Olored lines connect syntenous ABT-239 web blocks of sequence in between the strains. The tree around the left hand side of (A) shows the relatedness of the strains as determined by MSLA (Figure 1). (TIF) Figure S5 Chromosomal alignments of strains within Sub-clade 3 generated making use of Progressive MAUVE [151]. Regions of important synteny amongst the strains (P. fluorescens SBW25, Pseudomonas sp. BG33R, P. fluorescens A506 and P. fluorescens SS101) are shown as colored blocks in the mauve alignment. Regions of sequence not shared in between the strains are observed as white gaps within the blocks or spaces among the blocks. Breaks among scaffolds are designated by vertical red lines extending via and below the blocks of genome BG33R. Colored lines connect syntenous blocks of sequence involving the strains. The tree around the left hand side of your figure shows the relatedness of your strains as determined by MSLA (Figure 1). (TIF) Figure S6 REP frequency. Neighborhood spacing of REPa sequence components. The frequency of your distance (bp) in between adjacent REPa sequences separated by fewer than 200 bp is shown for every single with the seven newly-sequenced strains. Distances were measured in the center of REPa sequences. (TIF) Figure S7 Similarities involving cargo genes in unique mobile genetic elements present in genomes with the P. fluorescens group. The degree of similarity is depicted by the strength of grey shading in boxes representing overlap in between two elements. Abbreviations: pro (prophage); isl (island); plas (plasmid); tn (transposon). +ni = integrase present and not intact; + = integrase present and intact; two = integrase not present. Data for Pf-5 was published previously [54]; SBW25 and Pf0-1 were not examined within this analysis. (PDF) Figure S8 Phylogenetic tree depicting the relationships of pyocin-like bacteriocins discovered in genomes of your P. fluorescens group. Translocation domains (Pfam: PF06958) have been applied for this evaluation; they are essentially the most conserved domain within the pyocin-like proteins. Proteins found inside the ten genomes examined in this study are bolded; characterized proteins are italicized. Interior node values on the tree are representative of your number of bootstraps out of 1000. Colour coding is as follows: bacteriocin group N1 (Red), group N2 (Dark blue), carocin (Light blue), Pyocin S1/2/AP41-like (Green). (TIF)Supporting InformationFigure S1 Phylogenetic tree depicting the relationships amongsequenced strains of Pseudomonas spp. The tree is determined by 16S rDNA alignments and was generated working with the MrBayes package [152]. The interior PubMed ID:http://www.ncbi.nlm.nih.gov/pubmed/20031610 node values from the tree are clade credibility values, which represent the likelihood of the clade current, based on the posterior probability values created by MrBayes. (TIF)Figure S2 Phylogenetic tree depicting the relationships amongsequenced strains of Pseudomonas spp. This maximum likelihood tree is depending on the concatenated alignments of 726 shared proteins discovered inside all of the genomes and was generated using the Hal pipeline [153].The ten strains of this study (Table 1) had been evaluated for all phenotypes shown and classified as shown in Table S16 in accordance with this crucial. Abbreviations and definitions are as follows: Fluorescence (fluorescence of colonies viewed under UV light); Arginine (arginine dihydrolase activity); Oxidase (oxidase activity); HR on Tobacco (hypersensitivity response on tobacco); Levan (levan sucrase activity); Gelatin (gelatinase activity); L-ara (L-arabinose); L-trp (L-tryptophan); P. fluor. (P.
