Identification of four novel small non-coding RNAs from <it>Xanthomonas campestris </it>pathovar <it>campestris</it>
<p>Abstract</p> <p>Background</p> <p>In bacteria, small non-coding RNAs (sRNAs) have been recognized as important regulators of various cellular processes. Approximately 200 bacterial sRNAs in total have been reported. However, very few sRNAs have been identified from p...
| Main Authors: | , , , , , , , , |
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| Format: | Article |
| Language: | English |
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BMC
2010-05-01
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| Series: | BMC Genomics |
| Online Access: | http://www.biomedcentral.com/1471-2164/11/316 |
| _version_ | 1818058970229637120 |
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| author | Lu Guang-Tao Jiang Bo-Le Feng Jia-Xun He Yong-Qiang Chen Xiao-Lin Tang Dong-Jie Jiang Rui-Ping Lin Min Tang Ji-Liang |
| author_facet | Lu Guang-Tao Jiang Bo-Le Feng Jia-Xun He Yong-Qiang Chen Xiao-Lin Tang Dong-Jie Jiang Rui-Ping Lin Min Tang Ji-Liang |
| author_sort | Lu Guang-Tao |
| collection | DOAJ |
| description | <p>Abstract</p> <p>Background</p> <p>In bacteria, small non-coding RNAs (sRNAs) have been recognized as important regulators of various cellular processes. Approximately 200 bacterial sRNAs in total have been reported. However, very few sRNAs have been identified from phytopathogenic bacteria.</p> <p>Results</p> <p><it>Xanthomons campestris </it>pathovar <it>campestris </it>(<it>Xcc</it>) is the causal agent of black rot disease of cruciferous crops. In this study, a cDNA library was constructed from the low-molecular weight RNA isolated from the <it>Xcc </it>strain 8004 grown to exponential phase in the minimal medium XVM2. Seven sRNA candidates were obtained by sequencing screen of 2,500 clones from the library and four of them were confirmed to be sRNAs by Northern hybridization, which were named sRNA-<it>Xcc</it>1, sRNA-<it>Xcc</it>2, sRNA-<it>Xcc</it>3, and sRNA-<it>Xcc</it>4. The transcription start and stop sites of these sRNAs were further determined. BLAST analysis revealed that the four sRNAs are novel. Bioinformatics prediction showed that a large number of genes with various known or unknown functions in <it>Xcc </it>8004 are potential targets of sRNA-<it>Xcc</it>1, sRNA-<it>Xcc</it>3 and sRNA-<it>Xcc</it>4. In contrast, only a few genes were predicted to be potential targets of sRNA-<it>Xcc</it>2.</p> <p>Conclusion</p> <p>We have identified four novel sRNAs from <it>Xcc </it>by a large-scale screen. Bioinformatics analysis suggests that they may perform various functions. This work provides the first step toward understanding the role of sRNAs in the molecular mechanisms of <it>Xanthomonas campestris </it>pathogenesis.</p> |
| first_indexed | 2024-12-10T13:09:05Z |
| format | Article |
| id | doaj.art-56746d3a936f4479acb59f2af1a10377 |
| institution | Directory Open Access Journal |
| issn | 1471-2164 |
| language | English |
| last_indexed | 2024-12-10T13:09:05Z |
| publishDate | 2010-05-01 |
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| series | BMC Genomics |
| spelling | doaj.art-56746d3a936f4479acb59f2af1a103772022-12-22T01:47:44ZengBMCBMC Genomics1471-21642010-05-0111131610.1186/1471-2164-11-316Identification of four novel small non-coding RNAs from <it>Xanthomonas campestris </it>pathovar <it>campestris</it>Lu Guang-TaoJiang Bo-LeFeng Jia-XunHe Yong-QiangChen Xiao-LinTang Dong-JieJiang Rui-PingLin MinTang Ji-Liang<p>Abstract</p> <p>Background</p> <p>In bacteria, small non-coding RNAs (sRNAs) have been recognized as important regulators of various cellular processes. Approximately 200 bacterial sRNAs in total have been reported. However, very few sRNAs have been identified from phytopathogenic bacteria.</p> <p>Results</p> <p><it>Xanthomons campestris </it>pathovar <it>campestris </it>(<it>Xcc</it>) is the causal agent of black rot disease of cruciferous crops. In this study, a cDNA library was constructed from the low-molecular weight RNA isolated from the <it>Xcc </it>strain 8004 grown to exponential phase in the minimal medium XVM2. Seven sRNA candidates were obtained by sequencing screen of 2,500 clones from the library and four of them were confirmed to be sRNAs by Northern hybridization, which were named sRNA-<it>Xcc</it>1, sRNA-<it>Xcc</it>2, sRNA-<it>Xcc</it>3, and sRNA-<it>Xcc</it>4. The transcription start and stop sites of these sRNAs were further determined. BLAST analysis revealed that the four sRNAs are novel. Bioinformatics prediction showed that a large number of genes with various known or unknown functions in <it>Xcc </it>8004 are potential targets of sRNA-<it>Xcc</it>1, sRNA-<it>Xcc</it>3 and sRNA-<it>Xcc</it>4. In contrast, only a few genes were predicted to be potential targets of sRNA-<it>Xcc</it>2.</p> <p>Conclusion</p> <p>We have identified four novel sRNAs from <it>Xcc </it>by a large-scale screen. Bioinformatics analysis suggests that they may perform various functions. This work provides the first step toward understanding the role of sRNAs in the molecular mechanisms of <it>Xanthomonas campestris </it>pathogenesis.</p>http://www.biomedcentral.com/1471-2164/11/316 |
| spellingShingle | Lu Guang-Tao Jiang Bo-Le Feng Jia-Xun He Yong-Qiang Chen Xiao-Lin Tang Dong-Jie Jiang Rui-Ping Lin Min Tang Ji-Liang Identification of four novel small non-coding RNAs from <it>Xanthomonas campestris </it>pathovar <it>campestris</it> BMC Genomics |
| title | Identification of four novel small non-coding RNAs from <it>Xanthomonas campestris </it>pathovar <it>campestris</it> |
| title_full | Identification of four novel small non-coding RNAs from <it>Xanthomonas campestris </it>pathovar <it>campestris</it> |
| title_fullStr | Identification of four novel small non-coding RNAs from <it>Xanthomonas campestris </it>pathovar <it>campestris</it> |
| title_full_unstemmed | Identification of four novel small non-coding RNAs from <it>Xanthomonas campestris </it>pathovar <it>campestris</it> |
| title_short | Identification of four novel small non-coding RNAs from <it>Xanthomonas campestris </it>pathovar <it>campestris</it> |
| title_sort | identification of four novel small non coding rnas from it xanthomonas campestris it pathovar it campestris it |
| url | http://www.biomedcentral.com/1471-2164/11/316 |
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