Selection of reliable reference genes for quantitative real-time PCR gene expression analysis in Jute (Corchorus capsularis) under stress treatments
Identifieur interne : 001D80 ( Ncbi/Checkpoint ); précédent : 001D79; suivant : 001D81Selection of reliable reference genes for quantitative real-time PCR gene expression analysis in Jute (Corchorus capsularis) under stress treatments
Auteurs : Xiaoping Niu [République populaire de Chine] ; Jianmin Qi [République populaire de Chine] ; Gaoyang Zhang [République populaire de Chine] ; Jiantang Xu [République populaire de Chine] ; Aifen Tao [République populaire de Chine] ; Pingping Fang [République populaire de Chine] ; Jianguang Su [République populaire de Chine]Source :
- Frontiers in Plant Science [ 1664-462X ] ; 2015.
Abstract
To accurately measure gene expression using quantitative reverse transcription PCR (qRT-PCR), reliable reference gene(s) are required for data normalization.
Url:
DOI: 10.3389/fpls.2015.00848
PubMed: 26528312
PubMed Central: 4604321
Affiliations:
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<sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Selection of reliable reference genes for quantitative real-time PCR gene expression analysis in Jute (<italic>Corchorus capsularis</italic>
) under stress treatments</title>
<author><name sortKey="Niu, Xiaoping" sort="Niu, Xiaoping" uniqKey="Niu X" first="Xiaoping" last="Niu">Xiaoping Niu</name>
<affiliation wicri:level="1"><nlm:aff id="aff1"><institution>Key Laboratory for Genetics, Breeding and Multiple Utilization of Crops, Fujian Agriculture and Forestry University</institution>
<country>Fuzhou, China</country>
</nlm:aff>
<country xml:lang="fr">République populaire de Chine</country>
<wicri:regionArea></wicri:regionArea>
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<author><name sortKey="Qi, Jianmin" sort="Qi, Jianmin" uniqKey="Qi J" first="Jianmin" last="Qi">Jianmin Qi</name>
<affiliation wicri:level="1"><nlm:aff id="aff1"><institution>Key Laboratory for Genetics, Breeding and Multiple Utilization of Crops, Fujian Agriculture and Forestry University</institution>
<country>Fuzhou, China</country>
</nlm:aff>
<country xml:lang="fr">République populaire de Chine</country>
<wicri:regionArea></wicri:regionArea>
</affiliation>
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<author><name sortKey="Zhang, Gaoyang" sort="Zhang, Gaoyang" uniqKey="Zhang G" first="Gaoyang" last="Zhang">Gaoyang Zhang</name>
<affiliation wicri:level="1"><nlm:aff id="aff1"><institution>Key Laboratory for Genetics, Breeding and Multiple Utilization of Crops, Fujian Agriculture and Forestry University</institution>
<country>Fuzhou, China</country>
</nlm:aff>
<country xml:lang="fr">République populaire de Chine</country>
<wicri:regionArea></wicri:regionArea>
</affiliation>
<affiliation wicri:level="1"><nlm:aff id="aff2"><institution>College of Life Sciences, Shangrao Normal University</institution>
<country>Shangrao, China</country>
</nlm:aff>
<country xml:lang="fr">République populaire de Chine</country>
<wicri:regionArea></wicri:regionArea>
</affiliation>
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<author><name sortKey="Xu, Jiantang" sort="Xu, Jiantang" uniqKey="Xu J" first="Jiantang" last="Xu">Jiantang Xu</name>
<affiliation wicri:level="1"><nlm:aff id="aff1"><institution>Key Laboratory for Genetics, Breeding and Multiple Utilization of Crops, Fujian Agriculture and Forestry University</institution>
<country>Fuzhou, China</country>
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<country xml:lang="fr">République populaire de Chine</country>
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<author><name sortKey="Tao, Aifen" sort="Tao, Aifen" uniqKey="Tao A" first="Aifen" last="Tao">Aifen Tao</name>
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<country>Fuzhou, China</country>
</nlm:aff>
<country xml:lang="fr">République populaire de Chine</country>
<wicri:regionArea></wicri:regionArea>
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<author><name sortKey="Fang, Pingping" sort="Fang, Pingping" uniqKey="Fang P" first="Pingping" last="Fang">Pingping Fang</name>
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<country>Fuzhou, China</country>
</nlm:aff>
<country xml:lang="fr">République populaire de Chine</country>
<wicri:regionArea></wicri:regionArea>
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<author><name sortKey="Su, Jianguang" sort="Su, Jianguang" uniqKey="Su J" first="Jianguang" last="Su">Jianguang Su</name>
<affiliation wicri:level="1"><nlm:aff id="aff3"><institution>Institute of Bast Fiber Crops, Chinese Academy of Agricultural Sciences</institution>
<country>Changsha, China</country>
</nlm:aff>
<country xml:lang="fr">République populaire de Chine</country>
<wicri:regionArea></wicri:regionArea>
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<series><title level="j">Frontiers in Plant Science</title>
<idno type="eISSN">1664-462X</idno>
<imprint><date when="2015">2015</date>
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<front><div type="abstract" xml:lang="en"><p>To accurately measure gene expression using quantitative reverse transcription PCR (qRT-PCR), reliable reference gene(s) are required for data normalization. <italic>Corchorus capsularis</italic>
, an annual herbaceous fiber crop with predominant biodegradability and renewability, has not been investigated for the stability of reference genes with qRT-PCR. In this study, 11 candidate reference genes were selected and their expression levels were assessed using qRT-PCR. To account for the influence of experimental approach and tissue type, 22 different jute samples were selected from abiotic and biotic stress conditions as well as three different tissue types. The stability of the candidate reference genes was evaluated using geNorm, NormFinder, and BestKeeper programs, and the comprehensive rankings of gene stability were generated by aggregate analysis. For the biotic stress and NaCl stress subsets, <italic>ACT7</italic>
and <italic>RAN</italic>
were suitable as stable reference genes for gene expression normalization. For the PEG stress subset, <italic>UBC</italic>
, and <italic>DnaJ</italic>
were sufficient for accurate normalization. For the tissues subset, four reference genes <italic>TUB</italic>
β, <italic>UBI, EF1</italic>
α, and <italic>RAN</italic>
were sufficient for accurate normalization. The selected genes were further validated by comparing expression profiles of <italic>WRKY15</italic>
in various samples, and two stable reference genes were recommended for accurate normalization of qRT-PCR data. Our results provide researchers with appropriate reference genes for qRT-PCR in <italic>C</italic>
. <italic>capsularis</italic>
, and will facilitate gene expression study under these conditions.</p>
</div>
</front>
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<affiliations><list><country><li>République populaire de Chine</li>
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<tree><country name="République populaire de Chine"><noRegion><name sortKey="Niu, Xiaoping" sort="Niu, Xiaoping" uniqKey="Niu X" first="Xiaoping" last="Niu">Xiaoping Niu</name>
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<name sortKey="Su, Jianguang" sort="Su, Jianguang" uniqKey="Su J" first="Jianguang" last="Su">Jianguang Su</name>
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</record>
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HfdIndexSelect -h $EXPLOR_AREA/Data/Ncbi/Checkpoint/RBID.i -Sk "pubmed:26528312" \ | HfdSelect -Kh $EXPLOR_AREA/Data/Ncbi/Checkpoint/biblio.hfd \ | NlmPubMed2Wicri -a OrangerV1
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