Key Laboratory of Algal Biology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, Hubei Province, China; University of Chinese Academy of Sciences, Beijing, China.
Key Laboratory of Algal Biology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, Hubei Province, China.
PLoS One. 2014 Mar 19;9(3):e92711. doi: 10.1371/journal.pone.0092711. eCollection 2014.
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.
集胞藻 PCC 6803 是光合作用研究的遗传操作模型生物。集胞藻 PCC 6803 的基因组由一个环状染色体和七个质粒组成。小调控 RNA（sRNA）作为细菌中许多细胞过程的介质的重要性已开始被认识。然而，关于集胞藻 PCC 6803 中的 sRNA 知之甚少。为了提供这个模式生物中 sRNA 的全面概述，使用深度测序分析了集胞藻 PCC 6803 的 sRNA，获得了 7951189 个读取。高质量映射读取（6127890）被映射到基因组上，并根据读取重叠组装成 16192 个转录区域（簇）。从基因组和 4 个大质粒中总共揭示了 5211 个推定的 sRNA，其中 27 个分子，包括 4 个来自质粒，通过 RT-PCR 得到证实。此外，通过 IntaRNA 预测了所有推定 sRNA 调节的可能靶基因，并对其进行了功能分类和生物途径分析，这表明 sRNA 确实参与了许多不同的代谢途径，包括基本代谢途径，如糖酵解/糖异生、柠檬酸循环、脂肪酸代谢和适应环境应激诱导的变化。本研究的信息为理解蓝藻复杂生理和代谢过程中的 sRNA 介导调控提供了有价值的资源。
