Genome-wide analysis of the stationary-phase sigma factor (sigma-H) regulon of Bacillus subtilis
Genome-wide analysis of the stationary-phase sigma factor (sigma-H) regulon of Bacillus subtilis
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DOI：
10.1128/jb.184.17.4881-4890.2002
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发表时间：
2002-09-01
影响因子：
3.2
通讯作者：
Grossman, AD
中科院分区：
文献类型：
--
作者：
Britton, RA;Eichenberger, P;Grossman, AD
Sigma-H 是一种替代性 RNA 聚合酶 Sigma 因子，可指导许多基因的转录，这些基因在枯草芽孢杆菌从指数生长期过渡到稳定期时发挥作用。已知 23 个启动子可驱动 33 个基因的转录，可被含有 sigma-H 的 RNA 聚合酶识别。为了在全基因组基础上识别 sigma-H 控制下的其他基因，我们使用包含 > 99% 注释的枯草芽孢杆菌开放阅读框的 DNA 微阵列进行了转录分析实验。此外，我们使用基于生物信息学的方法，旨在鉴定包含 sigma-H 的 RNA 聚合酶识别的启动子。这种方法的组合成功地证实了大多数先前描述的 sigma-H 控制基因。此外，我们还鉴定了 26 个推定启动子，这些启动子驱动 54 个基因的表达，这些基因以前不知道是在 sigma-H 的直接控制下。根据大多数这些基因的已知或推断功能，我们得出结论，除了先前已知的在孢子形成和能力中的作用外，sigma-H 还控制参与与稳定期过渡相关的许多生理过程的基因，包括细胞色素生物发生、潜在营养源的产生、运输和细胞壁代谢。
Sigma-H is an alternative RNA polymerase sigma factor that directs the transcription of many genes that function at the transition from exponential growth to stationary phase in Bacillus subtilis. Twenty-three promoters, which drive transcription of 33 genes, are known to be recognized by sigma-H-containing RNA polymerase. To identify additional genes under the control of sigma-H on a genome-wide basis, we carried out transcriptional profiling experiments using a DNA microarray containing >99% of the annotated B. subtilis open reading frames. In addition, we used a bioinformatics-based approach aimed at the identification of promoters recognized by RNA polymerase containing sigma-H. This combination of approaches was successful in confirming most of the previously described sigma-H-controlled genes. In addition, we identified 26 putative promoters that drive expression of 54 genes not previously known to be under the direct control of sigma-H. Based on the known or inferred function of most of these genes, we conclude that, in addition to its previously known roles in sporulation and competence, sigma-H controls genes involved in many physiological processes associated with the transition to stationary phase, including cytochrome biogenesis, generation of potential nutrient sources, transport, and cell wall metabolism.