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题名: Deep Sequencing-Based Identification of Small Regulatory RNAs in Synechocystis sp PCC 6803
作者: Xu, Wen1, 2; Chen, Hui1; He, Chen-Liu1; Wang, Qiang1
通讯作者: Wang, Q (reprint author), Chinese Acad Sci, Key Lab Algal Biol, Inst Hydrobiol, Wuhan, Hubei Province, Peoples R China.
关键词: SMALL NONCODING RNAS ; PLASMID COPY NUMBER ; ANTISENSE-RNA ; ESCHERICHIA-COLI ; 6S RNA ; GENE-EXPRESSION ; PHOTOSYSTEM-I ; SP PCC6803 ; P RNA ; BACTERIA
刊名: PLOS ONE
发表日期: 2014-03-19
DOI: 10.1371/journal.pone.0092711
卷: 9, 期:3, 页:e92711
收录类别: SCI
文章类型: Article
部门归属: [Xu, Wen; Chen, Hui; He, Chen-Liu; Wang, Qiang] Chinese Acad Sci, Key Lab Algal Biol, Inst Hydrobiol, Wuhan, Hubei Province, Peoples R China; [Xu, Wen] Univ Chinese Acad Sci, Beijing, Peoples R China
WOS标题词: Science & Technology
资助者: National Program on Key Basic Research Project [2011CB200902]; National Natural Science Foundation of China [31270094]
类目[WOS]: Multidisciplinary Sciences
研究领域[WOS]: Science & Technology - Other Topics
摘要: Synechocystis sp. PCC 6803 is a genetically tractable model organism for photosynthesis research. The genome of Synechocystis sp. PCC 6803 consists of a circular chromosome and seven plasmids. The importance of small regulatory RNAs (sRNAs) as mediators of a number of cellular processes in bacteria has begun to be recognized. However, little is known regarding sRNAs in Synechocystis sp. PCC 6803. To provide a comprehensive overview of sRNAs in this model organism, the sRNAs of Synechocystis sp. PCC 6803 were analyzed using deep sequencing, and 7,951,189 reads were obtained. High quality mapping reads (6,127,890) were mapped onto the genome and assembled into 16,192 transcribed regions (clusters) based on read overlap. A total number of 5211 putative sRNAs were revealed from the genome and the 4 megaplasmids, and 27 of these molecules, including four from plasmids, were confirmed by RT-PCR. In addition, possible target genes regulated by all of the putative sRNAs identified in this study were predicted by IntaRNA and analyzed for functional categorization and biological pathways, which provided evidence that sRNAs are indeed involved in many different metabolic pathways, including basic metabolic pathways, such as glycolysis/gluconeogenesis, the citrate cycle, fatty acid metabolism and adaptations to environmentally stress-induced changes. The information from this study provides a valuable reservoir for understanding the sRNA-mediated regulation of the complex physiology and metabolic processes of cyanobacteria.
英文摘要: Synechocystis sp. PCC 6803 is a genetically tractable model organism for photosynthesis research. The genome of Synechocystis sp. PCC 6803 consists of a circular chromosome and seven plasmids. The importance of small regulatory RNAs (sRNAs) as mediators of a number of cellular processes in bacteria has begun to be recognized. However, little is known regarding sRNAs in Synechocystis sp. PCC 6803. To provide a comprehensive overview of sRNAs in this model organism, the sRNAs of Synechocystis sp. PCC 6803 were analyzed using deep sequencing, and 7,951,189 reads were obtained. High quality mapping reads (6,127,890) were mapped onto the genome and assembled into 16,192 transcribed regions (clusters) based on read overlap. A total number of 5211 putative sRNAs were revealed from the genome and the 4 megaplasmids, and 27 of these molecules, including four from plasmids, were confirmed by RT-PCR. In addition, possible target genes regulated by all of the putative sRNAs identified in this study were predicted by IntaRNA and analyzed for functional categorization and biological pathways, which provided evidence that sRNAs are indeed involved in many different metabolic pathways, including basic metabolic pathways, such as glycolysis/gluconeogenesis, the citrate cycle, fatty acid metabolism and adaptations to environmentally stress-induced changes. The information from this study provides a valuable reservoir for understanding the sRNA-mediated regulation of the complex physiology and metabolic processes of cyanobacteria.
关键词[WOS]: SMALL NONCODING RNAS ; PLASMID COPY NUMBER ; ANTISENSE-RNA ; ESCHERICHIA-COLI ; 6S RNA ; GENE-EXPRESSION ; PHOTOSYSTEM-I ; SP PCC6803 ; P RNA ; BACTERIA
语种: 英语
WOS记录号: WOS:000333348500152
ISSN号: 1932-6203
Citation statistics:
内容类型: 期刊论文
URI标识: http://ir.ihb.ac.cn/handle/342005/20108
Appears in Collections:藻类生物学及应用研究中心_期刊论文

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作者单位: 1.Chinese Acad Sci, Key Lab Algal Biol, Inst Hydrobiol, Wuhan, Hubei Province, Peoples R China
2.Univ Chinese Acad Sci, Beijing, Peoples R China

Recommended Citation:
Xu, Wen; Chen, Hui; He, Chen-Liu; Wang, Qiang.Deep Sequencing-Based Identification of Small Regulatory RNAs in Synechocystis sp PCC 6803,PLOS ONE,2014,9(3):e92711
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