Figure 2.

Dot plot comparison of P. fluorescens Pf-5 prophages with similar prophage regions in the genomes of P. fluorescens Q8r1-96 [GenBank EU982300], P. fluorescens Pf0-1 [GenBank CP000094], P. syringae pv. tomato DC3000 [24], P. syringae pv. syringae B728a [36], P. syringae pv. phaseolicola 1448a [37], P. putida KT2440 [25], P. aeruginosa PA01 [82], P. aeruginosa UCBPP-PA14 [35], and P. aeruginosa PA7 [GenBank CP000744]. All prophage sequences were extracted from genomes, concatenated and aligned using a dot plot function from OMIGA 2.0 with a sliding window of 45 and a hash value of 6. Genome regions used in the analysis encompass open reading frames with following locus tags: P. fluorescens Pf0-1 prophage1 – Pfl01_1135 through Pfl01_1173; P. syringae pv. tomato DC3000 prophage1 – PSPTO_0569 through PSPTO_0587; P. syringae pv. tomato DC3000 prophage3 – PSPTO_3385 through PSPTO_3432; P. syringae pv. syringae 728a genomic island GI11 – Psyr_2763 through Psyr_2846; P. syringae pv. syringae 728a genomic island GI12 – Psyr_4582 through Psyr_4608; P. syringae pv. phaseolicola 1448a prophage1 – PSPPH_0650 through PSPPH_0671; P. putida KT2440 P2 like pyocin – PP3031 through PP3066; P. putida KT2440 Mu SfV hybrid prophage – PP3849 through PP3920; P. entomophila L48 prophage1 – PSEEN4129 through PSEEN4186; P. aeruginosa PAO1 prophage1 – PA0610 through PA0648; P. aeruginosa PA14 prophage1 – PA14_07950 through PA14_08330; P. aeruginosa PA7 prophage1 – PSPA7_0754 through PSPA7_0789; P. aeruginosa PA7 prophage2 – PSPA7_2366 through PSPA7_2431.

Mavrodi et al. BMC Microbiology 2009 9:8   doi:10.1186/1471-2180-9-8
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