fluorescens CHA0 , 1; P. fluorescens Pf-5 , 2; P. fluorescens Q2-87 , 3; P. fluorescens Q2-1 , 4; P. fluorescens STAD384 , 5; P. fluorescens Q8r1-96 , 6; P. fluorescens MVW1-1 , 7; P. fluorescens FTAD1R34 ,
8; P. fluorescens ATCC49054 , 9; P. fluorescens Q128-87 , 10; P. fluorescens OC4-1 , 11; P. fluorescens FFL1R9 , 12; P. fluorescens Q2-5 , 13; P. fluorescens QT1-5 , 14; P. fluorescens W2-6 , 15; P. fluorescens Q2-2 , 16; P. fluorescens Q37-87 , 17; P. fluorescens QT1-6 , 18; P. fluorescens JMP6 , 19; P. fluorescens JMP7 , 20; P. fluorescens FFL1R18 , 21; P. fluorescens CV1-1 , 22; P. fluorescens FTAD1R36 , 23; P. fluorescens FFL1R22 , 24; selleck chemical P. fluorescens F113 , 25; P. fluorescens W4-4 , 26; P. fluorescens D27B1 , 27; P. fluorescens HT5-1 , 28; P. fluorescens 7MA12 , 29; P. fluorescens MVP1-4 , 30; P. fluorescens MVW1-1 , 31; P. fluorescens MVW4-2 , 32; P. fluorescens ATCC17400 , 33; P. fluorescens SBW25 , 34. Erastin 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  and P. syringae pv. tomato DC3000  (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 Selleck MLN0128 gene (PFL_1976) that encodes an enzyme similar to shufflon recombinases such as the Rci recombinase from plasmid R64 , 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 Progesterone 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  (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 and B. thailandensis phage φE125, respectively.