D from comparative BLASTp searches in the predicted proteomes of representative Pseudomonas spp. (shown in Figure 1). (PDF) Table S8 Genes shared by and special to strains Q8r1-96 and Q2-87. Locus tags represent CDSs conserved among the genomes of strains Q8r1-96, and Q2-87, but absent in the genomes of all other representative Pseudomonas spp. These CDSs have been identified from comparative BLASTp searches of the predicted proteomes of representative Pseudomonas spp. (shown in Figure 1). (PDF) Table S9 Genes shared by and distinctive to strains in Sub-clade three of the P. fluorescens group. Locus tags represent CDSs conserved among the genomes of strains BG33R, SBW25, A506, and SS101, but absent from the genomes of all other representative Pseudomonas spp. These CDSs had been identified from comparative BLASTp searches on the predicted proteomes of representative Pseudomonas spp. (shown in Figure 1). (PDF) Table Stransposases, and numbers of copies of intact or remnant transposons in every genome. (PDF)Table S13 Mobile genetic components in the genomes of seven strains inside the P. fluorescens group. The following facts is provided for every prophage or genomic island inside the genomes of strains 30-84, O6, Q8r1-96, Q2-87, BG33R, A506, and SS101: presence of an integrase, insertion website, size, locus tags, and selected cargo genes. (PDF) Table S14 Bioassays linking gene inventories to phenotypes of strains inside the P. fluorescens group. Ten strains had been evaluated for the production of levan sucrase, exoprotease, gelatinase, lipase, chitinase, and hydrogen cyanide also as biosurfactant and hemolytic activities connected with cyclic lipopetide production. Derivatives of some strains having mutations in ofaA, aprA, hcnB, viscA, massA, or gacA were also evaluated to serve as damaging controls in these experiments correlating genotypes to phenotypes. A derivative of Pf0-1 containing a plasmid-borne gacA+ made exoprotease, gelatinase, lipase, chitinase, and hydrogen cyanide and exhibited biosurfactant and hemolytic activity. In contrast, strain Pf0-1 was adverse for these phenotypes, supporting our conclusion that the sequenced strain of Pf0-1 features a mutation in gacA. (PDF) Table SConsensus sequences and logos of REP components within the genomes of your P. fluorescens group. HMM searches were applied to identify the occurrence of REP components within the genomes of strains inside the P. fluorescens group. The number of occurrences at the same time because the consensus order Tyrphostin NT157 sequence and consensus sequence logo are presented for REP components appearing extra than 250 instances in a genome. Imperfect palindromes identified within the consensus sequence are highlighted in red and blue and palindromic nucleotides are underlined. (PDF) REP HMM hits across Pseudomonas spp. genome sequences. HMM searches across the genomes of a collection of Pseudomonas strains had been carried out working with the REP sequences identified inside the P. fluorescens group to gauge the broader distribution of these sequence elements. Shading highlights strains containing significant numbers of REP sequence components: REPa, grey; REPb, pink; REPc, green; REPd, orange; REPe, blue. (PDF)Putative sort III secretion program effectors were identified in six genomes from the P. fluorescens group. T3SS effectors were identified by BLASTp, depending on their similarities to members of recognized bacterial effector households. PubMed ID:http://www.ncbi.nlm.nih.gov/pubmed/20031165 The six genomes also had been screened employing hidden Markov models (HMMs) built from the compilation of P. syringae Hrp boxes. Putative T3SS e.
