Comparison of global gene expression in the Gluconobacter oxydans DgoxR mutant and the parental strain by RNA-Seq. Comparison of global gene expression in the Gluconobacter oxydans DgoxR mutant and the parental strain by RNA-Seq

Gene expression in the obligatory aerobic acetic acid bacterium Gluconobacter oxydans was shown to respond to oxygen limitation, but the regulators involved are unknown. In this study, we analyzed the function of a transcriptional regulator named GoxR, which belongs to the FNR family. Here, we aplied RNAseq to identify target genes of GoxR by comparing genes expression of a delta-goxR and its parental strain after 20 min of oxygen limitation. Overall design: A transcriptome comparison of the delta-goxR mutant and the parental strain was performed by RNAseq to identify genes with altered expression in the absence of GoxR. For this purpose, the two strains were cultivated in a bioreactor at 15% DO and pH 6 using mannitol medium. As GoxR was assumed to be active under oxygen-restricted conditions, the oxygen supply was switched from 15% DO to 0% DO by gassing with a mixture of 2% O2/98% N2 when the strains had reached an OD600 of 2.5. The cells were harvested 20 min after the switch and used for RNA isolation and RNAseq analysis.