Figure 3

Chromosomal deletion markers in the PB12 strain. The absence of a chromosomal fragment in the PB12 strain was confirmed by PCR and by Sanger resequencing. Ten genes were deleted and the galR and ptsP genes were fused. Section A shows the ptsP and galR genes that were amplified in the JM101, PB11 and PB12 strains: line 1, (M) molecular weight markers; lines 2, 3 and 4, ptsP amplification in the JM101, PB11 and PB12 strains, respectively; lines 5, 6 and 7, galR amplification in the JM101, PB11 and PB12 strains, respectively; line 8, amplification of the chromosomal region in the PB12 strain; line 9, (M) molecular weight markers; lines 10, 11 and 12, amplification of the chromosomal region using DNA from strains JM101, PB11 and PB12, respectively. Section B presents the oligonucleotides utilized for DNA amplifications. The left section (L) includes the oligonucleotides employed for the amplification of the ptsP and galR genes of the three strains (lines 2–7), and the right section (R) presents the entire chromosomal regions of the same three strains amplified using ptsP-fwd and galR-rv oligonucleotides (lines 8, 10–12). The nucleotide sequences of the oligos utilized are included in table S3 presented in additional file 4.