Figure 2.

Secondary verification of RNA-seq results by translational promoter-lacZ fusion. On the right-hand side of each panel, translational lacZ fusions confirm that expression of (A) clpB, (B) recN, (C) npd, (D) hecA, (E) grx3, (F) brfA, and (G) lexA is anaerobically induced, and that expression of (H) fbpA and (I) oxiA is anaerobically repressed. For each panel, a prediction of -10 and -35 elements is given above the gene schematic. The predicted transcriptional start site, in parenthesis under the +1, is reported as the chromosomal location according to the annotated FA1090 genome (NCBI). Genes colored in grey are encoded on the positive strand, while genes colored in black are encoded on the negative strand. Above each gene schematic, raw RNA-seq data from .wig files are plotted. The base count is representative of the number of times each base was mapped by a 50 bp RNA sequence read from Replicate 1 (normalized to take into account slight differences in total mapped reads between the two samples). Blue bars represent aerobic base reads and β-galactosidase activity, while red bars represent anaerobic base reads and β-galactosidase activity. Genes are not drawn to the same scale. Results for β-galactosidase activity are presented as the mean + SD of 16 determinations. (*) indicates a p-value less than 0.001.

Isabella and Clark BMC Genomics 2011 12:51   doi:10.1186/1471-2164-12-51
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