TABLE 3.
SNP profiles of E. faecium isolates
| No. of isolates with profile | Polymorphism at SNP: |
SNP profile | ST(s) in MLST | |||||||
|---|---|---|---|---|---|---|---|---|---|---|
| 1, pstS452 | 2, atpA485 | 3, gyd160 | 4, purK115 | 5, pstS87 | 6, atpA314 | 7, atpA188 | 8, purk217 | |||
| 1 | A | A | C | C | C | T | T | C | AACCCTTC | Newa |
| 1 | A | G | A | C | C | C | T | C | AGACCCTC | New |
| 2 | A | G | A | T | C | T | C | C | AGATCTCC | New |
| 1 | A | G | A | T | C | T | T | C | AGATCTTC | New |
| 1 | A | G | C | C | T | T | T | C | AGCCTTTC | New |
| 3 | A | G | C | T | C | T | C | C | AGCTCTCC | ST260, ST262, ST273, ST322 |
| 1 | A | G | T | C | T | T | T | C | AGTCTTTC | ST60, ST61, ST74, ST75, ST76, ST85, ST94, ST96, ST152, ST178, ST213, ST218, ST225, ST289, ST329, ST334, ST346, ST352, ST356, ST361 |
| 2 | G | A | C | T | C | T | T | C | GACTCTTC | ST227, ST230, ST313, ST316 |
| 5 | G | A | T | T | C | T | T | C | GATTCTTC | ST78, ST145, ST201, ST203, ST204, ST249, ST283, ST287, ST288, ST304, ST323, ST339, ST341, ST365, ST393, ST414 |
| 1 | G | G | C | C | C | C | C | C | GGCCCCCC | New |
| 2 | G | G | C | C | C | T | C | C | GGCCCTCC | ST162 |
| 6 | G | G | C | T | C | C | C | C | GGCTCCCC | ST267, ST349 |
| 2 | G | G | C | T | C | T | C | C | GGCTCTCC | ST18, ST125, ST132, ST173, ST186, ST275, ST276, ST282, ST302, ST305, ST319, ST336, ST340, ST344, ST351, ST368, ST380, ST388, ST391, ST409 |
| 2 | G | G | T | T | C | C | C | C | GGTTCCCC | ST16, ST17, ST31, ST63, ST65, ST103, ST168, ST174, ST180, ST187, ST206, ST208, ST209, ST233, ST234, ST252, ST280, ST290, ST294, ST295, ST300, ST306, ST307, ST308, ST360, ST371, ST389, ST390, ST415 |
| ΔCT value (mean ± SDb) of: | ||||||||||
| A | 7 ± 0.57 | 13.07 ± 0.65 | 14.14 | NAc | NA | NA | NA | NA | ||
| C | NA | NA | 19.5 ± 0.35 | 7.78 ± 0.07 | 5.49 ± 0.33 | 4.24 ± 0.59 | 15.84 ± 0.53 | 3.04 ± 0.14 | ||
| G | 10.78 ± 0.44 | 14.14 ± 0.25 | NA | NA | NA | NA | NA | NA | ||
| T | NA | NA | 18.69 ± 0.18 | 7.72 ± 0.35 | 12.68 ± 0.17 | 5.02 ± 0.57 | 9.51 ± 1.1 | 1.58 ± 0.29 | ||
a
New, STs not found in MLST database.
b
From pooled results for each polymorphism.
c
NA, not applicable.