Whole genome wide expression profiles on germination of Verticillium dahliae microsclerotia
Verticillium dahliae is a fungal pathogen causing Verticillium wilt on a range of economically important crops. Microsclerotia are its main survival and dormancy structures and serve as the primary inoculum on many hosts. Studies were conducted to determine the effect of temperature (5 to 50°C), pH...
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| description | Verticillium dahliae is a fungal pathogen causing Verticillium wilt on a range of economically important crops. Microsclerotia are its main survival and dormancy structures and serve as the primary inoculum on many hosts. Studies were conducted to determine the effect of temperature (5 to 50°C), pH (2 to 12) and nutrient regimes on microsclerotia germination. The optimal condition for microsclerotium germination was 20°C with pH 8.0 whereas nutrient regimes had no significant effect on its germination. The whole genome wide expression profiles during microsclerotium germination were characterized using the Illumina sequencing technology. Approximately 7.4 million of 21-nt cDNA tags were sequenced in the cDNA libraries derived from germinated and non-germinated microsclerotia. About 3.9% and 2.3% of the unique tags were up-regulated and down-regulated at least five-fold, respectively, in the germinated microsclerotia compared with the non-germinated microsclerotia. A total of 1654 genes showing differential expression were identified. Genes that are likely to have played important roles in microsclerotium germination include those encoding G-protein coupled receptor, lipase/esterase, cyclopentanone 1,2-monooxygenase, H(+)/hexose cotransporter 1, fungal Zn(2)-Cys(6) binuclear cluster domain, thymus-specific serine protease, glucan 1,3-beta-glucosidase, and alcohol dehydrogenase. These genes were mainly up-regulated or down-regulated only in germinated microsclerotia, compared with non-germinated microsclerotia. The differential expression of genes was confirmed by qRT-PCR analysis of 20 randomly selected genes from the 40 most differentially expressed genes. |
| doi_str_mv | 10.1371/journal.pone.0100046 |
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Microsclerotia are its main survival and dormancy structures and serve as the primary inoculum on many hosts. Studies were conducted to determine the effect of temperature (5 to 50°C), pH (2 to 12) and nutrient regimes on microsclerotia germination. The optimal condition for microsclerotium germination was 20°C with pH 8.0 whereas nutrient regimes had no significant effect on its germination. The whole genome wide expression profiles during microsclerotium germination were characterized using the Illumina sequencing technology. Approximately 7.4 million of 21-nt cDNA tags were sequenced in the cDNA libraries derived from germinated and non-germinated microsclerotia. About 3.9% and 2.3% of the unique tags were up-regulated and down-regulated at least five-fold, respectively, in the germinated microsclerotia compared with the non-germinated microsclerotia. A total of 1654 genes showing differential expression were identified. Genes that are likely to have played important roles in microsclerotium germination include those encoding G-protein coupled receptor, lipase/esterase, cyclopentanone 1,2-monooxygenase, H(+)/hexose cotransporter 1, fungal Zn(2)-Cys(6) binuclear cluster domain, thymus-specific serine protease, glucan 1,3-beta-glucosidase, and alcohol dehydrogenase. These genes were mainly up-regulated or down-regulated only in germinated microsclerotia, compared with non-germinated microsclerotia. The differential expression of genes was confirmed by qRT-PCR analysis of 20 randomly selected genes from the 40 most differentially expressed genes.</description><identifier>ISSN: 1932-6203</identifier><identifier>EISSN: 1932-6203</identifier><identifier>DOI: 10.1371/journal.pone.0100046</identifier><identifier>PMID: 24927478</identifier><language>eng</language><publisher>United States: Public Library of Science</publisher><subject>Alcohol dehydrogenase ; Alcohols ; Analysis ; Aspergillus niger ; Biology ; Biology and Life Sciences ; Crop diseases ; Dormancy ; Drinking water ; Esterase ; Fungi ; G protein-coupled receptors ; Gene expression ; Gene Expression Regulation, Fungal ; Gene Library ; Genes ; Genes, Fungal ; Genomes ; Genomics ; Germination ; Glucan ; Glucan 1,3-b-glucosidase ; Glucosidase ; Hexose ; Inoculum ; Laboratories ; Lipase ; Monooxygenase ; Nutrients ; pH effects ; Physical Sciences ; Proteins ; Real-Time Polymerase Chain Reaction ; Serine ; Serine proteinase ; Spores, Fungal - genetics ; Spores, Fungal - growth & development ; Tags ; Temperature effects ; Thrombin ; Thymus ; Transcriptome ; Verticillium - genetics ; Verticillium - growth & development ; Verticillium dahliae ; Verticillium wilt ; Zinc</subject><ispartof>PloS one, 2014-06, Vol.9 (6), p.e100046</ispartof><rights>COPYRIGHT 2014 Public Library of Science</rights><rights>2014 Hu 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>2014 Hu et al 2014 Hu et al</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c692t-b46145467529789795f73b1c1c3be487d10188638bdb6d252b2624eb0cbf5cef3</citedby><cites>FETCH-LOGICAL-c692t-b46145467529789795f73b1c1c3be487d10188638bdb6d252b2624eb0cbf5cef3</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/PMC4057337/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC4057337/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,723,776,780,860,881,2096,2915,23845,27901,27902,53766,53768,79342,79343</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/24927478$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Hu, Dongfang</creatorcontrib><creatorcontrib>Wang, Chunsheng</creatorcontrib><creatorcontrib>Tao, Fei</creatorcontrib><creatorcontrib>Cui, Qian</creatorcontrib><creatorcontrib>Xu, Xiangming</creatorcontrib><creatorcontrib>Shang, Wenjing</creatorcontrib><creatorcontrib>Hu, Xiaoping</creatorcontrib><title>Whole genome wide expression profiles on germination of Verticillium dahliae microsclerotia</title><title>PloS one</title><addtitle>PLoS One</addtitle><description>Verticillium dahliae is a fungal pathogen causing Verticillium wilt on a range of economically important crops. Microsclerotia are its main survival and dormancy structures and serve as the primary inoculum on many hosts. Studies were conducted to determine the effect of temperature (5 to 50°C), pH (2 to 12) and nutrient regimes on microsclerotia germination. The optimal condition for microsclerotium germination was 20°C with pH 8.0 whereas nutrient regimes had no significant effect on its germination. The whole genome wide expression profiles during microsclerotium germination were characterized using the Illumina sequencing technology. Approximately 7.4 million of 21-nt cDNA tags were sequenced in the cDNA libraries derived from germinated and non-germinated microsclerotia. About 3.9% and 2.3% of the unique tags were up-regulated and down-regulated at least five-fold, respectively, in the germinated microsclerotia compared with the non-germinated microsclerotia. A total of 1654 genes showing differential expression were identified. Genes that are likely to have played important roles in microsclerotium germination include those encoding G-protein coupled receptor, lipase/esterase, cyclopentanone 1,2-monooxygenase, H(+)/hexose cotransporter 1, fungal Zn(2)-Cys(6) binuclear cluster domain, thymus-specific serine protease, glucan 1,3-beta-glucosidase, and alcohol dehydrogenase. These genes were mainly up-regulated or down-regulated only in germinated microsclerotia, compared with non-germinated microsclerotia. The differential expression of genes was confirmed by qRT-PCR analysis of 20 randomly selected genes from the 40 most differentially expressed genes.</description><subject>Alcohol dehydrogenase</subject><subject>Alcohols</subject><subject>Analysis</subject><subject>Aspergillus niger</subject><subject>Biology</subject><subject>Biology and Life Sciences</subject><subject>Crop diseases</subject><subject>Dormancy</subject><subject>Drinking water</subject><subject>Esterase</subject><subject>Fungi</subject><subject>G protein-coupled receptors</subject><subject>Gene expression</subject><subject>Gene Expression Regulation, Fungal</subject><subject>Gene Library</subject><subject>Genes</subject><subject>Genes, Fungal</subject><subject>Genomes</subject><subject>Genomics</subject><subject>Germination</subject><subject>Glucan</subject><subject>Glucan 1,3-b-glucosidase</subject><subject>Glucosidase</subject><subject>Hexose</subject><subject>Inoculum</subject><subject>Laboratories</subject><subject>Lipase</subject><subject>Monooxygenase</subject><subject>Nutrients</subject><subject>pH effects</subject><subject>Physical Sciences</subject><subject>Proteins</subject><subject>Real-Time Polymerase Chain Reaction</subject><subject>Serine</subject><subject>Serine proteinase</subject><subject>Spores, Fungal - genetics</subject><subject>Spores, Fungal - growth & development</subject><subject>Tags</subject><subject>Temperature effects</subject><subject>Thrombin</subject><subject>Thymus</subject><subject>Transcriptome</subject><subject>Verticillium - genetics</subject><subject>Verticillium - growth & development</subject><subject>Verticillium dahliae</subject><subject>Verticillium wilt</subject><subject>Zinc</subject><issn>1932-6203</issn><issn>1932-6203</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2014</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>BENPR</sourceid><sourceid>DOA</sourceid><recordid>eNqNk1uL1DAUx4so7rr6DUQLgujDjElza1-EZfEysLDgZX3wISTpaSdL2oxJq-u3N3W6y1T2QfKQkPzO_-TcsuwpRmtMBH5z5cfQK7fe-R7WCCOEKL-XHeOKFCteIHL_4HyUPYrxCiFGSs4fZkcFrQpBRXmcff-29Q7yFnrfQf7L1pDD9S5AjNb3-S74xjqIeTq3EDrbq2G6901-CWGwxjpnxy6v1dZZBXlnTfDROAh-sOpx9qBRLsKTeT_Jvr5_9-Xs4-r84sPm7PR8ZXhVDCtNOaaMcsGKSpSVqFgjiMYGG6KBlqLGCJclJ6WuNa8LVuiCFxQ0MrphBhpykj3f6-6cj3LOS5Q4qTHOOKKJ2OyJ2qsruQu2U-G39MrKvxc-tFJN4TiQTDeIQMVprSsqqroyRnOhuDJcs8LUSevt7G3UHdQG-iEotxBdvvR2K1v_U1LEBCEiCbyaBYL_MUIcZGejAedUD35M_2aE85JiNv37xT_o3dHNVKtSALZvfPJrJlF5SnHJWEEpSdT6DiqtGlLZUhNNlV4avF4YJGaA66FVY4xy8_nT_7MXl0v25QG7BeWGbfRunDorLkG6B6emigGa2yRjJKcZuMmGnGZAzjOQzJ4dFujW6KbpyR-QlwIj</recordid><startdate>20140613</startdate><enddate>20140613</enddate><creator>Hu, Dongfang</creator><creator>Wang, Chunsheng</creator><creator>Tao, Fei</creator><creator>Cui, Qian</creator><creator>Xu, Xiangming</creator><creator>Shang, Wenjing</creator><creator>Hu, Xiaoping</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>PIMPY</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PTHSS</scope><scope>PYCSY</scope><scope>RC3</scope><scope>7X8</scope><scope>5PM</scope><scope>DOA</scope></search><sort><creationdate>20140613</creationdate><title>Whole genome wide expression profiles on germination of Verticillium dahliae microsclerotia</title><author>Hu, Dongfang ; Wang, Chunsheng ; Tao, Fei ; Cui, Qian ; Xu, Xiangming ; Shang, Wenjing ; Hu, Xiaoping</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c692t-b46145467529789795f73b1c1c3be487d10188638bdb6d252b2624eb0cbf5cef3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2014</creationdate><topic>Alcohol dehydrogenase</topic><topic>Alcohols</topic><topic>Analysis</topic><topic>Aspergillus niger</topic><topic>Biology</topic><topic>Biology and Life Sciences</topic><topic>Crop diseases</topic><topic>Dormancy</topic><topic>Drinking water</topic><topic>Esterase</topic><topic>Fungi</topic><topic>G protein-coupled receptors</topic><topic>Gene expression</topic><topic>Gene Expression Regulation, Fungal</topic><topic>Gene Library</topic><topic>Genes</topic><topic>Genes, Fungal</topic><topic>Genomes</topic><topic>Genomics</topic><topic>Germination</topic><topic>Glucan</topic><topic>Glucan 1,3-b-glucosidase</topic><topic>Glucosidase</topic><topic>Hexose</topic><topic>Inoculum</topic><topic>Laboratories</topic><topic>Lipase</topic><topic>Monooxygenase</topic><topic>Nutrients</topic><topic>pH effects</topic><topic>Physical Sciences</topic><topic>Proteins</topic><topic>Real-Time Polymerase Chain Reaction</topic><topic>Serine</topic><topic>Serine proteinase</topic><topic>Spores, Fungal - 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Microsclerotia are its main survival and dormancy structures and serve as the primary inoculum on many hosts. Studies were conducted to determine the effect of temperature (5 to 50°C), pH (2 to 12) and nutrient regimes on microsclerotia germination. The optimal condition for microsclerotium germination was 20°C with pH 8.0 whereas nutrient regimes had no significant effect on its germination. The whole genome wide expression profiles during microsclerotium germination were characterized using the Illumina sequencing technology. Approximately 7.4 million of 21-nt cDNA tags were sequenced in the cDNA libraries derived from germinated and non-germinated microsclerotia. About 3.9% and 2.3% of the unique tags were up-regulated and down-regulated at least five-fold, respectively, in the germinated microsclerotia compared with the non-germinated microsclerotia. A total of 1654 genes showing differential expression were identified. Genes that are likely to have played important roles in microsclerotium germination include those encoding G-protein coupled receptor, lipase/esterase, cyclopentanone 1,2-monooxygenase, H(+)/hexose cotransporter 1, fungal Zn(2)-Cys(6) binuclear cluster domain, thymus-specific serine protease, glucan 1,3-beta-glucosidase, and alcohol dehydrogenase. These genes were mainly up-regulated or down-regulated only in germinated microsclerotia, compared with non-germinated microsclerotia. The differential expression of genes was confirmed by qRT-PCR analysis of 20 randomly selected genes from the 40 most differentially expressed genes.</abstract><cop>United States</cop><pub>Public Library of Science</pub><pmid>24927478</pmid><doi>10.1371/journal.pone.0100046</doi><oa>free_for_read</oa></addata></record> |
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| subjects | Alcohol dehydrogenase Alcohols Analysis Aspergillus niger Biology Biology and Life Sciences Crop diseases Dormancy Drinking water Esterase Fungi G protein-coupled receptors Gene expression Gene Expression Regulation, Fungal Gene Library Genes Genes, Fungal Genomes Genomics Germination Glucan Glucan 1,3-b-glucosidase Glucosidase Hexose Inoculum Laboratories Lipase Monooxygenase Nutrients pH effects Physical Sciences Proteins Real-Time Polymerase Chain Reaction Serine Serine proteinase Spores, Fungal - genetics Spores, Fungal - growth & development Tags Temperature effects Thrombin Thymus Transcriptome Verticillium - genetics Verticillium - growth & development Verticillium dahliae Verticillium wilt Zinc |
| title | Whole genome wide expression profiles on germination of Verticillium dahliae microsclerotia |
| url | https://sfx.bib-bvb.de/sfx_tum?ctx_ver=Z39.88-2004&ctx_enc=info:ofi/enc:UTF-8&ctx_tim=2025-02-07T02%3A23%3A05IST&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=Whole%20genome%20wide%20expression%20profiles%20on%20germination%20of%20Verticillium%20dahliae%20microsclerotia&rft.jtitle=PloS%20one&rft.au=Hu,%20Dongfang&rft.date=2014-06-13&rft.volume=9&rft.issue=6&rft.spage=e100046&rft.pages=e100046-&rft.issn=1932-6203&rft.eissn=1932-6203&rft_id=info:doi/10.1371/journal.pone.0100046&rft_dat=%3Cgale_plos_%3EA418552443%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=1978565604&rft_id=info:pmid/24927478&rft_galeid=A418552443&rft_doaj_id=oai_doaj_org_article_5bf03e964db9479d9ccb67a6ac6b52cd&rfr_iscdi=true |