De novo transcriptome analysis reveals insights into dynamic homeostasis regulation of somatic embryogenesis in upland cotton (G. hirsutum L.)
Identifieur interne : 000261 ( Main/Exploration ); précédent : 000260; suivant : 000262De novo transcriptome analysis reveals insights into dynamic homeostasis regulation of somatic embryogenesis in upland cotton (G. hirsutum L.)
Auteurs : Wen-Han Cheng ; Hua-Guo Zhu ; Wen-Gang Tian ; Shou-Hong Zhu ; Xian-Peng Xiong ; Yu-Qiang Sun ; Qian-Hao Zhu [Australie] ; Jie SunSource :
- Plant Molecular Biology [ 0167-4412 ] ; 2016.
Abstract
Plant regeneration via somatic embryogenesis (SE) is the key step for genetic improvement of cotton (
The online version of this article (doi:10.1007/s11103-016-0511-6) contains supplementary material, which is available to authorized users.
Url:
DOI: 10.1007/s11103-016-0511-6
PubMed: 27511192
PubMed Central: 5040755
Affiliations:
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">De novo transcriptome analysis reveals insights into dynamic homeostasis regulation of somatic embryogenesis in upland cotton (<italic>G. hirsutum</italic> L.)</title><author><name sortKey="Cheng, Wen Han" sort="Cheng, Wen Han" uniqKey="Cheng W" first="Wen-Han" last="Cheng">Wen-Han Cheng</name><affiliation><nlm:aff id="Aff1">The Key Laboratory of Oasis Eco-Agriculture, College of Agriculture, Shihezi University, Shihezi, 832000 Xinjiang China</nlm:aff><wicri:noCountry code="subfield">832000 Xinjiang China</wicri:noCountry></affiliation></author><author><name sortKey="Zhu, Hua Guo" sort="Zhu, Hua Guo" uniqKey="Zhu H" first="Hua-Guo" last="Zhu">Hua-Guo Zhu</name><affiliation><nlm:aff id="Aff1">The Key Laboratory of Oasis Eco-Agriculture, College of Agriculture, Shihezi University, Shihezi, 832000 Xinjiang China</nlm:aff><wicri:noCountry code="subfield">832000 Xinjiang China</wicri:noCountry></affiliation></author><author><name sortKey="Tian, Wen Gang" sort="Tian, Wen Gang" uniqKey="Tian W" first="Wen-Gang" last="Tian">Wen-Gang Tian</name><affiliation><nlm:aff id="Aff1">The Key Laboratory of Oasis Eco-Agriculture, College of Agriculture, Shihezi University, Shihezi, 832000 Xinjiang China</nlm:aff><wicri:noCountry code="subfield">832000 Xinjiang China</wicri:noCountry></affiliation></author><author><name sortKey="Zhu, Shou Hong" sort="Zhu, Shou Hong" uniqKey="Zhu S" first="Shou-Hong" last="Zhu">Shou-Hong Zhu</name><affiliation><nlm:aff id="Aff1">The Key Laboratory of Oasis Eco-Agriculture, College of Agriculture, Shihezi University, Shihezi, 832000 Xinjiang China</nlm:aff><wicri:noCountry code="subfield">832000 Xinjiang China</wicri:noCountry></affiliation></author><author><name sortKey="Xiong, Xian Peng" sort="Xiong, Xian Peng" uniqKey="Xiong X" first="Xian-Peng" last="Xiong">Xian-Peng Xiong</name><affiliation><nlm:aff id="Aff1">The Key Laboratory of Oasis Eco-Agriculture, College of Agriculture, Shihezi University, Shihezi, 832000 Xinjiang China</nlm:aff><wicri:noCountry code="subfield">832000 Xinjiang China</wicri:noCountry></affiliation></author><author><name sortKey="Sun, Yu Qiang" sort="Sun, Yu Qiang" uniqKey="Sun Y" first="Yu-Qiang" last="Sun">Yu-Qiang Sun</name><affiliation><nlm:aff id="Aff1">The Key Laboratory of Oasis Eco-Agriculture, College of Agriculture, Shihezi University, Shihezi, 832000 Xinjiang China</nlm:aff><wicri:noCountry code="subfield">832000 Xinjiang China</wicri:noCountry></affiliation><affiliation><nlm:aff id="Aff2">Key Laboratory of Plant Secondary Metabolism and Regulation of Zhejiang Province, College of Life Sciences, Zhejiang Sci-Tech University, Hangzhou, 310018 Zhejiang China</nlm:aff><wicri:noCountry code="subfield">310018 Zhejiang China</wicri:noCountry></affiliation></author><author><name sortKey="Zhu, Qian Hao" sort="Zhu, Qian Hao" uniqKey="Zhu Q" first="Qian-Hao" last="Zhu">Qian-Hao Zhu</name><affiliation wicri:level="1"><nlm:aff id="Aff3">CSIRO Agriculture Flagship, GPO Box 1600, Canberra, 2601 Australia</nlm:aff><country xml:lang="fr">Australie</country><wicri:regionArea>CSIRO Agriculture Flagship, GPO Box 1600, Canberra</wicri:regionArea><wicri:noRegion>Canberra</wicri:noRegion></affiliation></author><author><name sortKey="Sun, Jie" sort="Sun, Jie" uniqKey="Sun J" first="Jie" last="Sun">Jie Sun</name><affiliation><nlm:aff id="Aff1">The Key Laboratory of Oasis Eco-Agriculture, College of Agriculture, Shihezi University, Shihezi, 832000 Xinjiang China</nlm:aff><wicri:noCountry code="subfield">832000 Xinjiang China</wicri:noCountry></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">27511192</idno><idno type="pmc">5040755</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5040755</idno><idno type="RBID">PMC:5040755</idno><idno type="doi">10.1007/s11103-016-0511-6</idno><date when="2016">2016</date><idno type="wicri:Area/Pmc/Corpus">000692</idno><idno type="wicri:Area/Pmc/Curation">000691</idno><idno type="wicri:Area/Pmc/Checkpoint">000214</idno><idno type="wicri:Area/Ncbi/Merge">002141</idno><idno type="wicri:Area/Ncbi/Curation">002141</idno><idno type="wicri:Area/Ncbi/Checkpoint">002141</idno><idno type="wicri:doubleKey">0167-4412:2016:Cheng W:de:novo:transcriptome</idno><idno type="wicri:Area/Main/Merge">000261</idno><idno type="wicri:Area/Main/Curation">000261</idno><idno type="wicri:Area/Main/Exploration">000261</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">De novo transcriptome analysis reveals insights into dynamic homeostasis regulation of somatic embryogenesis in upland cotton (<italic>G. hirsutum</italic> L.)</title><author><name sortKey="Cheng, Wen Han" sort="Cheng, Wen Han" uniqKey="Cheng W" first="Wen-Han" last="Cheng">Wen-Han Cheng</name><affiliation><nlm:aff id="Aff1">The Key Laboratory of Oasis Eco-Agriculture, College of Agriculture, Shihezi University, Shihezi, 832000 Xinjiang China</nlm:aff><wicri:noCountry code="subfield">832000 Xinjiang China</wicri:noCountry></affiliation></author><author><name sortKey="Zhu, Hua Guo" sort="Zhu, Hua Guo" uniqKey="Zhu H" first="Hua-Guo" last="Zhu">Hua-Guo Zhu</name><affiliation><nlm:aff id="Aff1">The Key Laboratory of Oasis Eco-Agriculture, College of Agriculture, Shihezi University, Shihezi, 832000 Xinjiang China</nlm:aff><wicri:noCountry code="subfield">832000 Xinjiang China</wicri:noCountry></affiliation></author><author><name sortKey="Tian, Wen Gang" sort="Tian, Wen Gang" uniqKey="Tian W" first="Wen-Gang" last="Tian">Wen-Gang Tian</name><affiliation><nlm:aff id="Aff1">The Key Laboratory of Oasis Eco-Agriculture, College of Agriculture, Shihezi University, Shihezi, 832000 Xinjiang China</nlm:aff><wicri:noCountry code="subfield">832000 Xinjiang China</wicri:noCountry></affiliation></author><author><name sortKey="Zhu, Shou Hong" sort="Zhu, Shou Hong" uniqKey="Zhu S" first="Shou-Hong" last="Zhu">Shou-Hong Zhu</name><affiliation><nlm:aff id="Aff1">The Key Laboratory of Oasis Eco-Agriculture, College of Agriculture, Shihezi University, Shihezi, 832000 Xinjiang China</nlm:aff><wicri:noCountry code="subfield">832000 Xinjiang China</wicri:noCountry></affiliation></author><author><name sortKey="Xiong, Xian Peng" sort="Xiong, Xian Peng" uniqKey="Xiong X" first="Xian-Peng" last="Xiong">Xian-Peng Xiong</name><affiliation><nlm:aff id="Aff1">The Key Laboratory of Oasis Eco-Agriculture, College of Agriculture, Shihezi University, Shihezi, 832000 Xinjiang China</nlm:aff><wicri:noCountry code="subfield">832000 Xinjiang China</wicri:noCountry></affiliation></author><author><name sortKey="Sun, Yu Qiang" sort="Sun, Yu Qiang" uniqKey="Sun Y" first="Yu-Qiang" last="Sun">Yu-Qiang Sun</name><affiliation><nlm:aff id="Aff1">The Key Laboratory of Oasis Eco-Agriculture, College of Agriculture, Shihezi University, Shihezi, 832000 Xinjiang China</nlm:aff><wicri:noCountry code="subfield">832000 Xinjiang China</wicri:noCountry></affiliation><affiliation><nlm:aff id="Aff2">Key Laboratory of Plant Secondary Metabolism and Regulation of Zhejiang Province, College of Life Sciences, Zhejiang Sci-Tech University, Hangzhou, 310018 Zhejiang China</nlm:aff><wicri:noCountry code="subfield">310018 Zhejiang China</wicri:noCountry></affiliation></author><author><name sortKey="Zhu, Qian Hao" sort="Zhu, Qian Hao" uniqKey="Zhu Q" first="Qian-Hao" last="Zhu">Qian-Hao Zhu</name><affiliation wicri:level="1"><nlm:aff id="Aff3">CSIRO Agriculture Flagship, GPO Box 1600, Canberra, 2601 Australia</nlm:aff><country xml:lang="fr">Australie</country><wicri:regionArea>CSIRO Agriculture Flagship, GPO Box 1600, Canberra</wicri:regionArea><wicri:noRegion>Canberra</wicri:noRegion></affiliation></author><author><name sortKey="Sun, Jie" sort="Sun, Jie" uniqKey="Sun J" first="Jie" last="Sun">Jie Sun</name><affiliation><nlm:aff id="Aff1">The Key Laboratory of Oasis Eco-Agriculture, College of Agriculture, Shihezi University, Shihezi, 832000 Xinjiang China</nlm:aff><wicri:noCountry code="subfield">832000 Xinjiang China</wicri:noCountry></affiliation></author></analytic><series><title level="j">Plant Molecular Biology</title><idno type="ISSN">0167-4412</idno><idno type="eISSN">1573-5028</idno><imprint><date when="2016">2016</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>Plant regeneration via somatic embryogenesis (SE) is the key step for genetic improvement of cotton (<italic>Gossypium hirsutum</italic> L.) through genetic engineering mediated by <italic>Agrobacteria</italic>, but the molecular mechanisms underlying SE in cotton is still unclear. Here, RNA-Sequencing was used to analyze the genes expressed during SE and their expression dynamics using RNAs isolated from non-embryogenic callus (NEC), embryogenic callus (EC) and somatic embryos (SEs). A total of 101, 670 unigenes were de novo assembled. The genes differentially expressed (DEGs) amongst NEC, EC and SEs were identified, annotated and classified. More DEGs were found between SEs and EC than between EC and NEC. A significant number of DEGs were related to hormone homeostasis, stress and ROS responses, and metabolism of polyamines. To confirm the expression dynamics of selected DEGs involved in various pathways, experiments were set up to investigate the effects of hormones (Indole-3-butytric acid, IBA; Kinetin, KT), polyamines, H<sub>2</sub>O<sub>2</sub> and stresses on SE. Our results showed that exogenous application of IBA and KT positively regulated the development of EC and SEs, and that polyamines and H<sub>2</sub>O<sub>2</sub> promoted the conversion of EC into SEs. Furthermore, we found that low and moderate stress is beneficial for proliferation of EC and SEs formation. Together, our global analysis of transcriptomic dynamics reveals that hormone homeostasis, polyamines, and stress response synergistically regulating SE in cotton.</p><sec><title>Electronic supplementary material</title><p>The online version of this article (doi:10.1007/s11103-016-0511-6) contains supplementary material, which is available to authorized users.</p></sec></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Aan Den Toorn, M" uniqKey="Aan Den Toorn M">M aan den Toorn</name></author><author><name sortKey="Albrecht, C" uniqKey="Albrecht C">C Albrecht</name></author><author><name sortKey="De Vries, S" uniqKey="De Vries S">S de Vries</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Bai, B" uniqKey="Bai B">B Bai</name></author><author><name sortKey="Su, Yh" uniqKey="Su Y">YH Su</name></author><author><name sortKey="Yuan, J" uniqKey="Yuan J">J Yuan</name></author><author><name sortKey="Zhang, Xs" 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Yoda</name></author><author><name sortKey="Fujimura, K" uniqKey="Fujimura K">K Fujimura</name></author><author><name sortKey="Takahashi, H" uniqKey="Takahashi H">H Takahashi</name></author><author><name sortKey="Munemura, I" uniqKey="Munemura I">I Munemura</name></author><author><name sortKey="Uchimiya, H" uniqKey="Uchimiya H">H Uchimiya</name></author><author><name sortKey="Sano, H" uniqKey="Sano H">H Sano</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Zeng, F" uniqKey="Zeng F">F Zeng</name></author><author><name sortKey="Zhang, X" uniqKey="Zhang X">X Zhang</name></author><author><name sortKey="Zhu, L" uniqKey="Zhu L">L Zhu</name></author><author><name sortKey="Tu, L" uniqKey="Tu L">L Tu</name></author><author><name sortKey="Guo, X" uniqKey="Guo X">X Guo</name></author><author><name sortKey="Nie, Y" uniqKey="Nie Y">Y Nie</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Zhang, T" uniqKey="Zhang T">T Zhang</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Zuo, J" uniqKey="Zuo J">J Zuo</name></author><author><name sortKey="Niu, Qw" uniqKey="Niu Q">QW Niu</name></author><author><name sortKey="Frugis, G" uniqKey="Frugis G">G Frugis</name></author><author><name sortKey="Chua, Nh" uniqKey="Chua N">NH Chua</name></author></analytic></biblStruct></listBibl></div1></back></TEI><affiliations><list><country><li>Australie</li></country></list><tree><noCountry><name sortKey="Cheng, Wen Han" sort="Cheng, Wen Han" uniqKey="Cheng W" first="Wen-Han" last="Cheng">Wen-Han Cheng</name><name sortKey="Sun, Jie" sort="Sun, Jie" uniqKey="Sun J" first="Jie" last="Sun">Jie Sun</name><name sortKey="Sun, Yu Qiang" sort="Sun, Yu Qiang" uniqKey="Sun Y" first="Yu-Qiang" last="Sun">Yu-Qiang Sun</name><name sortKey="Tian, Wen Gang" sort="Tian, Wen Gang" uniqKey="Tian W" first="Wen-Gang" last="Tian">Wen-Gang Tian</name><name sortKey="Xiong, Xian Peng" sort="Xiong, Xian Peng" uniqKey="Xiong X" first="Xian-Peng" last="Xiong">Xian-Peng Xiong</name><name sortKey="Zhu, Hua Guo" sort="Zhu, Hua Guo" uniqKey="Zhu H" first="Hua-Guo" last="Zhu">Hua-Guo Zhu</name><name sortKey="Zhu, Shou Hong" sort="Zhu, Shou Hong" uniqKey="Zhu S" first="Shou-Hong" last="Zhu">Shou-Hong Zhu</name></noCountry><country name="Australie"><noRegion><name sortKey="Zhu, Qian Hao" sort="Zhu, Qian Hao" uniqKey="Zhu Q" first="Qian-Hao" last="Zhu">Qian-Hao Zhu</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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