Key Laboratory of Medical Molecular Virology, Institutes of Biomedical Sciences and Institute of Medical Microbiology, Shanghai Medical College, Fudan University, Shanghai, P. R. China.
PLoS One. 2013 Sep 30;8(9):e75828. doi: 10.1371/journal.pone.0075828. eCollection 2013.
Transcriptome analysis has played an essential role for revealing gene expression and the complexity of regulations at transcriptional level. RNA-seq is a powerful tool for transcriptome profiling, which uses deep-sequencing technologies to directly determine the cDNA sequence. Here, we utilized RNA-seq to explore the transcriptome of Mycobacteriummarinum (M. marinum), which is a useful model to study the pathogenesis of Mycobacterium tuberculosis (Mtb). Two profiles of exponential and early stationary phase cultures were generated after a physical ribosome RNA removal step. We systematically described the transcriptome and analyzed the functions for the differentiated expressed genes between the two phases. Furthermore, we predicted 360 operons throughout the whole genome, and 13 out of 17 randomly selected operons were validated by qRT-PCR. In general, our study has primarily uncovered M. marinum transcriptome, which could help to gain a better understanding of the regulation system in Mtb that underlines disease pathogenesis.
转录组分析在揭示基因表达和转录水平调控的复杂性方面发挥了重要作用。RNA-seq 是一种用于转录组分析的强大工具，它利用深度测序技术直接确定 cDNA 序列。在这里，我们利用 RNA-seq 来探索分枝杆菌（M. marinum）的转录组，分枝杆菌是研究结核分枝杆菌（Mtb）发病机制的有用模型。在进行物理核糖体 RNA 去除步骤后，生成了指数期和早期静止期培养物的两种图谱。我们系统地描述了转录组，并分析了两个阶段之间差异表达基因的功能。此外，我们预测了整个基因组中的 360 个操纵子，随机选择的 17 个操纵子中的 13 个通过 qRT-PCR 进行了验证。总的来说，我们的研究主要揭示了分枝杆菌的转录组，这有助于更好地理解分枝杆菌的调控系统，而该系统是疾病发病机制的基础。
