Transcriptome profiling of sugarcane roots in response to low potassium stress
Sugarcane is the most important crop for supplying sugar. Due to its high biomass, sugarcane needs to absorb a large amount of potassium (K) throughout its lifecycle. In South China, a deficiency of K available in soil restricts the production of sugarcane. Increasing the tolerance of sugarcane to l...
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| creator | Zeng, Qiaoying Ling, Qiuping Fan, Lina Li, Yu Hu, Fei Chen, Jianwen Huang, Zhenrui Deng, Haihua Li, Qiwei Qi, Yongwen |
| description | Sugarcane is the most important crop for supplying sugar. Due to its high biomass, sugarcane needs to absorb a large amount of potassium (K) throughout its lifecycle. In South China, a deficiency of K available in soil restricts the production of sugarcane. Increasing the tolerance of sugarcane to low-K will be an effective approach for improving survival of the crop in this area. However, there is little information regarding the mechanism of tolerance to low-K stress in sugarcane. In this study, a customized microarray was used to analyze the changes in the level of transcripts of sugarcane genes 8 h, 24 h and 72 h after exposure to low-K conditions. We identified a total of 4153 genes that were differentially expressed in at least one of the three time points. The number of genes responding to low-K stress at 72 h was almost 2-fold more than the numbers at 8 h and 24 h. Gene ontology (GO) analysis revealed that many genes involved in metabolic, developmental and biological regulatory processes displayed changes in the level of transcripts in response to low-K stress. Additionally, we detected differential expression of transcription factors, transporters, kinases, oxidative stress-related genes and genes in Ca+ and ethylene signaling pathways; these proteins might play crucial roles in improving the tolerance of sugarcane to low-K stress. The results of this study will help to better understand the molecular mechanisms of sugarcane tolerance to low-K. |
| doi_str_mv | 10.1371/journal.pone.0126306 |
| format | Article |
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Due to its high biomass, sugarcane needs to absorb a large amount of potassium (K) throughout its lifecycle. In South China, a deficiency of K available in soil restricts the production of sugarcane. Increasing the tolerance of sugarcane to low-K will be an effective approach for improving survival of the crop in this area. However, there is little information regarding the mechanism of tolerance to low-K stress in sugarcane. In this study, a customized microarray was used to analyze the changes in the level of transcripts of sugarcane genes 8 h, 24 h and 72 h after exposure to low-K conditions. We identified a total of 4153 genes that were differentially expressed in at least one of the three time points. The number of genes responding to low-K stress at 72 h was almost 2-fold more than the numbers at 8 h and 24 h. Gene ontology (GO) analysis revealed that many genes involved in metabolic, developmental and biological regulatory processes displayed changes in the level of transcripts in response to low-K stress. Additionally, we detected differential expression of transcription factors, transporters, kinases, oxidative stress-related genes and genes in Ca+ and ethylene signaling pathways; these proteins might play crucial roles in improving the tolerance of sugarcane to low-K stress. The results of this study will help to better understand the molecular mechanisms of sugarcane tolerance to low-K.</description><identifier>ISSN: 1932-6203</identifier><identifier>EISSN: 1932-6203</identifier><identifier>DOI: 10.1371/journal.pone.0126306</identifier><identifier>PMID: 25955765</identifier><language>eng</language><publisher>United States: Public Library of Science</publisher><subject>Analysis ; Arabidopsis ; Barley ; Biological activity ; Brassica napus ; Crops ; DNA binding proteins ; DNA microarrays ; Gene expression ; Gene Expression Profiling - methods ; Gene Expression Regulation, Plant ; Gene Ontology ; Genes ; Glycine max ; Homeostasis ; Industrial research ; Kinases ; Life cycle analysis ; Metabolism ; Molecular modelling ; Nitrates ; Oligonucleotide Array Sequence Analysis - methods ; Oryza ; Oxidative stress ; Physiology ; Plant Proteins - genetics ; Plant Roots - genetics ; Plant Roots - growth & development ; Potassium ; Potassium - metabolism ; Proteins ; Saccharum - anatomy & histology ; Saccharum - genetics ; Saccharum - growth & development ; Saccharum officinarum ; Signal transduction ; Signaling ; Stress, Physiological ; Sugar ; Sugarcane ; Transcription (Genetics) ; Transcription factors</subject><ispartof>PloS one, 2015-05, Vol.10 (5), p.e0126306-e0126306</ispartof><rights>COPYRIGHT 2015 Public Library of Science</rights><rights>2015 Zeng 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>2015 Zeng et al 2015 Zeng et al</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c692t-43eab356caa8931b0bba0564383671b419e285a4766c69f14aea922e92fd882d3</citedby><cites>FETCH-LOGICAL-c692t-43eab356caa8931b0bba0564383671b419e285a4766c69f14aea922e92fd882d3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC4425431/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC4425431/$$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/25955765$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Zeng, Qiaoying</creatorcontrib><creatorcontrib>Ling, Qiuping</creatorcontrib><creatorcontrib>Fan, Lina</creatorcontrib><creatorcontrib>Li, Yu</creatorcontrib><creatorcontrib>Hu, Fei</creatorcontrib><creatorcontrib>Chen, Jianwen</creatorcontrib><creatorcontrib>Huang, Zhenrui</creatorcontrib><creatorcontrib>Deng, Haihua</creatorcontrib><creatorcontrib>Li, Qiwei</creatorcontrib><creatorcontrib>Qi, Yongwen</creatorcontrib><title>Transcriptome profiling of sugarcane roots in response to low potassium stress</title><title>PloS one</title><addtitle>PLoS One</addtitle><description>Sugarcane is the most important crop for supplying sugar. Due to its high biomass, sugarcane needs to absorb a large amount of potassium (K) throughout its lifecycle. In South China, a deficiency of K available in soil restricts the production of sugarcane. Increasing the tolerance of sugarcane to low-K will be an effective approach for improving survival of the crop in this area. However, there is little information regarding the mechanism of tolerance to low-K stress in sugarcane. In this study, a customized microarray was used to analyze the changes in the level of transcripts of sugarcane genes 8 h, 24 h and 72 h after exposure to low-K conditions. We identified a total of 4153 genes that were differentially expressed in at least one of the three time points. The number of genes responding to low-K stress at 72 h was almost 2-fold more than the numbers at 8 h and 24 h. Gene ontology (GO) analysis revealed that many genes involved in metabolic, developmental and biological regulatory processes displayed changes in the level of transcripts in response to low-K stress. Additionally, we detected differential expression of transcription factors, transporters, kinases, oxidative stress-related genes and genes in Ca+ and ethylene signaling pathways; these proteins might play crucial roles in improving the tolerance of sugarcane to low-K stress. The results of this study will help to better understand the molecular mechanisms of sugarcane tolerance to low-K.</description><subject>Analysis</subject><subject>Arabidopsis</subject><subject>Barley</subject><subject>Biological activity</subject><subject>Brassica napus</subject><subject>Crops</subject><subject>DNA binding proteins</subject><subject>DNA microarrays</subject><subject>Gene expression</subject><subject>Gene Expression Profiling - methods</subject><subject>Gene Expression Regulation, Plant</subject><subject>Gene Ontology</subject><subject>Genes</subject><subject>Glycine max</subject><subject>Homeostasis</subject><subject>Industrial research</subject><subject>Kinases</subject><subject>Life cycle analysis</subject><subject>Metabolism</subject><subject>Molecular modelling</subject><subject>Nitrates</subject><subject>Oligonucleotide Array Sequence Analysis - methods</subject><subject>Oryza</subject><subject>Oxidative stress</subject><subject>Physiology</subject><subject>Plant Proteins - genetics</subject><subject>Plant Roots - genetics</subject><subject>Plant Roots - growth & development</subject><subject>Potassium</subject><subject>Potassium - metabolism</subject><subject>Proteins</subject><subject>Saccharum - anatomy & histology</subject><subject>Saccharum - genetics</subject><subject>Saccharum - growth & development</subject><subject>Saccharum officinarum</subject><subject>Signal transduction</subject><subject>Signaling</subject><subject>Stress, Physiological</subject><subject>Sugar</subject><subject>Sugarcane</subject><subject>Transcription (Genetics)</subject><subject>Transcription factors</subject><issn>1932-6203</issn><issn>1932-6203</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2015</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>BENPR</sourceid><sourceid>DOA</sourceid><recordid>eNqNkl2L1DAYhYso7rr6D0QLgujFjPlqmtwIy-LHwOKCrt6Gt2naydA2NUn9-PdmnO4ylb2QXrQkzzlvc3Ky7ClGa0xL_GbnJj9Atx7dYNYIE04Rv5edYknJihNE7x99n2SPQtghVFDB-cPshBSyKEpenGafrj0MQXs7RtebfPSusZ0d2tw1eZha8BoGk3vnYsjtkHsT0rxg8ujyzv3MRxchBDv1eYhpLzzOHjTQBfNkfp9lX9-_u774uLq8-rC5OL9caS5JXDFqoKIF1wBCUlyhqgJUcEYF5SWuGJaGiAJYyXkSNJiBAUmIkaSphSA1PcueH3zHzgU1RxEUloIUgiFJE7E5ELWDnRq97cH_Vg6s-rvgfKvAR6s7oxhlkpSE1JKVrJFIYMlpo6UG3VRUoOT1dp42Vb2ptRmih25hutwZ7Fa17odijBSM4mTwajbw7vtkQlS9Ddp0XQrXTem_uUAElQKJhL74B737dDPVQjqAHRqX5uq9qTpPA2UKi-291ndQ6alNb3XqTbprsxS8XggSE82v2MIUgtp8-fz_7NW3JfvyiN0a6OI2uG6KNpVpCbIDqL0LwZvmNmSM1L72N2mofe3VXPske3Z8Qbeim57TPx7-_Gg</recordid><startdate>20150508</startdate><enddate>20150508</enddate><creator>Zeng, Qiaoying</creator><creator>Ling, Qiuping</creator><creator>Fan, Lina</creator><creator>Li, Yu</creator><creator>Hu, Fei</creator><creator>Chen, Jianwen</creator><creator>Huang, Zhenrui</creator><creator>Deng, Haihua</creator><creator>Li, Qiwei</creator><creator>Qi, Yongwen</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>IOV</scope><scope>ISR</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>PHGZM</scope><scope>PHGZT</scope><scope>PIMPY</scope><scope>PJZUB</scope><scope>PKEHL</scope><scope>PPXIY</scope><scope>PQEST</scope><scope>PQGLB</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PRINS</scope><scope>PTHSS</scope><scope>PYCSY</scope><scope>RC3</scope><scope>7X8</scope><scope>5PM</scope><scope>DOA</scope></search><sort><creationdate>20150508</creationdate><title>Transcriptome profiling of sugarcane roots in response to low potassium stress</title><author>Zeng, Qiaoying ; Ling, Qiuping ; Fan, Lina ; Li, Yu ; Hu, Fei ; Chen, Jianwen ; Huang, Zhenrui ; Deng, Haihua ; Li, Qiwei ; Qi, Yongwen</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c692t-43eab356caa8931b0bba0564383671b419e285a4766c69f14aea922e92fd882d3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2015</creationdate><topic>Analysis</topic><topic>Arabidopsis</topic><topic>Barley</topic><topic>Biological activity</topic><topic>Brassica napus</topic><topic>Crops</topic><topic>DNA binding proteins</topic><topic>DNA microarrays</topic><topic>Gene expression</topic><topic>Gene Expression Profiling - 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Academic</collection><collection>PubMed Central (Full Participant titles)</collection><collection>DOAJ Directory of Open Access Journals</collection><jtitle>PloS one</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Zeng, Qiaoying</au><au>Ling, Qiuping</au><au>Fan, Lina</au><au>Li, Yu</au><au>Hu, Fei</au><au>Chen, Jianwen</au><au>Huang, Zhenrui</au><au>Deng, Haihua</au><au>Li, Qiwei</au><au>Qi, Yongwen</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Transcriptome profiling of sugarcane roots in response to low potassium stress</atitle><jtitle>PloS one</jtitle><addtitle>PLoS One</addtitle><date>2015-05-08</date><risdate>2015</risdate><volume>10</volume><issue>5</issue><spage>e0126306</spage><epage>e0126306</epage><pages>e0126306-e0126306</pages><issn>1932-6203</issn><eissn>1932-6203</eissn><abstract>Sugarcane is the most important crop for supplying sugar. Due to its high biomass, sugarcane needs to absorb a large amount of potassium (K) throughout its lifecycle. In South China, a deficiency of K available in soil restricts the production of sugarcane. Increasing the tolerance of sugarcane to low-K will be an effective approach for improving survival of the crop in this area. However, there is little information regarding the mechanism of tolerance to low-K stress in sugarcane. In this study, a customized microarray was used to analyze the changes in the level of transcripts of sugarcane genes 8 h, 24 h and 72 h after exposure to low-K conditions. We identified a total of 4153 genes that were differentially expressed in at least one of the three time points. The number of genes responding to low-K stress at 72 h was almost 2-fold more than the numbers at 8 h and 24 h. Gene ontology (GO) analysis revealed that many genes involved in metabolic, developmental and biological regulatory processes displayed changes in the level of transcripts in response to low-K stress. Additionally, we detected differential expression of transcription factors, transporters, kinases, oxidative stress-related genes and genes in Ca+ and ethylene signaling pathways; these proteins might play crucial roles in improving the tolerance of sugarcane to low-K stress. The results of this study will help to better understand the molecular mechanisms of sugarcane tolerance to low-K.</abstract><cop>United States</cop><pub>Public Library of Science</pub><pmid>25955765</pmid><doi>10.1371/journal.pone.0126306</doi><tpages>e0126306</tpages><oa>free_for_read</oa></addata></record> |
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| issn | 1932-6203 1932-6203 |
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| subjects | Analysis Arabidopsis Barley Biological activity Brassica napus Crops DNA binding proteins DNA microarrays Gene expression Gene Expression Profiling - methods Gene Expression Regulation, Plant Gene Ontology Genes Glycine max Homeostasis Industrial research Kinases Life cycle analysis Metabolism Molecular modelling Nitrates Oligonucleotide Array Sequence Analysis - methods Oryza Oxidative stress Physiology Plant Proteins - genetics Plant Roots - genetics Plant Roots - growth & development Potassium Potassium - metabolism Proteins Saccharum - anatomy & histology Saccharum - genetics Saccharum - growth & development Saccharum officinarum Signal transduction Signaling Stress, Physiological Sugar Sugarcane Transcription (Genetics) Transcription factors |
| title | Transcriptome profiling of sugarcane roots in response to low potassium stress |
| url | https://sfx.bib-bvb.de/sfx_tum?ctx_ver=Z39.88-2004&ctx_enc=info:ofi/enc:UTF-8&ctx_tim=2025-02-19T02%3A20%3A55IST&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=Transcriptome%20profiling%20of%20sugarcane%20roots%20in%20response%20to%20low%20potassium%20stress&rft.jtitle=PloS%20one&rft.au=Zeng,%20Qiaoying&rft.date=2015-05-08&rft.volume=10&rft.issue=5&rft.spage=e0126306&rft.epage=e0126306&rft.pages=e0126306-e0126306&rft.issn=1932-6203&rft.eissn=1932-6203&rft_id=info:doi/10.1371/journal.pone.0126306&rft_dat=%3Cgale_plos_%3EA431992248%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=1982584093&rft_id=info:pmid/25955765&rft_galeid=A431992248&rft_doaj_id=oai_doaj_org_article_43492722d9474f9081963fc9cacfb380&rfr_iscdi=true |