fluorescens CHA0 [83], 1; P. fluorescens Pf-5 [5], 2; P. fluorescens Q2-87 [84], 3; P. fluorescens Q2-1 [84], 4; P. fluorescens STAD384 [85], 5; P. fluorescens Q8r1-96 [74], 6; P. fluorescens MVW1-1 [86], 7; P. fluorescens FTAD1R34 [85],

8; P. fluorescens ATCC49054 [87], 9; P. fluorescens Q128-87 [85], 10; P. fluorescens OC4-1 [85], 11; P. fluorescens FFL1R9 [85], 12; P. fluorescens Q2-5 [84], 13; P. fluorescens QT1-5 [84], 14; P. fluorescens W2-6 [84], 15; P. fluorescens Q2-2 [84], 16; P. fluorescens Q37-87 [84], 17; P. fluorescens QT1-6 [84], 18; P. fluorescens JMP6 [84], 19; P. fluorescens JMP7 [84], 20; P. fluorescens FFL1R18 [84], 21; P. fluorescens CV1-1 [84], 22; P. fluorescens FTAD1R36 [84], 23; P. fluorescens Dabrafenib order FFL1R22 [84], 24; selleck P. fluorescens F113 [88], 25; P. fluorescens W4-4 [84], 26; P. fluorescens D27B1 [84], 27; P. fluorescens HT5-1 [84], 28; P. fluorescens 7MA12 [86], 29; P. fluorescens MVP1-4 [86], 30; P. fluorescens MVW1-1 [86], 31; P. fluorescens MVW4-2 [86], 32; P. fluorescens ATCC17400 [89], 33; P. fluorescens SBW25 [90], 34. Prophage 03 of P. fluorescens Pf-5 A second large prophage, prophage 03, spans 33.5 kb (Fig. 5A; see Additional

file 3) of the Pf-5 genome. Closely related prophages exist in the genomes of P. putida KT2440 [25] and P. syringae pv. tomato DC3000 [24] (Fig. 2) but were not found in P. fluorescens strains Pf0-1 or SBW25. Prophage 03 is a chimeric element that contains a siphovirus head morphogenesis region and a myovirus-like tail assembly region (Fig. 5A). The prophage also carries a putative integrase SP600125 purchase gene (PFL_1976) that encodes an enzyme similar to shufflon recombinases such as the Rci recombinase from plasmid R64 [26], a gene involved in DNA modification

(PFL_1978), and a gene for a cytosine-specific methylase (PFL_1979). Genes encoding a LexA-like repressor (PFL_1986), a putative single strand Ribonucleotide reductase binding protein (PFL_1989), and two genes (PFL_1976 and PFL_1982) with similarity to the pyocin transcriptional activator prtN also are present in this region. Holin (PFL_1991) and endolysin (PFL_2018) genes flank a region containing DNA packaging and head morphogenesis and tail assembly genes. The P2-like tail assembly region closely resembles the R2-specific part of R2/F2 pyocin locus of P. aeruginosa PA01 [19] (Fig. 5A) and includes genes encoding a tail sheath protein (PFL_2009), a tape measure protein (PFL_2013), a major tail tube protein (PFL_2010), baseplate assembly proteins (PFL_2002 and PFL_2003), and a tail fiber protein (PFL_2007). This region also contains genes involved in head morphogenesis (PFL_1993–1998) that are not present in the R-part of R2/F2-type pyocin cluster of P. aeruginosa PA01. Therefore, prophage 03 may represent the genome of a temperate bacteriophage rather than an R-type pyocin. Figure 5 Comparison of genetic organization of prophages 03 (A) and 06 (B) to that of R2/F2 pyocin locus from P. aeruginosa PA01 [19]and B. thailandensis phage φE125, respectively.