Guangxi Key Laboratory of Subtropical Bioresources Conservation and Utilization, Guangxi University, 100 Daxue Road, Nanning, Guangxi 530004, China.
BMC Genomics. 2010 May 20;11:316. doi: 10.1186/1471-2164-11-316.
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.
Xanthomons campestris pathovar campestris (Xcc) 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 Xcc 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-Xcc1, sRNA-Xcc2, sRNA-Xcc3, and sRNA-Xcc4. 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 Xcc 8004 are potential targets of sRNA-Xcc1, sRNA-Xcc3 and sRNA-Xcc4. In contrast, only a few genes were predicted to be potential targets of sRNA-Xcc2.
We have identified four novel sRNAs from Xcc 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 Xanthomonas campestris pathogenesis.
在细菌中，小非编码 RNA（sRNAs）已被认为是各种细胞过程的重要调节剂。总共已经报道了大约 200 种细菌 sRNAs。然而，从植物病原菌中鉴定出的 sRNAs 却很少。
野油菜黄单胞菌致病变种（Xcc）是十字花科作物黑腐病的病原体。在本研究中，从在最小培养基 XVM2 中生长到指数期的 Xcc 菌株 8004 中分离的低分子量 RNA 构建了 cDNA 文库。通过对文库中 2500 个克隆的测序筛选，获得了 7 个 sRNA 候选物，其中 4 个通过 Northern 杂交得到证实，分别命名为 sRNA-Xcc1、sRNA-Xcc2、sRNA-Xcc3 和 sRNA-Xcc4。进一步确定了这些 sRNAs 的转录起始和终止位点。BLAST 分析表明，这 4 个 sRNAs 是新的。生物信息学预测表明，Xcc 8004 中大量具有各种已知或未知功能的基因是 sRNA-Xcc1、sRNA-Xcc3 和 sRNA-Xcc4 的潜在靶标。相比之下，只有少数基因被预测为 sRNA-Xcc2 的潜在靶标。
我们通过大规模筛选从 Xcc 中鉴定出了 4 个新的 sRNAs。生物信息学分析表明，它们可能具有多种功能。这项工作为了解 sRNAs 在野油菜黄单胞菌致病分子机制中的作用提供了第一步。
