Global gene expression in cotton (Gossypium hirsutum L.) leaves to waterlogging stress
Cotton is sensitive to waterlogging stress, which usually results in stunted growth and yield loss. To date, the molecular mechanisms underlying the responses to waterlogging in cotton remain elusive. Cotton was grown in a rain-shelter and subjected to 0 (control)-, 10-, 15- and 20-d waterlogging at...
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| Veröffentlicht in: | PloS one 2017-09, Vol.12 (9), p.e0185075 |
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| creator | Zhang, Yanjun Kong, Xiangqiang Dai, Jianlong Luo, Zhen Li, Zhenhuai Lu, Hequan Xu, Shizhen Tang, Wei Zhang, Dongmei Li, Weijiang Xin, Chengsong Dong, Hezhong |
| description | Cotton is sensitive to waterlogging stress, which usually results in stunted growth and yield loss. To date, the molecular mechanisms underlying the responses to waterlogging in cotton remain elusive. Cotton was grown in a rain-shelter and subjected to 0 (control)-, 10-, 15- and 20-d waterlogging at flowering stage. The fourth-leaves on the main-stem from the top were sampled and immediately frozen in liquid nitrogen for physiological measurement. Global gene transcription in the leaves of 15-d waterlogged plants was analyzed by RNA-Seq. Seven hundred and ninety four genes were up-regulated and 1018 genes were down-regulated in waterlogged cotton leaves compared with non-waterlogged control. The differentially expressed genes were mainly related to photosynthesis, nitrogen metabolism, starch and sucrose metabolism, glycolysis and plant hormone signal transduction. KEGG (Kyoto Encyclopedia of Genes and Genomes) analysis indicated that most genes related to flavonoid biosynthesis, oxidative phosphorylation, amino acid metabolism and biosynthesis as well as circadian rhythm pathways were differently expressed. Waterlogging increased the expression of anaerobic fermentation related genes, such as alcohol dehydrogenase (ADH), but decreased the leaf chlorophyll concentration and photosynthesis by down-regulating the expression of photosynthesis related genes. Many genes related to plant hormones and transcription factors were differently expressed under waterlogging stress. Most of the ethylene related genes and ethylene-responsive factor-type transcription factors were up-regulated under water-logging stress, suggesting that ethylene may play key roles in the survival of cotton under waterlogging stress. |
| doi_str_mv | 10.1371/journal.pone.0185075 |
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To date, the molecular mechanisms underlying the responses to waterlogging in cotton remain elusive. Cotton was grown in a rain-shelter and subjected to 0 (control)-, 10-, 15- and 20-d waterlogging at flowering stage. The fourth-leaves on the main-stem from the top were sampled and immediately frozen in liquid nitrogen for physiological measurement. Global gene transcription in the leaves of 15-d waterlogged plants was analyzed by RNA-Seq. Seven hundred and ninety four genes were up-regulated and 1018 genes were down-regulated in waterlogged cotton leaves compared with non-waterlogged control. The differentially expressed genes were mainly related to photosynthesis, nitrogen metabolism, starch and sucrose metabolism, glycolysis and plant hormone signal transduction. KEGG (Kyoto Encyclopedia of Genes and Genomes) analysis indicated that most genes related to flavonoid biosynthesis, oxidative phosphorylation, amino acid metabolism and biosynthesis as well as circadian rhythm pathways were differently expressed. Waterlogging increased the expression of anaerobic fermentation related genes, such as alcohol dehydrogenase (ADH), but decreased the leaf chlorophyll concentration and photosynthesis by down-regulating the expression of photosynthesis related genes. Many genes related to plant hormones and transcription factors were differently expressed under waterlogging stress. Most of the ethylene related genes and ethylene-responsive factor-type transcription factors were up-regulated under water-logging stress, suggesting that ethylene may play key roles in the survival of cotton under waterlogging stress.</description><identifier>ISSN: 1932-6203</identifier><identifier>EISSN: 1932-6203</identifier><identifier>DOI: 10.1371/journal.pone.0185075</identifier><identifier>PMID: 28953908</identifier><language>eng</language><publisher>United States: Public Library of Science</publisher><subject>Abiotic stress ; Abscisic acid ; Agricultural production ; Alcohol dehydrogenase ; Alcoholic beverages ; Amino acids ; Biology ; Biology and Life Sciences ; Biosynthesis ; Carbohydrate Metabolism - drug effects ; Carbon - metabolism ; Chlorophyll ; Circadian rhythms ; Cotton ; Cotton (Plant) ; Down-Regulation - drug effects ; Ecology and Environmental Sciences ; Encyclopedias ; Environmental aspects ; Ethylene ; Fermentation ; Floods ; Flowering ; Gene expression ; Gene Expression Profiling ; Gene Expression Regulation, Plant - drug effects ; Genes ; Genetic aspects ; Genomes ; Glycolysis ; Gossypium - drug effects ; Gossypium - genetics ; Gossypium - metabolism ; Gossypium - physiology ; Hormones ; Hypoxia ; Leaves ; Life sciences ; Liquid nitrogen ; Metabolism ; Molecular modelling ; Nitric oxide ; Nitric Oxide - biosynthesis ; Nitric Oxide - metabolism ; Nitrogen ; Nitrogen metabolism ; Oxidative metabolism ; Oxidative phosphorylation ; Phosphorylation ; Photosynthesis ; Physiological aspects ; Physiology ; Plant hormones ; Plant Leaves - genetics ; Plants (botany) ; Rain ; Ribonucleic acid ; Rice ; RNA ; Sequence Analysis, RNA ; Shelters ; Solubility ; Starch ; Stress ; Stress, Physiological - drug effects ; Stress, Physiological - genetics ; Stresses ; Studies ; Sucrose ; Sugar ; Transcription factors ; Transduction ; Water - pharmacology ; Waterlogging</subject><ispartof>PloS one, 2017-09, Vol.12 (9), p.e0185075</ispartof><rights>COPYRIGHT 2017 Public Library of Science</rights><rights>2017 Zhang et al. This is an open access article distributed under the terms of the Creative Commons Attribution License: http://creativecommons.org/licenses/by/4.0/ (the “License”), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><rights>2017 Zhang et al 2017 Zhang et al</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c593t-9219fb178963adb015ce1c2ae259e1206ee31034d94637592bbf956ebc2064d33</citedby><cites>FETCH-LOGICAL-c593t-9219fb178963adb015ce1c2ae259e1206ee31034d94637592bbf956ebc2064d33</cites><orcidid>0000-0003-4964-1784</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC5617174/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC5617174/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,723,776,780,860,881,2096,2915,23845,27901,27902,53766,53768,79569,79570</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/28953908$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Zhang, Yanjun</creatorcontrib><creatorcontrib>Kong, Xiangqiang</creatorcontrib><creatorcontrib>Dai, Jianlong</creatorcontrib><creatorcontrib>Luo, Zhen</creatorcontrib><creatorcontrib>Li, Zhenhuai</creatorcontrib><creatorcontrib>Lu, Hequan</creatorcontrib><creatorcontrib>Xu, Shizhen</creatorcontrib><creatorcontrib>Tang, Wei</creatorcontrib><creatorcontrib>Zhang, Dongmei</creatorcontrib><creatorcontrib>Li, Weijiang</creatorcontrib><creatorcontrib>Xin, Chengsong</creatorcontrib><creatorcontrib>Dong, Hezhong</creatorcontrib><title>Global gene expression in cotton (Gossypium hirsutum L.) leaves to waterlogging stress</title><title>PloS one</title><addtitle>PLoS One</addtitle><description>Cotton is sensitive to waterlogging stress, which usually results in stunted growth and yield loss. To date, the molecular mechanisms underlying the responses to waterlogging in cotton remain elusive. Cotton was grown in a rain-shelter and subjected to 0 (control)-, 10-, 15- and 20-d waterlogging at flowering stage. The fourth-leaves on the main-stem from the top were sampled and immediately frozen in liquid nitrogen for physiological measurement. Global gene transcription in the leaves of 15-d waterlogged plants was analyzed by RNA-Seq. Seven hundred and ninety four genes were up-regulated and 1018 genes were down-regulated in waterlogged cotton leaves compared with non-waterlogged control. The differentially expressed genes were mainly related to photosynthesis, nitrogen metabolism, starch and sucrose metabolism, glycolysis and plant hormone signal transduction. KEGG (Kyoto Encyclopedia of Genes and Genomes) analysis indicated that most genes related to flavonoid biosynthesis, oxidative phosphorylation, amino acid metabolism and biosynthesis as well as circadian rhythm pathways were differently expressed. Waterlogging increased the expression of anaerobic fermentation related genes, such as alcohol dehydrogenase (ADH), but decreased the leaf chlorophyll concentration and photosynthesis by down-regulating the expression of photosynthesis related genes. Many genes related to plant hormones and transcription factors were differently expressed under waterlogging stress. Most of the ethylene related genes and ethylene-responsive factor-type transcription factors were up-regulated under water-logging stress, suggesting that ethylene may play key roles in the survival of cotton under waterlogging stress.</description><subject>Abiotic stress</subject><subject>Abscisic acid</subject><subject>Agricultural production</subject><subject>Alcohol dehydrogenase</subject><subject>Alcoholic beverages</subject><subject>Amino acids</subject><subject>Biology</subject><subject>Biology and Life Sciences</subject><subject>Biosynthesis</subject><subject>Carbohydrate Metabolism - drug effects</subject><subject>Carbon - metabolism</subject><subject>Chlorophyll</subject><subject>Circadian rhythms</subject><subject>Cotton</subject><subject>Cotton (Plant)</subject><subject>Down-Regulation - drug effects</subject><subject>Ecology and Environmental Sciences</subject><subject>Encyclopedias</subject><subject>Environmental aspects</subject><subject>Ethylene</subject><subject>Fermentation</subject><subject>Floods</subject><subject>Flowering</subject><subject>Gene expression</subject><subject>Gene Expression Profiling</subject><subject>Gene Expression Regulation, Plant - drug effects</subject><subject>Genes</subject><subject>Genetic aspects</subject><subject>Genomes</subject><subject>Glycolysis</subject><subject>Gossypium - drug effects</subject><subject>Gossypium - genetics</subject><subject>Gossypium - metabolism</subject><subject>Gossypium - physiology</subject><subject>Hormones</subject><subject>Hypoxia</subject><subject>Leaves</subject><subject>Life sciences</subject><subject>Liquid nitrogen</subject><subject>Metabolism</subject><subject>Molecular modelling</subject><subject>Nitric oxide</subject><subject>Nitric Oxide - biosynthesis</subject><subject>Nitric Oxide - metabolism</subject><subject>Nitrogen</subject><subject>Nitrogen metabolism</subject><subject>Oxidative metabolism</subject><subject>Oxidative phosphorylation</subject><subject>Phosphorylation</subject><subject>Photosynthesis</subject><subject>Physiological aspects</subject><subject>Physiology</subject><subject>Plant hormones</subject><subject>Plant Leaves - genetics</subject><subject>Plants (botany)</subject><subject>Rain</subject><subject>Ribonucleic acid</subject><subject>Rice</subject><subject>RNA</subject><subject>Sequence Analysis, RNA</subject><subject>Shelters</subject><subject>Solubility</subject><subject>Starch</subject><subject>Stress</subject><subject>Stress, Physiological - drug effects</subject><subject>Stress, Physiological - genetics</subject><subject>Stresses</subject><subject>Studies</subject><subject>Sucrose</subject><subject>Sugar</subject><subject>Transcription factors</subject><subject>Transduction</subject><subject>Water - pharmacology</subject><subject>Waterlogging</subject><issn>1932-6203</issn><issn>1932-6203</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2017</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>BENPR</sourceid><sourceid>DOA</sourceid><recordid>eNp1Uk1v1DAUjBCIlsI_QBCJSzls8EfsxJdKVVWWSitxAa6W7TynXiXxYjuF_nu8bFp1JZAPfnpvZjy2pyjeYlRh2uBPWz-HSQ3Vzk9QIdwy1LBnxSkWlKw4QfT5k_qkeBXjFiFGW85fFiekFYwK1J4WP9aD12ooe5ighN-7ADE6P5VuKo1PKVfnax_j_c7NY3nrQpxTLjbVx3IAdQexTL78pRKEwfe9m_oypr3E6-KFVUOEN8t-Vnz_fP3t6stq83V9c3W5WRkmaFoJgoXVuGkFp6rTCDMD2BAFhAnABHEAihGtO1Fz2jBBtLaCcdAmz-qO0rPi_UF3N_golyeJEouacix422TEzQHRebWVu-BGFe6lV07-bfjQSxWSMwPImrRE1QQ3uLG1tlZzag0ymjeKtFjbrHWxnDbrEToDUwpqOBI9nkzuVvb-TjK-F62zwIdFIPifM8T0H8sLqlfZlZusz2JmdNHIS4YyosnAjKr-gcqrg9GZHArrcv-IUB8IJuQfDWAfjWMk95F6MCP3kZJLpDLt3dNLP5IeMkT_AB0CyQc</recordid><startdate>20170927</startdate><enddate>20170927</enddate><creator>Zhang, Yanjun</creator><creator>Kong, Xiangqiang</creator><creator>Dai, Jianlong</creator><creator>Luo, Zhen</creator><creator>Li, Zhenhuai</creator><creator>Lu, Hequan</creator><creator>Xu, Shizhen</creator><creator>Tang, Wei</creator><creator>Zhang, Dongmei</creator><creator>Li, Weijiang</creator><creator>Xin, Chengsong</creator><creator>Dong, Hezhong</creator><general>Public Library of Science</general><general>Public Library of Science (PLoS)</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>3V.</scope><scope>7QG</scope><scope>7QL</scope><scope>7QO</scope><scope>7RV</scope><scope>7SN</scope><scope>7SS</scope><scope>7T5</scope><scope>7TG</scope><scope>7TM</scope><scope>7U9</scope><scope>7X2</scope><scope>7X7</scope><scope>7XB</scope><scope>88E</scope><scope>8AO</scope><scope>8C1</scope><scope>8FD</scope><scope>8FE</scope><scope>8FG</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABJCF</scope><scope>ABUWG</scope><scope>AEUYN</scope><scope>AFKRA</scope><scope>ARAPS</scope><scope>ATCPS</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BGLVJ</scope><scope>BHPHI</scope><scope>C1K</scope><scope>CCPQU</scope><scope>D1I</scope><scope>DWQXO</scope><scope>FR3</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>H94</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>KB.</scope><scope>KB0</scope><scope>KL.</scope><scope>L6V</scope><scope>LK8</scope><scope>M0K</scope><scope>M0S</scope><scope>M1P</scope><scope>M7N</scope><scope>M7P</scope><scope>M7S</scope><scope>NAPCQ</scope><scope>P5Z</scope><scope>P62</scope><scope>P64</scope><scope>PATMY</scope><scope>PDBOC</scope><scope>PIMPY</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PTHSS</scope><scope>PYCSY</scope><scope>RC3</scope><scope>5PM</scope><scope>DOA</scope><orcidid>https://orcid.org/0000-0003-4964-1784</orcidid></search><sort><creationdate>20170927</creationdate><title>Global gene expression in cotton (Gossypium hirsutum L.) leaves to waterlogging stress</title><author>Zhang, Yanjun ; Kong, Xiangqiang ; Dai, Jianlong ; Luo, Zhen ; Li, Zhenhuai ; Lu, Hequan ; Xu, Shizhen ; Tang, Wei ; Zhang, Dongmei ; Li, Weijiang ; Xin, Chengsong ; Dong, Hezhong</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c593t-9219fb178963adb015ce1c2ae259e1206ee31034d94637592bbf956ebc2064d33</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2017</creationdate><topic>Abiotic stress</topic><topic>Abscisic acid</topic><topic>Agricultural production</topic><topic>Alcohol dehydrogenase</topic><topic>Alcoholic beverages</topic><topic>Amino acids</topic><topic>Biology</topic><topic>Biology and Life Sciences</topic><topic>Biosynthesis</topic><topic>Carbohydrate Metabolism - 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To date, the molecular mechanisms underlying the responses to waterlogging in cotton remain elusive. Cotton was grown in a rain-shelter and subjected to 0 (control)-, 10-, 15- and 20-d waterlogging at flowering stage. The fourth-leaves on the main-stem from the top were sampled and immediately frozen in liquid nitrogen for physiological measurement. Global gene transcription in the leaves of 15-d waterlogged plants was analyzed by RNA-Seq. Seven hundred and ninety four genes were up-regulated and 1018 genes were down-regulated in waterlogged cotton leaves compared with non-waterlogged control. The differentially expressed genes were mainly related to photosynthesis, nitrogen metabolism, starch and sucrose metabolism, glycolysis and plant hormone signal transduction. KEGG (Kyoto Encyclopedia of Genes and Genomes) analysis indicated that most genes related to flavonoid biosynthesis, oxidative phosphorylation, amino acid metabolism and biosynthesis as well as circadian rhythm pathways were differently expressed. Waterlogging increased the expression of anaerobic fermentation related genes, such as alcohol dehydrogenase (ADH), but decreased the leaf chlorophyll concentration and photosynthesis by down-regulating the expression of photosynthesis related genes. Many genes related to plant hormones and transcription factors were differently expressed under waterlogging stress. Most of the ethylene related genes and ethylene-responsive factor-type transcription factors were up-regulated under water-logging stress, suggesting that ethylene may play key roles in the survival of cotton under waterlogging stress.</abstract><cop>United States</cop><pub>Public Library of Science</pub><pmid>28953908</pmid><doi>10.1371/journal.pone.0185075</doi><orcidid>https://orcid.org/0000-0003-4964-1784</orcidid><oa>free_for_read</oa></addata></record> |
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| language | eng |
| recordid | cdi_plos_journals_1943619687 |
| source | Public Library of Science (PLoS) Journals Open Access; MEDLINE; DOAJ Directory of Open Access Journals; Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals; PubMed Central; Free Full-Text Journals in Chemistry |
| subjects | Abiotic stress Abscisic acid Agricultural production Alcohol dehydrogenase Alcoholic beverages Amino acids Biology Biology and Life Sciences Biosynthesis Carbohydrate Metabolism - drug effects Carbon - metabolism Chlorophyll Circadian rhythms Cotton Cotton (Plant) Down-Regulation - drug effects Ecology and Environmental Sciences Encyclopedias Environmental aspects Ethylene Fermentation Floods Flowering Gene expression Gene Expression Profiling Gene Expression Regulation, Plant - drug effects Genes Genetic aspects Genomes Glycolysis Gossypium - drug effects Gossypium - genetics Gossypium - metabolism Gossypium - physiology Hormones Hypoxia Leaves Life sciences Liquid nitrogen Metabolism Molecular modelling Nitric oxide Nitric Oxide - biosynthesis Nitric Oxide - metabolism Nitrogen Nitrogen metabolism Oxidative metabolism Oxidative phosphorylation Phosphorylation Photosynthesis Physiological aspects Physiology Plant hormones Plant Leaves - genetics Plants (botany) Rain Ribonucleic acid Rice RNA Sequence Analysis, RNA Shelters Solubility Starch Stress Stress, Physiological - drug effects Stress, Physiological - genetics Stresses Studies Sucrose Sugar Transcription factors Transduction Water - pharmacology Waterlogging |
| title | Global gene expression in cotton (Gossypium hirsutum L.) leaves to waterlogging stress |
| url | https://sfx.bib-bvb.de/sfx_tum?ctx_ver=Z39.88-2004&ctx_enc=info:ofi/enc:UTF-8&ctx_tim=2025-02-14T10%3A11%3A26IST&url_ver=Z39.88-2004&url_ctx_fmt=infofi/fmt:kev:mtx:ctx&rfr_id=info:sid/primo.exlibrisgroup.com:primo3-Article-gale_plos_&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.genre=article&rft.atitle=Global%20gene%20expression%20in%20cotton%20(Gossypium%20hirsutum%20L.)%20leaves%20to%20waterlogging%20stress&rft.jtitle=PloS%20one&rft.au=Zhang,%20Yanjun&rft.date=2017-09-27&rft.volume=12&rft.issue=9&rft.spage=e0185075&rft.pages=e0185075-&rft.issn=1932-6203&rft.eissn=1932-6203&rft_id=info:doi/10.1371/journal.pone.0185075&rft_dat=%3Cgale_plos_%3EA506877619%3C/gale_plos_%3E%3Curl%3E%3C/url%3E&disable_directlink=true&sfx.directlink=off&sfx.report_link=0&rft_id=info:oai/&rft_pqid=1943619687&rft_id=info:pmid/28953908&rft_galeid=A506877619&rft_doaj_id=oai_doaj_org_article_4282a421717f4bffb63fc0cb67a281bf&rfr_iscdi=true |