Skip to main content
Fig. 1 | BMC Genomics

Fig. 1

From: An advanced bioinformatics approach for analyzing RNA-seq data reveals sigma H-dependent regulation of competence genes in Listeria monocytogenes

Fig. 1

Schematic of σH-dependent transcriptional units identified here. a LMRG_00908-dnaG-rpoD operon; b comEABC operon; c coiA, d lytG; e comGABCDEFG operon; f LMRG_01010-LMRG_01005 operon. Lines show average RNAseq coverage for a sliding window of 100 nt. Blue lines indicate RNA-seq coverage for the three replicates experiments with the 10403S::ΔBCHL P rha -sigH strain (which over expresses sigH), while green lines indicate RNA-seq coverage for the three replicates experiments with the 10403S::ΔBCHL P rha strain (which does not contain sigH). Maximum average coverages are shown on the left side of each panel. Black arrows indicate the direction in which the RNA-seq reads were mapped to the chromosome. Genes significantly differentially expressed by the standard approach are labeled with a * next to the gene name. Position of significant fragments is shown as dotted lines underneath the genes with their maximum sliding window fold change shown underneath. Stem loop symbols indicate transcriptional terminators. Genes colored in gray are part of the operons found to be significantly differentially expressed by the sliding window approach and are drawn to scale. Genes colored in magenta are not part of the significant operon and are not drawn to scale. Promoters are indicated by stemmed arrows. A window size of 100 nt was used for the smoothing method. Values on the graph represent the center of these 100 nt windows

Back to article page