| Immobilized DNA/reference genome | Probe DNA/tester genome | DDH (%) | ANI (%) | Percentage conserved DNA |
|---|---|---|---|---|
| Bacillus hybridization group | ||||
| ATCC 10987 | ATCC 14579T | 66.4±0.8 | 90.93 | 49.7 |
| ATCC 14579T | ATCC 10987 | 61.2±3.0 | 90.87 | 48.3 |
| Burkholderia hybridization group | ||||
| ATCC 17760 | HI2424 | 57.4±4.1 | 89.77 | 39.6 |
| J2315T | 54.5±2.4 | 89.88 | 42.7 | |
| LB400T | 13.8±1.8 | 76.10 | 0.4 | |
| G4 | 32.4±4.7 | 86.31 | 18.1 | |
| AU1054 | LB400T | 14.8±0.8 | 76.80 | 0.5 |
| G4 | 36.5±3.6 | 87.35 | 24.6 | |
| HI2424 | ATCC 17760 | 45.4±10.7 | 89.89 | 43.3 |
| J2315T | 66.1±0.8 | 93.84 | 72.6 | |
| LB400T | 12.5±1.1 | 76.50 | 0.5 | |
| G4 | 37.7±6.0 | 87.16 | 23.1 | |
| J2315T | ATCC 17760 | 55.8±10.8 | 90.28 | 46.9 |
| HI2424 | 68.8±0.1 | 93.86 | 72.1 | |
| LB400T | 13.0±3.1 | 76.60 | 0.6 | |
| G4 | 37.0±4.7 | 87.40 | 23.3 | |
| LB400T | ATCC 17760 | 12.6±1.5 | 75.95 | 0.5 |
| AU1054 | 11.8±4.1 | 76.24 | 0.4 | |
| HI2424 | 12.7±1.1 | 76.21 | 0.4 | |
| J2315T | 13.7±2.2 | 76.04 | 0.4 | |
| G4 | 10.1±1.2 | 76.15 | 0.5 | |
| G4 | ATCC 17760 | 29.9±9.0 | 86.94 | 18.6 |
| AU1054 | 26.3±8.0 | 87.56 | 21.6 | |
| HI2424 | 26.2±1.9 | 87.52 | 21.8 | |
| J2315T | 34.2±5.2 | 87.54 | 22.4 | |
| LB400T | 9.0±1.2 | 76.60 | 0.5 | |
| Escherichia/Shigella hybridization group | ||||
| CFT073 | E2348/69 | 74.8±3.6 | 97.62 | 79.5 |
| K-12 MG1655 | 89.0 | 96.07 | 73.6 | |
| O157 : H7 EDL933 | 78.2±1.3 | 96.01 | 74.6 | |
| O157 : H7 Sakai | 85.5±3.0 | 96.00 | 74.9 | |
| O42 | 81.4±7.1 | 95.90 | 77.9 | |
| 2a 2457T | 66.9±5.5 | 95.90 | 69.0 | |
| 53G | 72.8 | 95.93 | 70.4 | |
| E2348/69 | CFT073 | 78.1±6.3 | 97.85 | 82.8 |
| K-12 MG1655 | 75.7±6.8 | 96.39 | 74.8 | |
| O157 : H7 EDL933 | 74.2±3.6 | 96.18 | 78.4 | |
| O157 : H7 Sakai | 81.8±3.4 | 96.23 | 78.8 | |
| O42 | 78.7±3.5 | 96.14 | 77.2 | |
| 2a 2457T | 65.0±0.7 | 96.09 | 70.7 | |
| 53G | 64.3±3.4 | 96.01 | 72.6 | |
| K-12 MG1655 | CFT073 | 95.7±1.5 | 96.38 | 83.1 |
| E2348/69 | 75.5±4.1 | 96.48 | 81.5 | |
| O157 : H7 EDL933 | 78.8±2.2 | 97.50 | 88.0 | |
| O157 : H7 Sakai | 84.8±3.7 | 97.53 | 88.0 | |
| O42 | 75.5±1.8 | 96.83 | 87.5 | |
| 2a 2457T | 63.4±0.6 | 97.61 | 81.2 | |
| 53G | 70.4 | 97.80 | 84.1 | |
| O157 : H7 EDL933 | CFT073 | 83.0±7.1 | 96.04 | 72.6 |
| E2348/69 | 78.2±2.7 | 95.90 | 73.8 | |
| K-12 MG1655 | 79.7±4.7 | 97.28 | 74.2 | |
| O157 : H7 Sakai | 104.1±3.1 | 99.68 | 99.6 | |
| O42 | 73.3±1.7 | 95.91 | 77.3 | |
| 2a 2457T | 65.6±1.6 | 96.66 | 68.5 | |
| 53G | 75.1±4.8 | 96.77 | 72.4 | |
| O157 : H7 Sakai | CFT073 | 83.8±3.5 | 95.85 | 71.4 |
| E2348/69 | 77.1±3.9 | 95.76 | 72.8 | |
| K-12 MG1655 | 75.9±6.5 | 97.25 | 73.2 | |
| O157 : H7 EDL933 | 97.7±1.1 | 99.63 | 97.3 | |
| O42 | 78.2±3.6 | 95.84 | 76.8 | |
| 2a 2457T | 61.3±0.5 | 96.54 | 67.8 | |
| 53G | 71.2±2.5 | 96.57 | 71.9 | |
| O42 | CFT073 | 84.5±6.0 | 96.04 | 76.5 |
| E2348/69 | 71.4±3.1 | 96.10 | 73.1 | |
| K-12 MG1655 | 71.7±2.2 | 96.75 | 76.1 | |
| O157 : H7 EDL933 | 76.7±1.6 | 96.26 | 79.1 | |
| O157 : H7 Sakai | 77.1±4.2 | 96.27 | 79.5 | |
| 2a 2457T | 64.4±0.7 | 96.39 | 70.3 | |
| 53G | 66.7 | 96.10 | 72.4 | |
| 2a 2457T | CFT073 | 78.1±7.5 | 96.40 | 82.0 |
| E2348/69 | 67.5±1.7 | 96.31 | 79.3 | |
| K-12 MG1655 | 72.8±3.4 | 97.75 | 84.6 | |
| O157 : H7 EDL933 | 70.0±6.5 | 97.30 | 84.6 | |
| O157 : H7 Sakai | 70.5±0.0 | 97.36 | 84.8 | |
| O42 | 69.2±1.7 | 96.70 | 84.7 | |
| 53G | 78.4±1.1 | 97.89 | 85.3 | |
| 53G | CFT073 | 83.3 | 96.20 | 73.6 |
| E2348/69 | 77.6±2.0 | 96.20 | 71.6 | |
| K-12 MG1655 | 79.2 | 97.80 | 77.7 | |
| O157 : H7 EDL933 | 73.6±6.0 | 97.15 | 77.7 | |
| O157 : H7 Sakai | 76.8±3.3 | 97.09 | 78.3 | |
| O42 | 76.1 | 96.55 | 77.3 | |
| 2a 2457T | 81.0±4.7 | 97.68 | 75.8 | |
| Pseudomonas hybridization group | ||||
| PAO1 | Pf-5 | 14.4±0.6 | 75.75 | 0.003 |
| PfO-1 | 13.9±0.2 | 74.86 | 0.002 | |
| SBW25 | 14.7±1.5 | 74.47 | 0.002 | |
| B728a | 8.5±0.5 | 73.92 | 0.003 | |
| DC3000 | 6.3±0.3 | 73.57 | 0.002 | |
| Pf-5 | PAO1 | 13.6±0.3 | 75.50 | 0.0001 |
| PfO-1 | 25.8±0.3 | 80.63 | 2.6 | |
| SBW25 | 29.6±2.6 | 80.02 | 2.3 | |
| B728a | 14.1±1.3 | 76.89 | 0.006 | |
| DC3000 | 11.2±0.0 | 76.63 | 0.006 | |
| PfO-1 | PAO1 | 13.0±0.0 | 74.73 | 0.001 |
| Pf-5 | 29.4±0.1 | 80.64 | 2.9 | |
| SBW25 | 32.4±2.1 | 80.18 | 2.6 | |
| B728a | 19.1±0.8 | 77.01 | 0.007 | |
| DC3000 | 15.3±0.3 | 76.95 | 0.006 | |
| SBW25 | PAO1 | 10.5±7.0 | 74.27 | 0.003 |
| Pf-5 | 24.9±3.0 | 79.97 | 2.0 | |
| PfO-1 | 26.3±3.0 | 80.14 | 2.8 | |
| B728a | 14.8±1.2 | 76.59 | 0.009 | |
| DC3000 | 11.7±1.5 | 76.33 | 0.008 | |
| B728a | PAO1 | 7.6±0.7 | 73.64 | 0.001 |
| Pf-5 | 12.7±0.1 | 76.62 | 0.008 | |
| PfO-1 | 16.7±0.2 | 76.66 | 0.008 | |
| SBW25 | 18.0±1.2 | 76.47 | 0.007 | |
| DC3000 | 37.8±2.3 | 85.46 | 13.1 | |
| DC3000 | PAO1 | 6.1±0.2 | 73.61 | 0.003 |
| Pf-5 | 10.5±0.5 | 76.84 | 0.008 | |
| PfO-1 | 13.0±0.2 | 76.91 | 0.009 | |
| SBW25 | 15.7±1.6 | 76.65 | 0.009 | |
| B728a | 38.5±2.8 | 85.73 | 12.4 | |
| Shewanella hybridization group | ||||
| OS155 | MR-1T | 25.7 | 78.32 | 2.31 |
| CN-32 | 26.1 | 81.88 | 6.85 | |
| MR-1T | OS155 | 26.2 | 78.52 | 3.61 |
| CN-32 | 21.1±4.9 | 78.63 | 2.90 | |
| CN-32 | OS155 | 27.8 | 81.90 | 7.67 |
| MR-1T | 22.1±8.1 | 78.46 | 2.20 | |
| Streptococcus hybridization group | ||||
| 2603 V/R | A909 | 95.5±4.0 | 98.78 | 87.6 |
| NEM 316 | 89.6±4.8 | 98.36 | 87.3 | |
| A909 | 2603 V/R | 91.4±5.3 | 98.74 | 86.9 |
| NEM 316 | 92.8±0.1 | 98.61 | 86.2 | |
| NEM 316 | 2603 V/R | 83.1±4.3 | 98.34 | 84.9 |
| A909 | 88.5±3.3 | 98.61 | 84.7 |
Table 2.
DDH values, ANI and percentage of conserved DNA among the strains studied
Values for DDH are means±sd for independent repetitions of the same hybridization reaction; values without a standard deviation were determined only once. The percentage of conserved DNA was determined at a cut-off point of 90 % nucleotide identity (as calculated by blastn).
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