Comparative genomics of small RNAs in bacterial genomes.
Comparative genomics of small RNAs in bacterial genomes.
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DOI：
10.1089/omi.2006.0005
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发表时间：
2007
期刊：
影响因子：
--
通讯作者：
S. Luban;D. Kihara
中科院分区：
文献类型：
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作者：
S. Luban;D. Kihara
近年来，通过实验和计算方法，在细菌和真核生物基因组中发现了各种小的非编码RNA（sRNA）家族。虽然大多数的功能尚待阐明，但已有报道，有些在基因调控中发挥重要作用。在这里，我们进行了比较基因组学分析的可能的sRNA的计算确定在30个细菌基因组的γ-和α-变形菌和耐辐射异常球菌。通过完全连锁聚类方法对鉴定的sRNA进行聚类，以观察生物体之间的保守性。平均而言，在每个基因组序列的约30%的基因间区域中发现sRNA。其中，25.7%在三种或三种以上生物中是保守的。约60%的sRNA不位于基因间的正向同源区域，这意味着sRNA在基因组中的位置可能发生了重排。目前的研究表明，sRNAs可能参与细菌中更广泛的功能。
In recent years, various families of small non-coding RNAs (sRNAs) have been discovered by experimental and computational approaches, both in bacterial and eukaryotic genomes. Although most of them await elucidation of their function, it has been reported that some play important roles in gene regulation. Here we carried out comparative genomics analysis of possible sRNAs that are computationally identified in 30 bacterial genomes from gamma- and alpha-proteobacteria and Deinococcus radiodurans. Identified sRNAs are clustered by a complete-linkage clustering method to see conservation among the organisms. On average, sRNAs are found in approximately 30% of intergenic regions of each genome sequence. Of these, 25.7% are conserved among three or more organisms. Approximately 60% of the conserved sRNAs do not locate in orthologous intergenic regions, implying that sRNAs may be shuffled their positions in genomes. The current study implies that sRNAs may be involved in a more extensive range of functions in bacteria.