Fig 2. Determination of TSSs of AcaCD/FlhDCSGI1-responsive SGI1 genes.
Primer extension reactions were performed using primer pUCfor21 and total RNA purified from E. coli TG1 carrying tester plasmids pMSZ965 (PS004), pMSZ953 (PS005), pMSZ954 (PS012) and pMSZ955 (PS018) +/- the AcaCD producer plasmid pJKI888 (lanes + and -). Lanes G, A, T, C: Sanger sequencing reactions obtained using pUCfor21 and the appropriate tester plasmid as template DNA. Arrowheads point to the base on the non-transcribed strand corresponding to the TSS on the sense strand. The putative -10 box and the start codon (if applicable) are indicated. The presence (+) or absence (-) of AcaCD is shown. The sequence alignment of the five AcaCD-dependent promoter regions are shown below the images. The putative -10 box, SD-box and the start codon are underlined. TSSs detected are shown as bold, underlined uppercases indicate the most frequent start sites. The predicted AcaCD-binding sites are shown as bold uppercase, the conserved core regions are boxed. Conserved positions are represented by sequence logo. The start codon of the annotated S004 orf is indicated as bold italics.