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Table 3 Summary of synonymous to non-synonymous nucleotide substitution patterns within SMR family subclasses SMP and SUG.

From: Diversity and evolution of the small multidrug resistance protein family

SMR 1 SMR 2 Sd Nd S N pS pN dS dN dS/dN
SMP mean 57.27 83.94 79.63 220.37 0.72 0.38 1.68 0.55 3.57
Hsa-smr Tfu-smr 39.12 88.88 85.17 214.83 0.46 0.41 0.71 0.6 1.18
  Ser-smr 43.12 90.88 85.5 214.5 0.5 0.42 0.84 0.62 1.34
  Cli-smr 55 86 82.33 217.67 0.67 0.4 1.66 0.56 2.96
  Fjo-smr 71.88 90.12 77.67 222.33 0.93 0.41 NA 0.58 NA
  Ssp-emrE 50.25 88.75 84.83 215.17 0.59 0.41 1.17 0.6 1.95
  Cau-emrE 56 85 82.83 217.17 0.68 0.39 1.74 0.55 3.14
  Bja-emrE 44.88 86.12 83.5 216.5 0.54 0.4 0.95 0.57 1.67
  Bme-emrE 55.38 70.62 83.67 216.33 0.66 0.33 1.61 0.43 3.75
  Bxe-emrE 49.88 77.12 85.5 214.5 0.58 0.36 1.13 0.49 2.30
  Pae-emrE 46.88 77.12 85.33 214.67 0.55 0.36 0.99 0.49 2.02
  Eco-emrE 66.5 96.5 79.33 220.67 0.84 0.44 NA 0.66 NA
  Gsu-emrE 49.88 78.12 84.5 215.5 0.59 0.36 1.16 0.5 2.34
  I-qacE 65.62 77.38 81.17 218.83 0.81 0.35 NA 0.48 NA
  PI-qacEΔ1 64.12 85.88 81.67 218.33 0.79 0.39 NA 0.56 NA
  P-qacF 47.75 79.25 80.83 219.17 0.59 0.36 1.16 0.49 2.35
  P-qacG 61 89 80.67 219.33 0.76 0.41 NA 0.58 NA
  P-qacH 71.25 102.75 76.5 223.5 0.93 0.46 NA 0.71 NA
  P-qacJ 72.88 92.12 78 222 0.93 0.41 NA 0.6 NA
Eco-emrE Tfu-smr 70.75 98.25 79.5 220.5 0.89 0.45 NA 0.68 NA
  Ser-smr 67.62 105.38 79.83 220.17 0.85 0.48 NA 0.76 NA
  Cli-smr 57.5 79.5 76.67 223.33 0.75 0.36 NA 0.48 NA
  Fjo-smr 52.88 86.12 72 228 0.73 0.38 2.9 0.53 5.53
  Ssp-emrE 61 104 79.17 220.83 0.77 0.47 NA 0.74 NA
  Cau-emrE 55.25 85.75 77.17 222.83 0.72 0.38 2.32 0.54 4.30
  Bja-emrE 63.62 82.38 77.83 222.17 0.82 0.37 NA 0.51 NA
  Bme-emrE 59.12 75.88 78 222 0.76 0.34 NA 0.46 NA
  Bxe-emrE 63 74 79.83 220.17 0.79 0.34 NA 0.45 NA
  Pae-emrE 64.38 85.62 79.67 220.33 0.81 0.39 NA 0.55 NA
  Gsu-emrE 62.25 69.75 78.83 221.17 0.79 0.32 NA 0.41 NA
  I-qacE 47.5 84.5 75.5 224.5 0.63 0.38 1.37 0.52 2.62
  PI-qacEΔ1 47.5 88.5 76 224 0.62 0.4 1.34 0.56 2.39
  P-qacF 63.75 73.25 75.17 224.83 0.85 0.33 NA 0.43 NA
  P-qacG 60.12 83.88 75 225 0.8 0.37 NA 0.52 NA
  P-qacH 52.62 97.38 70.83 229.17 0.74 0.42 3.5 0.63 5.58
  P-qacJ 53.38 88.62 72.33 227.67 0.74 0.39 3.1 0.55 5.64
SUG mean 55.11 91.77 78.26 221.74 0.71 0.41 1.83 0.63 3.41
Hla-sugE Mba-sugE 60.5 73.5 75.83 224.17 0.8 0.33 NA 0.43 NA
  Tfu-sugE 45.25 75.75 80.83 219.17 0.56 0.35 1.03 0.46 2.22
  Ser-sugE 39.5 87.5 80.83 219.17 0.49 0.4 0.79 0.57 1.39
  Cli-sugE 61.25 76.75 78.83 221.17 0.78 0.35 NA 0.47 NA
  Fjo-SugE 64.75 82.25 75.17 224.83 0.86 0.37 NA 0.5 NA
  Gvo-sugE 50.38 66.62 80.83 219.17 0.62 0.3 1.33 0.39 3.42
  Bja-sugE 47.25 74.75 80 220 0.59 0.34 1.16 0.45 2.57
  Bme-sugE 55.38 79.62 78.5 221.5 0.71 0.36 2.12 0.49 4.33
  Bxe-sugE 50.25 72.75 80 220 0.63 0.33 1.36 0.44 3.13
  Pae-sugE1 49.5 82.5 80.83 219.17 0.61 0.38 1.27 0.52 2.43
  Pae-sugE2 47.12 57.88 82 218 0.57 0.27 1.09 0.33 3.33
  Eco-sugE 62 66 79.83 220.17 0.78 0.3 NA 0.38 NA
  Gsu-sugE 51.88 67.12 81.17 218.83 0.64 0.31 1.43 0.39 3.63
  I-qacE 62.38 109.62 78.5 221.5 0.79 0.49 NA 0.81 NA
  PI-qacEΔ1 60.12 116.88 79 221 0.76 0.53 NA 0.92 NA
  P-qacF 48.88 115.12 78.17 221.83 0.63 0.52 1.35 0.88 1.52
  P-qacG 51.75 116.25 78 222 0.66 0.52 1.62 0.9 1.80
  P-qacH 70.12 110.88 73.83 226.17 0.95 0.49 NA 0.8 NA
  P-qacJ 68.75 111.25 75.33 224.67 0.91 0.5 NA 0.81 NA
  P-Cfr-sugE 62.62 68.38 80.17 219.83 0.78 0.31 NA 0.4 NA
  I-sugE 56 89 79.83 220.17 0.7 0.4 2.05 0.58 3.54
Eco-sugE Mba-sugE 61.62 83.38 76 224 0.81 0.37 NA 0.51 NA
  Tfu-sugE 60.38 76.62 81 219 0.75 0.35 3.82 0.47 8.10
  Ser-sugE 53.12 78.88 81 219 0.66 0.36 1.56 0.49 3.17
  Cli-sugE 57.25 65.75 79 221 0.72 0.3 2.54 0.38 6.71
  Fjo-sugE 57.25 91.75 75.33 224.67 0.76 0.41 NA 0.59 NA
  Gvo-sugE 60.75 59.25 81 219 0.75 0.27 NA 0.34 NA
  Bsp-sugE 55 68 80.17 219.83 0.69 0.31 1.85 0.4 4.63
  Bme-sugE 59.12 60.88 78.67 221.33 0.75 0.28 NA 0.34 NA
  Bxe-sugE 56.62 56.38 80.17 219.83 0.71 0.26 2.13 0.31 6.80
  Pae-sugE1 57.75 69.25 81 219 0.71 0.32 2.26 0.41 5.49
  Pae-sugE2 59.88 46.12 82.17 217.83 0.73 0.21 2.67 0.25 10.74
  Gsu-sugE 62.75 52.25 81.33 218.67 0.77 0.24 NA 0.29 NA
  I-qacE 57 102 78.67 221.33 0.72 0.46 2.54 0.71 3.55
  PI-qacEΔ1 54.5 109.5 79.17 220.83 0.69 0.5 1.87 0.81 2.31
  P-qacF 56.38 113.62 78.33 221.67 0.72 0.51 2.41 0.86 2.79
  P-qacG 60.5 99.5 78.17 221.83 0.77 0.45 NA 0.68 NA
  P-qacH 54.5 120.5 74 226 0.74 0.53 3.01 0.93 3.24
  P-qacJ 53.25 118.75 75.5 224.5 0.71 0.53 2.12 0.92 2.31
  P-Cfr-sugE 47.38 26.62 80.33 219.67 0.59 0.12 1.16 0.13 8.75
  I-sugE 59 98 80 220 0.74 0.45 3.07 0.68 4.54
  1. List of abreviations: Sd is the number of observed synonymous substitutions; Nd is the number of observed non-synonymous substitutions; S is the number of potential synonymous substitutions; N is the number of potential non-synonymous substitutions; pS is the proportion of observed synonymous substitutions; pN is the proportion of observed non-synonymous substitutions; dS is the Jukes-Cantor correction for multiple hits of pS; dN is the Jukes-Cantor correction for multiple hits of pN.
  2. Species are listed according to a three letter species abbreviation followed by the SMR subclass name: Bja Bradyrhizobium japonicum; Bme Brucella melitensis; Bsp Bradyrhizobium sp. ORS278; Bxe Burkholderia xenovorans; Cau Chloroflexus aurantiacus; Cfr Citrobacter freundii; Cli Chlorobium limicola; Fjo Flavobacterium johnsoniae; Gsu Geobacter sulfurreducens; Gvo Gloeobacter violaceus; Hla Halorubrum lacusprofundi; Hsa Halobacterium salinarum; Mba Methanosarcina barkeri; Pae Pseudomonas aeruginosa; Ser Saccharopolyspora erythraea; Ssp Synechococcus sp. RS9917; Tfu Thermobifida fusca; P plasmid encoded; I integron encoded; PI plasmid/integron encoded; NA data not available.