Table 3 Sequence analysis for the seven loci of the MLSA scheme
From: Multilocus genetics to reconstruct aeromonad evolution
Locus | Genus or Clade | No. of alleles (% per clade) | No. (%) of polymorphic sites | Genetic diversity (h)a | No. of non-synonymous codons | dN/dS ratio | G+C%b |
|---|---|---|---|---|---|---|---|
dnaK | Genus (n=191) | 160 | 273 (33.5) | 0.9970 | 56 | 0.27 | 58.8 |
A. caviae (n=34) | 26 (76.5) | 70 (8.6) | 0.9697 | 3 | 0.006 | 60.1 | |
A. hydrophila (n=35) | 29 (82.9) | 87 (10.7) | 0.9882 | 0 | 0 | 59.5 | |
A. veronii (n=71) | 57 (81.4) | 119 (14.6) | 0.9901 | 0 | 0 | 57.8 | |
P value | NS | 6.10-8 | - | 0.036 | - | - | |
gltA | Genus (n=191) | 141 | 160 (30.5) | 0.9900 | 21 | 0.048 | 61.5 |
A. caviae (n=34) | 18 (52.9) | 28 (6.1) | 0.8324 | 4 | 0.089 | 61.8 | |
A. hydrophila (n=35) | 26 (74.3) | 41 (8.9) | 0.9714 | 1 | 0.006 | 62.5 | |
A. veronii (n=71) | 50 (75.7) | 70 (15.1) | 0.9735 | 1 | 0.002 | 60.8 | |
P value | NS | 6.10-7 | - | NS | - | - | |
gyrB | Genus (n=191) | 154 | 278 (35.1) | 0.9966 | 39 | 0.035 | 59.1 |
A. caviae (n=34) | 26 (76.5) | 58 (7.3) | 0.9786 | 2 | 0.004 | 60.7 | |
A. hydrophila (n=35) | 28 (80.0) | 92 (11.6) | 0.9885 | 3 | 0.005 | 59.6 | |
A. veronii (n=71) | 55 (82.9) | 137 (17.3) | 0.9884 | 7 | 0.012 | 58 | |
P value | NS | 10-10 | - | NS | - | - | |
radA | Genus (n=191) | 148 | 194 (46.6) | 0.9955 | 30 | 0.061 | 62.6 |
A. caviae (n=34) | 23 (67.6) | 28 (6.7) | 0.9661 | 1 | 0.007 | 63.4 | |
A. hydrophila (n=35) | 28 (80.0) | 61 (14.5) | 0.9832 | 5 | 0.029 | 64.6 | |
A. veronii (n=71) | 50 (71.4) | 66 (15.7) | 0.9801 | 6 | 0.009 | 61.1 | |
P value | NS | 10-14 | - | NS | - | - | |
rpoB | Genus (n=191) | 111 | 98 (23.0) | 0.9846 | 6 | 0.004 | 57 |
A. caviae (n=34) | 13 (38.2) | 18 (4.2) | 0.7683 | 1 | 0.013 | 58.7 | |
A. hydrophila (n=35) | 24 (68.6) | 24 (5.6) | 0.9681 | 0 | 0 | 56.3 | |
A. veronii (n=71) | 31 (44.3) | 25 (5.9) | 0.9528 | 0 | 0 | 56.4 | |
P value | 0.02 | 0.31 | - | NS | - | - | |
tsf | Genus (n=191) | 118 | 177 (27.1) | 0.9844 | 30 | 0.068 | 55.8 |
A. caviae (n=34) | 16 (47.1) | 16 (2.3) | 0.9073 | 1 | 0.015 | 56.5 | |
A. hydrophila (n=35) | 21 (60.0) | 24 (3.4) | 0.9445 | 1 | 0.008 | 55.9 | |
A. veronii (n=71) | 37 (52.9) | 79 (11.8) | 0.9288 | 9 | 0.032 | 55.3 | |
P value | NS | 3.10-5 | - | 0.004 | - | - | |
zipA | Genus (n=191) | 137 | 380 (70.8) | 0.9929 | 130 | 0.333 | 52.4 |
A. caviae (n=34) | 20 (58.8) | 98 (18.3) | 0.9358 | 31 | 0.276 | 52.9 | |
A. hydrophila (n=35) | 25 (71.4) | 31 (5.8) | 0.9697 | 6 | 0.071 | 53.6 | |
A. veronii (n=71) | 46 (66.2) | 50 (9.3) | 0.9718 | 12 | 0.158 | 51.3 | |
P value | NS | 3.10-5 | - | 10-5 | - | - |