期刊
JOURNAL OF BACTERIOLOGY
卷 188, 期 23, 页码 8206-8212出版社
AMER SOC MICROBIOLOGY
DOI: 10.1128/JB.01082-06
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资金
- NIAID NIH HHS [R56 AI044198, K02 AI057563, AI 44198, AI 057563, R01 AI044198] Funding Source: Medline
- NLM NIH HHS [1 T15 LM007443, T15 LM007443] Funding Source: Medline
sigma(28) RNA polymerase is an alternative RNA polymerase that has been proposed to have a role in late developmental gene regulation in Chlanzydia, but only a single target gene has been identified. To discover additional sigma(28)-dependent genes in the Chlamydia trachomatis genome, we applied bioinformatic methods using a probability weight matrix based on known sigma(28) promoters in other bacteria and a second matrix based on a functional analysis of the sigma(28) promoter. We tested 16 candidate sigma(28) promoters predicted with these algorithms and found that 5 were active in a chlamydial sigma(28) in vitro transcription assay. hctB, the known sigma(28)-regulated gene, is only expressed late in the chlamydial developmental cycle only, and two of the newly identified sigma(28) target genes (tsp and dyC_1) also have late expression profiles, providing support for sigma(28) as a regulator of late gene expression. One of the other novel sigma(28)-regulated genes is dnaK, a known heat shock-responsive gene, suggesting that sigma(28) RNA polymerase may be involved in the response to cellular stress. Our sigma(28) prediction algorithm can be applied to other bacteria, and by performing a similar analysis on the Escherichia coli genome, we have predicted and functionally identified five previously unknown or sigma(28)-regulated genes in E. coli.
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