TABLE 2

Contigs, coordinates, and terminal sequences corresponding to the OPR-13 primer of the RAPD fragments of strains G-1, F1-1, and F2-1

Fragment and strainGene product(s)Contig no.Coordinates (nt)Sequence corresponding to OPR-13aLength (bp)Band presenceb
AAmido-phospho-ribosyl transferase PurF, phospho-ribosyl-formyl glycinamidine cyclo-ligase PurM
    Strain G-11246579–481925′-GCACGACAAG-3′1,614Y
5′-AGACGACAAG-3′
    Strain F1-13088368–899805′-GCACGACGAG-3′1,614N
5′-AGACGACGAG-3′
    Strain F2-12976720–783325′-GCACGACGAG-3′1,614N
5′-AGACGACGAG-3′
BTransmembrane protein YrbG, putative integral inner membrane protein YrzE
    Strain G-130353213–3546895′-TGCCGACAAG-3′1,477Y
5′-AAACGACAAG-3′
    Strain F1-111223031–12245255′-TGCCGACAAG-3′1,503Y
5′-AAACGACAAG-3′
    Strain F2-135105908–1074025′-TGCCGACAAG-3′1,504Y
5′-AAACGACAAG-3′
CArabinose metabolism transcriptional repressor protein
    Strain G-141276–17515′-CGACGACAAG-3′476Y
5′-GGACGACAAG-3′
    Strain F1-1151297–17735′-CGACGACCAA-3′478N
5′-GGACGACAAG-3′
    Strain F2-1131293–17695′-CGACGACCAA-3′478N
5′-GGACGACAAG-3′
DRod-shape-determining protein RodA
    Strain G-115347230–3481385′-ATACGACAAG-3′910Y
5′-GCACGACAAG-3′
    Strain F1-1527148–280565′-ATACGACAAG-3′909Y
5′-GCACGACAAG-3′
    Strain F2-1662068–629765′-GCACGACAAG-3′909Y
5′-ATACGACAAG-3′
EHomologous, with a region encoding a hypothetical protein of B. licheniformis WX-02 that has homology to an ABC-type exporter (of probably bacteriocin/lantibiotic) and peptidase domains
    Strain G-1N
    Strain F1-1N
    Strain F2-135237929–2385615′-GGAAGACAAG-3′633Y
5′-AGACGACAAG-3′
FPhospholipid biosynthesis protein PlsX, malonyl coenzyme A-acyl carrier protein transacylase
    Strain G-131223684–2245835′-GGACGCCAAG-3′900Y
5′-AAACGACAAG-3′
    Strain F1-11129878–1307775′-GGACGCCAAG-3′900Y
5′-AAACGACAAG-3′
    Strain F2-127129870–1307695′-GGACGCCAAG-3′900Y
5′-AAACGACAAG-3′
  • a Bases in boldface are the differences in the regions corresponding to the OPR-13 primer (5′-GGACGACAAG-3′) compared to the genome sequence. Note that although there are mismatches in the regions corresponding to the OPR-13 primer in most of the terminal ends of these sequences, there are additional mismatches in the fragments A and C at the 3′ end of one or both these regions in strains F1-1 and F2-1 compared to the sequence in strain G-1. This is probably the reason that these bands were seen in the RAPD gel only in the case of strain G-1.

  • b Presence (Y) or absence (N) of the bands in the RAPD gel.