Identification of Differentially Expressed Genes in Leaf of Reaumuria soongorica under PEG-Induced Drought Stress by Digital Gene Expression Profiling
Identifieur interne : 001671 ( Ncbi/Curation ); précédent : 001670; suivant : 001672Identification of Differentially Expressed Genes in Leaf of Reaumuria soongorica under PEG-Induced Drought Stress by Digital Gene Expression Profiling
Auteurs : Yubing Liu [République populaire de Chine] ; Meiling Liu [République populaire de Chine] ; Xinrong Li [République populaire de Chine] ; Bo Cao [République populaire de Chine] ; Xiaofei Ma [République populaire de Chine]Source :
- PLoS ONE [ 1932-6203 ] ; 2014.
Abstract
Url:
DOI: 10.1371/journal.pone.0094277
PubMed: 24736242
PubMed Central: 3988058
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Identification of Differentially Expressed Genes in Leaf of <italic>Reaumuria soongorica</italic> under PEG-Induced Drought Stress by Digital Gene Expression Profiling</title><author><name sortKey="Liu, Yubing" sort="Liu, Yubing" uniqKey="Liu Y" first="Yubing" last="Liu">Yubing Liu</name><affiliation wicri:level="1"><nlm:aff id="aff1"><addr-line>Shapotou Desert Research & Experiment Station, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou, P. R. China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Shapotou Desert Research & Experiment Station, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou</wicri:regionArea><wicri:noRegion>Lanzhou</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:aff id="aff2"><addr-line>Key Laboratory of Stress Physiology and Ecology in Cold and Arid Regions of Gansu Province, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou, P. R. China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Stress Physiology and Ecology in Cold and Arid Regions of Gansu Province, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou</wicri:regionArea><wicri:noRegion>Lanzhou</wicri:noRegion></affiliation></author><author><name sortKey="Liu, Meiling" sort="Liu, Meiling" uniqKey="Liu M" first="Meiling" last="Liu">Meiling Liu</name><affiliation wicri:level="1"><nlm:aff id="aff1"><addr-line>Shapotou Desert Research & Experiment Station, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou, P. R. China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Shapotou Desert Research & Experiment Station, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou</wicri:regionArea><wicri:noRegion>Lanzhou</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:aff id="aff2"><addr-line>Key Laboratory of Stress Physiology and Ecology in Cold and Arid Regions of Gansu Province, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou, P. R. China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Stress Physiology and Ecology in Cold and Arid Regions of Gansu Province, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou</wicri:regionArea><wicri:noRegion>Lanzhou</wicri:noRegion></affiliation><affiliation wicri:level="3"><nlm:aff id="aff3"><addr-line>University of Chinese Academy of Sciences, Beijing, China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>University of Chinese Academy of Sciences, Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation></author><author><name sortKey="Li, Xinrong" sort="Li, Xinrong" uniqKey="Li X" first="Xinrong" last="Li">Xinrong Li</name><affiliation wicri:level="1"><nlm:aff id="aff1"><addr-line>Shapotou Desert Research & Experiment Station, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou, P. R. China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Shapotou Desert Research & Experiment Station, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou</wicri:regionArea><wicri:noRegion>Lanzhou</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:aff id="aff2"><addr-line>Key Laboratory of Stress Physiology and Ecology in Cold and Arid Regions of Gansu Province, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou, P. R. China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Stress Physiology and Ecology in Cold and Arid Regions of Gansu Province, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou</wicri:regionArea><wicri:noRegion>Lanzhou</wicri:noRegion></affiliation></author><author><name sortKey="Cao, Bo" sort="Cao, Bo" uniqKey="Cao B" first="Bo" last="Cao">Bo Cao</name><affiliation wicri:level="1"><nlm:aff id="aff1"><addr-line>Shapotou Desert Research & Experiment Station, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou, P. R. China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Shapotou Desert Research & Experiment Station, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou</wicri:regionArea><wicri:noRegion>Lanzhou</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:aff id="aff2"><addr-line>Key Laboratory of Stress Physiology and Ecology in Cold and Arid Regions of Gansu Province, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou, P. R. China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Stress Physiology and Ecology in Cold and Arid Regions of Gansu Province, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou</wicri:regionArea><wicri:noRegion>Lanzhou</wicri:noRegion></affiliation><affiliation wicri:level="3"><nlm:aff id="aff3"><addr-line>University of Chinese Academy of Sciences, Beijing, China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>University of Chinese Academy of Sciences, Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation></author><author><name sortKey="Ma, Xiaofei" sort="Ma, Xiaofei" uniqKey="Ma X" first="Xiaofei" last="Ma">Xiaofei Ma</name><affiliation wicri:level="1"><nlm:aff id="aff2"><addr-line>Key Laboratory of Stress Physiology and Ecology in Cold and Arid Regions of Gansu Province, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou, P. R. China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Stress Physiology and Ecology in Cold and Arid Regions of Gansu Province, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou</wicri:regionArea><wicri:noRegion>Lanzhou</wicri:noRegion></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">24736242</idno><idno type="pmc">3988058</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3988058</idno><idno type="RBID">PMC:3988058</idno><idno type="doi">10.1371/journal.pone.0094277</idno><date when="2014">2014</date><idno type="wicri:Area/Pmc/Corpus">001200</idno><idno type="wicri:Area/Pmc/Curation">001199</idno><idno type="wicri:Area/Pmc/Checkpoint">000795</idno><idno type="wicri:Area/Ncbi/Merge">001671</idno><idno type="wicri:Area/Ncbi/Curation">001671</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Identification of Differentially Expressed Genes in Leaf of <italic>Reaumuria soongorica</italic> under PEG-Induced Drought Stress by Digital Gene Expression Profiling</title><author><name sortKey="Liu, Yubing" sort="Liu, Yubing" uniqKey="Liu Y" first="Yubing" last="Liu">Yubing Liu</name><affiliation wicri:level="1"><nlm:aff id="aff1"><addr-line>Shapotou Desert Research & Experiment Station, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou, P. R. China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Shapotou Desert Research & Experiment Station, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou</wicri:regionArea><wicri:noRegion>Lanzhou</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:aff id="aff2"><addr-line>Key Laboratory of Stress Physiology and Ecology in Cold and Arid Regions of Gansu Province, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou, P. R. China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Stress Physiology and Ecology in Cold and Arid Regions of Gansu Province, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou</wicri:regionArea><wicri:noRegion>Lanzhou</wicri:noRegion></affiliation></author><author><name sortKey="Liu, Meiling" sort="Liu, Meiling" uniqKey="Liu M" first="Meiling" last="Liu">Meiling Liu</name><affiliation wicri:level="1"><nlm:aff id="aff1"><addr-line>Shapotou Desert Research & Experiment Station, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou, P. R. China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Shapotou Desert Research & Experiment Station, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou</wicri:regionArea><wicri:noRegion>Lanzhou</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:aff id="aff2"><addr-line>Key Laboratory of Stress Physiology and Ecology in Cold and Arid Regions of Gansu Province, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou, P. R. China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Stress Physiology and Ecology in Cold and Arid Regions of Gansu Province, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou</wicri:regionArea><wicri:noRegion>Lanzhou</wicri:noRegion></affiliation><affiliation wicri:level="3"><nlm:aff id="aff3"><addr-line>University of Chinese Academy of Sciences, Beijing, China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>University of Chinese Academy of Sciences, Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation></author><author><name sortKey="Li, Xinrong" sort="Li, Xinrong" uniqKey="Li X" first="Xinrong" last="Li">Xinrong Li</name><affiliation wicri:level="1"><nlm:aff id="aff1"><addr-line>Shapotou Desert Research & Experiment Station, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou, P. R. China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Shapotou Desert Research & Experiment Station, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou</wicri:regionArea><wicri:noRegion>Lanzhou</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:aff id="aff2"><addr-line>Key Laboratory of Stress Physiology and Ecology in Cold and Arid Regions of Gansu Province, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou, P. R. China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Stress Physiology and Ecology in Cold and Arid Regions of Gansu Province, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou</wicri:regionArea><wicri:noRegion>Lanzhou</wicri:noRegion></affiliation></author><author><name sortKey="Cao, Bo" sort="Cao, Bo" uniqKey="Cao B" first="Bo" last="Cao">Bo Cao</name><affiliation wicri:level="1"><nlm:aff id="aff1"><addr-line>Shapotou Desert Research & Experiment Station, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou, P. R. China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Shapotou Desert Research & Experiment Station, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou</wicri:regionArea><wicri:noRegion>Lanzhou</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:aff id="aff2"><addr-line>Key Laboratory of Stress Physiology and Ecology in Cold and Arid Regions of Gansu Province, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou, P. R. China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Stress Physiology and Ecology in Cold and Arid Regions of Gansu Province, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou</wicri:regionArea><wicri:noRegion>Lanzhou</wicri:noRegion></affiliation><affiliation wicri:level="3"><nlm:aff id="aff3"><addr-line>University of Chinese Academy of Sciences, Beijing, China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>University of Chinese Academy of Sciences, Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation></author><author><name sortKey="Ma, Xiaofei" sort="Ma, Xiaofei" uniqKey="Ma X" first="Xiaofei" last="Ma">Xiaofei Ma</name><affiliation wicri:level="1"><nlm:aff id="aff2"><addr-line>Key Laboratory of Stress Physiology and Ecology in Cold and Arid Regions of Gansu Province, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou, P. R. China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Stress Physiology and Ecology in Cold and Arid Regions of Gansu Province, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou</wicri:regionArea><wicri:noRegion>Lanzhou</wicri:noRegion></affiliation></author></analytic><series><title level="j">PLoS ONE</title><idno type="eISSN">1932-6203</idno><imprint><date when="2014">2014</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p><italic>Reaumuria soongorica</italic> (Pall.) Maxim., a resurrection semi-shrub, is a typical constructive and dominant species in desert ecosystems in northwestern China. However, the gene expression characteristics of <italic>R. soongorica</italic> under drought stress have not been elucidated. Digital gene expression analysis was performed using Illumina technique to investigate differentially expressed genes (DEGs) between control and PEG-treated samples of <italic>R. soongorica</italic>. A total of 212,338 and 211,052 distinct tags were detected in the control and PEG-treated libraries, respectively. A total of 1,325 genes were identified as DEGs, 379 (28.6%) of which were up-regulated and 946 (71.4%) were down-regulated in response to drought stress. Functional annotation analysis identified numerous drought-inducible genes with various functions in response to drought stress. A number of regulatory proteins, functional proteins, and proteins induced by other stress factors in <italic>R. soongorica</italic> were identified. Alteration in the regulatory proteins (transcription factors and protein kinase) may be involved in signal transduction. Functional proteins, including flavonoid biosynthetic proteins, late embryogenesis abundant (LEA) proteins, small heat shock proteins (sHSP), and aquaporin and proline transporter may play protective roles in response to drought stress. Flavonoids, LEA proteins and sHSP function as reactive oxygen species scavenger or molecular chaperone. Aquaporin and proline transporters regulate the distribution of water and proline throughout the whole plant. The tolerance ability of <italic>R. soongorica</italic> may be gained through effective signal transduction and enhanced protection of functional proteins to reestablish cellular homeostasis. DEGs obtained in this study may provide useful insights to help further understand the drought-tolerant mechanism of <italic>R. soongorica</italic>.</p></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Okcu, G" uniqKey="Okcu G">G Okcu</name></author><author><name sortKey="Kaya, Md" uniqKey="Kaya M">MD Kaya</name></author><author><name sortKey="Atak, M" uniqKey="Atak M">M Atak</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Lawson, T" uniqKey="Lawson T">T Lawson</name></author><author><name sortKey="Oxborough, K" uniqKey="Oxborough K">K Oxborough</name></author><author><name sortKey="Morison, Jil" uniqKey="Morison J">JIL Morison</name></author><author><name sortKey="Baker, Nr" uniqKey="Baker N">NR Baker</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Dat, Jf" uniqKey="Dat J">JF Dat</name></author></analytic></biblStruct><biblStruct><analytic><author><name 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