The cytidine repressor participates in the regulatory pathway of indole in Pantoea agglomerans
Indole, an important signal molecule in both intraspecies and interspecies, regulates a variety of bacterial behaviors, but its regulatory mechanism is still unknown. Pantoea agglomerans YS19, a preponderant endophytic bacterium isolated from rice, does not produce indole, yet it senses exogenous in...
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Veröffentlicht in: | Research in microbiology 2017-09, Vol.168 (7), p.636-643 |
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description | Indole, an important signal molecule in both intraspecies and interspecies, regulates a variety of bacterial behaviors, but its regulatory mechanism is still unknown. Pantoea agglomerans YS19, a preponderant endophytic bacterium isolated from rice, does not produce indole, yet it senses exogenous indole. In this study, a mutant of YS19-Rpr whose target gene expression was downregulated by indole was selected through mTn5 transposon mutagenesis. Using the TAIL-PCR technique, the mutation gene was identified as a cytR homologue, which encodes a cytidine repressor (CytR) protein, a bacterial transcription factor involved in a complex regulation scheme. The negative regulation of indole in cytR, which is equivalent to the mutation in cytR, promotes the expression of a downstream gene deoC, which encodes the key enzyme deoxyribose-phosphate aldolase in participating in pentose metabolism. We found that DeoC is one of the regulatory proteins of P. agglomerans that is involved in counteracting starvation. Furthermore, the expression of deoC was induced by starvation conditions, accompanied by a decrease in cytR expression. This finding suggests that the indole signal and the mutation of cytR relieve inhibition of CytR in the transcription of deoC, facilitating better adaptation of the bacterium to the adverse conditions of the environment. |
doi_str_mv | 10.1016/j.resmic.2017.04.006 |
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Pantoea agglomerans YS19, a preponderant endophytic bacterium isolated from rice, does not produce indole, yet it senses exogenous indole. In this study, a mutant of YS19-Rpr whose target gene expression was downregulated by indole was selected through mTn5 transposon mutagenesis. Using the TAIL-PCR technique, the mutation gene was identified as a cytR homologue, which encodes a cytidine repressor (CytR) protein, a bacterial transcription factor involved in a complex regulation scheme. The negative regulation of indole in cytR, which is equivalent to the mutation in cytR, promotes the expression of a downstream gene deoC, which encodes the key enzyme deoxyribose-phosphate aldolase in participating in pentose metabolism. We found that DeoC is one of the regulatory proteins of P. agglomerans that is involved in counteracting starvation. Furthermore, the expression of deoC was induced by starvation conditions, accompanied by a decrease in cytR expression. This finding suggests that the indole signal and the mutation of cytR relieve inhibition of CytR in the transcription of deoC, facilitating better adaptation of the bacterium to the adverse conditions of the environment.</description><identifier>ISSN: 0923-2508</identifier><identifier>EISSN: 1769-7123</identifier><identifier>DOI: 10.1016/j.resmic.2017.04.006</identifier><identifier>PMID: 28483441</identifier><language>eng</language><publisher>France: Elsevier Masson SAS</publisher><subject>Aldehyde-Lyases - genetics ; Aldehyde-Lyases - metabolism ; Bacterial Adhesion ; Bacterial Proteins - genetics ; Bacterial Proteins - metabolism ; Cytidine - metabolism ; Cytidine repressor ; Deoxyribose 5-phosphate aldolase ; DNA Transposable Elements ; Gene Expression Regulation, Bacterial ; Indole ; Indoles - metabolism ; Metabolic Networks and Pathways - genetics ; Mutagenesis ; Oryza - microbiology ; Pantoea - genetics ; Pantoea - metabolism ; Pantoea agglomerans ; Polymerase Chain Reaction - methods ; Regulatory pathway ; Repressor Proteins - genetics ; Repressor Proteins - metabolism</subject><ispartof>Research in microbiology, 2017-09, Vol.168 (7), p.636-643</ispartof><rights>2017 Institut Pasteur</rights><rights>Copyright © 2017 Institut Pasteur. Published by Elsevier Masson SAS. All rights reserved.</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c474t-ab1ca4bce1f654cea15fefa67685155bab571dce8ad29a91f0ffd5d45b9717133</citedby><cites>FETCH-LOGICAL-c474t-ab1ca4bce1f654cea15fefa67685155bab571dce8ad29a91f0ffd5d45b9717133</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktohtml>$$Uhttps://dx.doi.org/10.1016/j.resmic.2017.04.006$$EHTML$$P50$$Gelsevier$$H</linktohtml><link.rule.ids>314,780,784,3550,27924,27925,45995</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/28483441$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Jia, Mengqi</creatorcontrib><creatorcontrib>Yu, Xuemei</creatorcontrib><creatorcontrib>Jiang, Jing</creatorcontrib><creatorcontrib>Li, Zihua</creatorcontrib><creatorcontrib>Feng, Yongjun</creatorcontrib><title>The cytidine repressor participates in the regulatory pathway of indole in Pantoea agglomerans</title><title>Research in microbiology</title><addtitle>Res Microbiol</addtitle><description>Indole, an important signal molecule in both intraspecies and interspecies, regulates a variety of bacterial behaviors, but its regulatory mechanism is still unknown. Pantoea agglomerans YS19, a preponderant endophytic bacterium isolated from rice, does not produce indole, yet it senses exogenous indole. In this study, a mutant of YS19-Rpr whose target gene expression was downregulated by indole was selected through mTn5 transposon mutagenesis. Using the TAIL-PCR technique, the mutation gene was identified as a cytR homologue, which encodes a cytidine repressor (CytR) protein, a bacterial transcription factor involved in a complex regulation scheme. The negative regulation of indole in cytR, which is equivalent to the mutation in cytR, promotes the expression of a downstream gene deoC, which encodes the key enzyme deoxyribose-phosphate aldolase in participating in pentose metabolism. We found that DeoC is one of the regulatory proteins of P. agglomerans that is involved in counteracting starvation. Furthermore, the expression of deoC was induced by starvation conditions, accompanied by a decrease in cytR expression. This finding suggests that the indole signal and the mutation of cytR relieve inhibition of CytR in the transcription of deoC, facilitating better adaptation of the bacterium to the adverse conditions of the environment.</description><subject>Aldehyde-Lyases - genetics</subject><subject>Aldehyde-Lyases - metabolism</subject><subject>Bacterial Adhesion</subject><subject>Bacterial Proteins - genetics</subject><subject>Bacterial Proteins - metabolism</subject><subject>Cytidine - metabolism</subject><subject>Cytidine repressor</subject><subject>Deoxyribose 5-phosphate aldolase</subject><subject>DNA Transposable Elements</subject><subject>Gene Expression Regulation, Bacterial</subject><subject>Indole</subject><subject>Indoles - metabolism</subject><subject>Metabolic Networks and Pathways - genetics</subject><subject>Mutagenesis</subject><subject>Oryza - microbiology</subject><subject>Pantoea - genetics</subject><subject>Pantoea - metabolism</subject><subject>Pantoea agglomerans</subject><subject>Polymerase Chain Reaction - methods</subject><subject>Regulatory pathway</subject><subject>Repressor Proteins - genetics</subject><subject>Repressor Proteins - metabolism</subject><issn>0923-2508</issn><issn>1769-7123</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2017</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNp9kMFu1DAQhi0EotuWN0AoRy4JnsSOkwsSqgpUqtQeyrXWxB7vepXEwfaC9u3JagtHTnP4v39G8zH2HngFHNpP-ypSmrypag6q4qLivH3FNqDavlRQN6_Zhvd1U9aSdxfsMqU95yCVEm_ZRd2JrhECNuz5aUeFOWZv_UxFpGVdmkIsFozZG79gplT4uci7U7o9jJhDPK5x3v3GYxHcGtow0ol5xDkHwgK32zFMFHFO1-yNwzHRu5d5xX58vX26-V7eP3y7u_lyXxqhRC5xAINiMASulcIQgnTksFVtJ0HKAQepwBrq0NY99uC4c1ZaIYdegYKmuWIfz3uXGH4eKGU9-WRoHHGmcEgaur7telH3sKLijJoYUork9BL9hPGogeuTWb3XZ7P6ZFZzoVeza-3Dy4XDMJH9V_qrcgU-nwFa__zlKepkPM2GrI9ksrbB___CHxsxjlI</recordid><startdate>201709</startdate><enddate>201709</enddate><creator>Jia, Mengqi</creator><creator>Yu, Xuemei</creator><creator>Jiang, Jing</creator><creator>Li, Zihua</creator><creator>Feng, Yongjun</creator><general>Elsevier Masson SAS</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>7X8</scope></search><sort><creationdate>201709</creationdate><title>The cytidine repressor participates in the regulatory pathway of indole in Pantoea agglomerans</title><author>Jia, Mengqi ; Yu, Xuemei ; Jiang, Jing ; Li, Zihua ; Feng, Yongjun</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c474t-ab1ca4bce1f654cea15fefa67685155bab571dce8ad29a91f0ffd5d45b9717133</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2017</creationdate><topic>Aldehyde-Lyases - genetics</topic><topic>Aldehyde-Lyases - metabolism</topic><topic>Bacterial Adhesion</topic><topic>Bacterial Proteins - genetics</topic><topic>Bacterial Proteins - metabolism</topic><topic>Cytidine - metabolism</topic><topic>Cytidine repressor</topic><topic>Deoxyribose 5-phosphate aldolase</topic><topic>DNA Transposable Elements</topic><topic>Gene Expression Regulation, Bacterial</topic><topic>Indole</topic><topic>Indoles - metabolism</topic><topic>Metabolic Networks and Pathways - genetics</topic><topic>Mutagenesis</topic><topic>Oryza - microbiology</topic><topic>Pantoea - genetics</topic><topic>Pantoea - metabolism</topic><topic>Pantoea agglomerans</topic><topic>Polymerase Chain Reaction - methods</topic><topic>Regulatory pathway</topic><topic>Repressor Proteins - genetics</topic><topic>Repressor Proteins - metabolism</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Jia, Mengqi</creatorcontrib><creatorcontrib>Yu, Xuemei</creatorcontrib><creatorcontrib>Jiang, Jing</creatorcontrib><creatorcontrib>Li, Zihua</creatorcontrib><creatorcontrib>Feng, Yongjun</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><jtitle>Research in microbiology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Jia, Mengqi</au><au>Yu, Xuemei</au><au>Jiang, Jing</au><au>Li, Zihua</au><au>Feng, Yongjun</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>The cytidine repressor participates in the regulatory pathway of indole in Pantoea agglomerans</atitle><jtitle>Research in microbiology</jtitle><addtitle>Res Microbiol</addtitle><date>2017-09</date><risdate>2017</risdate><volume>168</volume><issue>7</issue><spage>636</spage><epage>643</epage><pages>636-643</pages><issn>0923-2508</issn><eissn>1769-7123</eissn><abstract>Indole, an important signal molecule in both intraspecies and interspecies, regulates a variety of bacterial behaviors, but its regulatory mechanism is still unknown. Pantoea agglomerans YS19, a preponderant endophytic bacterium isolated from rice, does not produce indole, yet it senses exogenous indole. In this study, a mutant of YS19-Rpr whose target gene expression was downregulated by indole was selected through mTn5 transposon mutagenesis. Using the TAIL-PCR technique, the mutation gene was identified as a cytR homologue, which encodes a cytidine repressor (CytR) protein, a bacterial transcription factor involved in a complex regulation scheme. The negative regulation of indole in cytR, which is equivalent to the mutation in cytR, promotes the expression of a downstream gene deoC, which encodes the key enzyme deoxyribose-phosphate aldolase in participating in pentose metabolism. We found that DeoC is one of the regulatory proteins of P. agglomerans that is involved in counteracting starvation. Furthermore, the expression of deoC was induced by starvation conditions, accompanied by a decrease in cytR expression. This finding suggests that the indole signal and the mutation of cytR relieve inhibition of CytR in the transcription of deoC, facilitating better adaptation of the bacterium to the adverse conditions of the environment.</abstract><cop>France</cop><pub>Elsevier Masson SAS</pub><pmid>28483441</pmid><doi>10.1016/j.resmic.2017.04.006</doi><tpages>8</tpages><oa>free_for_read</oa></addata></record> |
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subjects | Aldehyde-Lyases - genetics Aldehyde-Lyases - metabolism Bacterial Adhesion Bacterial Proteins - genetics Bacterial Proteins - metabolism Cytidine - metabolism Cytidine repressor Deoxyribose 5-phosphate aldolase DNA Transposable Elements Gene Expression Regulation, Bacterial Indole Indoles - metabolism Metabolic Networks and Pathways - genetics Mutagenesis Oryza - microbiology Pantoea - genetics Pantoea - metabolism Pantoea agglomerans Polymerase Chain Reaction - methods Regulatory pathway Repressor Proteins - genetics Repressor Proteins - metabolism |
title | The cytidine repressor participates in the regulatory pathway of indole in Pantoea agglomerans |
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