analysis for target gene expression in stem segments undergoing primary and secondary growth in P. tomentosa. These results provide crucial information for transcriptional analysis in the P. tomentosa stem, which may help to improve the quality of gene expression data in these vertical stem segments, which constitute an excellent plant system for the study of wood formation. </AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Wang</LastName><ForeName>Ying</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>Beijing Key Laboratory of Agriculture Gene Resource and Biotechnology, Beijing Academy of Agriculture and Forestry Sciences, Beijing, P. R. China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Chen</LastName><ForeName>Yajuan</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>Beijing Key Laboratory of Agriculture Gene Resource and Biotechnology, Beijing Academy of Agriculture and Forestry Sciences, Beijing, P. R. China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Ding</LastName><ForeName>Liping</ForeName><Initials>L</Initials><AffiliationInfo><Affiliation>Beijing Key Laboratory of Agriculture Gene Resource and Biotechnology, Beijing Academy of Agriculture and Forestry Sciences, Beijing, P. R. China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Zhang</LastName><ForeName>Jiewei</ForeName><Initials>J</Initials><AffiliationInfo><Affiliation>Beijing Key Laboratory of Agriculture Gene Resource and Biotechnology, Beijing Academy of Agriculture and Forestry Sciences, Beijing, P. R. China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Wei</LastName><ForeName>Jianhua</ForeName><Initials>J</Initials><AffiliationInfo><Affiliation>Beijing Key Laboratory of Agriculture Gene Resource and Biotechnology, Beijing Academy of Agriculture and Forestry Sciences, Beijing, P. R. China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Wang</LastName><ForeName>Hongzhi</ForeName><Initials>H</Initials><Identifier Source="ORCID">http://orcid.org/0000-0001-9052-9319</Identifier><AffiliationInfo><Affiliation>Beijing Key Laboratory of Agriculture Gene Resource and Biotechnology, Beijing Academy of Agriculture and Forestry Sciences, Beijing, P. R. China.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2016</Year><Month>06</Month><Day>14</Day></ArticleDate></Article><MedlineJournalInfo><Country>United States</Country><MedlineTA>PLoS One</MedlineTA><NlmUniqueID>101285081</NlmUniqueID><ISSNLinking>1932-6203</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D018749">RNA, Plant</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D018506" MajorTopicYN="Y">Gene Expression Regulation, Plant</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D017343" MajorTopicYN="N">Genes, Plant</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D018547" MajorTopicYN="N">Plant Stems</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName><QualifierName UI="Q000254" MajorTopicYN="Y">growth & development</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D032107" MajorTopicYN="N">Populus</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName><QualifierName UI="Q000254" MajorTopicYN="Y">growth & development</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D018749" MajorTopicYN="N">RNA, Plant</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName><QualifierName UI="Q000302" MajorTopicYN="N">isolation & purification</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D060888" MajorTopicYN="N">Real-Time Polymerase Chain Reaction</DescriptorName><QualifierName UI="Q000379" MajorTopicYN="N">methods</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D020133" MajorTopicYN="N">Reverse Transcriptase Polymerase Chain Reaction</DescriptorName><QualifierName UI="Q000379" MajorTopicYN="N">methods</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D014158" MajorTopicYN="N">Transcription, Genetic</DescriptorName></MeshHeading></MeshHeadingList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2015</Year><Month>12</Month><Day>20</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2016</Year><Month>05</Month><Day>28</Day></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2016</Year><Month>6</Month><Day>15</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2016</Year><Month>6</Month><Day>15</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2017</Year><Month>7</Month><Day>18</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>epublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">27300480</ArticleId><ArticleId IdType="doi">10.1371/journal.pone.0157370</ArticleId><ArticleId 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IdType="pubmed">21227733</ArticleId></ArticleIdList></Reference></ReferenceList></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="Wang, Ying" sort="Wang, Ying" uniqKey="Wang Y" first="Ying" last="Wang">Ying Wang</name></noRegion><name sortKey="Chen, Yajuan" sort="Chen, Yajuan" uniqKey="Chen Y" first="Yajuan" last="Chen">Yajuan Chen</name><name sortKey="Ding, Liping" sort="Ding, Liping" uniqKey="Ding L" first="Liping" last="Ding">Liping Ding</name><name sortKey="Wang, Hongzhi" sort="Wang, Hongzhi" uniqKey="Wang H" first="Hongzhi" last="Wang">Hongzhi Wang</name><name sortKey="Wei, Jianhua" sort="Wei, Jianhua" uniqKey="Wei J" first="Jianhua" last="Wei">Jianhua Wei</name><name sortKey="Zhang, Jiewei" sort="Zhang, Jiewei" uniqKey="Zhang J" first="Jiewei" last="Zhang">Jiewei 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