Skip to main content

Table 2 In silico comparison and comparative hybridization results for the two wbp gene clusters of PAO1

From: Evaluation of a microarray-hybridization based method applicable for discovery of single nucleotide polymorphisms (SNPs) in the Pseudomonas aeruginosa genome

gene information in silico analysis comparative hybridization
    count of similarity classesa    
PAO1 locus ID PA14 locus ID gene name ident. SNP mism. absent total average sequence similarity detected oligosb sensitivityb
PA3141 PA14_23470 wbpM 54 7 4 5 70 0.97 12 0.75
PA3142* absent   4 3 4 1 12 0.93 7 0.88
PA3143* absent   4 4 8 3 19 0.90 11 0.73
PA3144* absent   1 0 4 0 5 0.91 4 1.00
PA3145* PA14_23460 wbpL 0 0 3 33 36 0.71 35 0.97
PA3146* PA14_23450 wbpK 0 0 6 28 34 0.71 33 0.97
PA3147* absent wbpJ 0 0 6 37 43 0.72 43 1.00
PA3148* absent wbpI 0 0 7 30 37 0.74 37 1.00
PA3149* absent wbpH 0 0 6 33 39 0.72 39 1.00
PA3150* absent wbpG 0 0 3 36 39 0.70 39 1.00
PA3151* absent hisF2 0 0 3 24 27 0.69 26 0.96
PA3152* absent hisH2 0 0 1 21 22 0.70 22 1.00
PA3153* absent wzx 0 0 1 43 44 0.71 43 0.98
PA3154* absent wzy 0 0 1 45 46 0.70 46 1.00
PA3155* absent wbpE 0 0 5 33 38 0.72 38 1.00
PA3156* absent wbpD 0 0 4 17 21 0.72 20 0.95
PA3157* absent   0 0 14 51 65 0.73 64 0.98
PA3158* absent wbpB 0 0 7 26 33 0.74 33 1.00
PA3159* absent wbpA 0 0 14 32 46 0.73 46 1.00
PA3160 PA14_23360 wzz 0 0 5 31 36 0.71 36 1.00
PA3161 PA14_23340 himD 8 1 1 0 10 0.99 1 0.50
PA5447 PA14_71910 wbpZ 35 4 1 0 40 0.99 5 1.00
PA5448 PA14_71920 wbpY 34 5 0 0 39 0.99 2 0.40
PA5449 PA14_71930 wbpX 40 8 1 0 49 0.99 4 0.44
PA5450 PA14_71940 wzt 40 5 0 0 45 1.00 3 0.60
PA5451 PA14_71960 wzm 24 5 0 0 29 0.99 3 0.60
PA5452 PA14_71970 wbpW 42 6 1 0 49 0.99 4 0.57
  1. * genes belonging to the PAO1 specific region.
  2. a see Figure 2 for a definition of the similarity classes.
  3. bdetermined for D th = -0.5.