Systematic analysis of SigD-regulated genes in Bacillus subtilis by DNA microarray and Northern blotting analyses

Gene. 2004 Mar 31;329:125-36. doi: 10.1016/j.gene.2003.12.024.

Abstract

The SigD-regulated genes in Bacillus subtilis were systematically analyzed by comparing the pattern of transcripts derived from wild-type cells with those from sigD mutant cells using DNA microarray technology. One hundred and fifty-eight genes were found to be SigD-dependent candidates, 46 of which being known SigD-regulated genes. Northern blot analysis revealed that 18 of the remaining genes were SigD-dependent. The SigD consensus sequence was newly identified in the upstream regions of nine operons (11 genes): ybdO, yfmT-yfmS, hemAT, yjcP-yjcQ, yjfB, ylqB, yoaH, yscB and yxkC, and the other seven genes were assumed to be indirectly affected by a SigD mutation. Furthermore, yviE-yviF are likely to be SigD-dependent genes, because three independent sets of array data for yviE and yviF indicated they are SigD-dependent, and these genes are neighbors of flgL and hag transcribed by SigD RNA polymerase.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Bacillus subtilis / genetics*
  • Base Sequence
  • Blotting, Northern
  • DNA, Complementary / genetics
  • Gene Expression Regulation, Bacterial*
  • Genes, Bacterial / genetics*
  • Oligonucleotide Array Sequence Analysis
  • RNA, Messenger / genetics
  • RNA, Messenger / metabolism
  • Regulon / genetics
  • Sigma Factor / metabolism*
  • Transcription, Genetic

Substances

  • DNA, Complementary
  • RNA, Messenger
  • Sigma Factor