Table 1 Sequence type changes in individual serotypes during the study periods
Serotype | CC/ST (relation to confounder) | CC percentage (n) of the serotype during | n | ||
|---|---|---|---|---|---|
Pre-PCV7 (1995–2003) | Post-PCV7 (2004–2010) | Post-PCV13 (2011–2013) | |||
1 | ST615 | 0 | 100 (1) | 0 | 1 |
ST306 | 0 | 100 (1) | 0 | 1 | |
3 | ST10002 | 0 | 100 (2) | 0 | 2 |
CC320 | 0 | 100 (1) | 0 | 1 | |
ST320 | 0 | 100 (1) | 0 | 1 | |
4 | ST899 | 0 | 100 (2) | 0 | 2 |
5 | CC439 | 100 (1) | 0 | 0 | 1 |
ST3394 (SLV) | 100 (1) | 0 | 0 | 1 | |
6A | CC81 | 25.0 (1) | 87.5 (7) | 100 (4) | 12 |
ST81 | 25.0 (1) | 62.5 (5) | 50.0 (2) | 8 | |
ST282 (SLV) | 0 | 0 | 25.0 (1) | 1 | |
ST2842 (SLV) | 0 | 25.0 (2) | 25.0 (1) | 3 | |
ST855 | 25.0 (1) | 12.5 (1) | 0 | 2 | |
ST3166 | 25.0 (1) | 0 | 0 | 1 | |
ST3168 | 25.0 (1) | 0 | 0 | 1 | |
6B | CC90 | 55.6 (5) | 61.5 (8) | 100 (1) | 14 |
ST90 | 11.1 (1) | 0 | 0 | 1 | |
ST95 (SLV) | 22.2 (2) | 0 | 0 | 2 | |
ST1624 (SLV) | 22.2 (2) | 15.4 (2) | 100 (1) | 5 | |
ST3175 (SLV) | 0 | 7.7 (1) | 0 | 1 | |
ST3387 (SLV) | 0 | 38.5 (5) | 0 | 5 | |
CC3173 | 11.1 (1) | 38.5 (5) | 0 | 6 | |
ST3173 | 11.1 (1) | 30.8 (4) | 0 | 5 | |
ST10274 (SLV) | 0 | 7.7 (1) | 0 | 1 | |
ST3169 | 11.1 (1) | 0 | 0 | 1 | |
ST3171 | 22.2 (2) | 0 | 0 | 2 | |
6C | CC81 | 0 | 0 | 100 (1) | 1 |
ST282 (SLV) | 0 | 0 | 100 (1) | 1 | |
ST5241 | 0 | 100 (1) | 0 | 1 | |
6D | CC81 | 0 | 100 (1) | 0 | 1 |
ST11978 (DLV) | 0 | 100 (1) | 0 | 1 | |
7F | ST191 | 0 | 100 (1) | 0 | 1 |
9 V | CC166 | 100 (3) | 100 (8) | 100 (1) | 12 |
ST166 | 66.7 (2) | 75.0 (6) | 100 (1) | 9 | |
ST3383 (SLV) | 33.3 (1) | 0 | 0 | 1 | |
ST10120 (SLV) | 0 | 25.0 (2) | 0 | 2 | |
10A | ST3385 | 0 | 100 (5) | 83.3 (5) | 10 |
ST11189 | 0 | 0 | 16.7 (1) | 1 | |
11A | CC166 | 0 | 50.0 (2) | 100 (4) | 6 |
ST166 | 0 | 50.0 (2) | 75.0 (3) | 5 | |
ST10120 (SLV) | 0 | 0 | 25.0 (1) | 1 | |
ST99 | 0 | 25.0 (1) | 0 | 1 | |
ST11188 | 0 | 25.0 (1) | 0 | 1 | |
12F | ST220 | 0 | 100 (1) | 0 | 1 |
ST6945 | 0 | 0 | 100 (1) | 1 | |
13 | CC81 | 100 (1) | 0 | 100 (3) | 4 |
ST189 (SLV) | 100 (1) | 0 | 66.7 (2) | 3 | |
ST8420 (DLV) | 0 | 0 | 33.3 (1) | 1 | |
14 | CC81 | 18.2 (2) | 0 | 0 | 2 |
ST81 | 9.1 (1) | 0 | 0 | 1 | |
ST3178 (SLV) | 9.1 (1) | 0 | 0 | 1 | |
CC320 | 18.2 (2) | 0 | 0 | 2 | |
ST328 (DLV) | 18.2 (2) | 0 | 0 | 2 | |
CC554 | 54.5 (6) | 100 (11) | 100 (1) | 18 | |
ST343 (SLV) | 9.1 (1) | 0 | 0 | 1 | |
ST554 | 27.3 (3) | 18.2 (2) | 100 (1) | 6 | |
ST3177 (SLV) | 9.1 (1) | 27.3 (3) | 0 | 4 | |
ST3388 (DLV) | 9.1 (1) | 0 | 0 | 1 | |
ST3600 (SLV) | 0 | 9.1 (1) | 0 | 1 | |
ST3601 (SLV) | 0 | 45.5 (5) | 0 | 5 | |
ST13 | 9.1 (1) | 0 | 0 | 1 | |
15A | CC81 | 0 | 50 (1) | 100 (4) | 5 |
ST83 (SLV) | 0 | 0 | 50 (2) | 2 | |
ST1591 (SLV) | 0 | 50 (1) | 50 (2) | 3 | |
ST3414 | 0 | 50 (1) | 0 | 1 | |
15B/C | CC81 | 100 (3) | 20.0 (1) | 22.2 (2) | 6 |
ST83 (SLV) | 100 (3) | 20.0 (1) | 22.2 (2) | 6 | |
CC166 | 0 | 0 | 11.1 (1) | 1 | |
ST166 | 0 | 0 | 11.1 (1) | 1 | |
ST3280 | 0 | 80.0 (4) | 66.7 (6) | 10 | |
16F | ST8351 | 0 | 0 | 100 | 1 |
18C | ST870 | 0 | 66.7 (2) | 0 | 2 |
ST3180 | 100 (1) | 0 | 0 | 1 | |
ST3594 | 0 | 33.3 (1) | 0 | 1 | |
19A | CC320 | 90.0 (9) | 100 (31) | 100 (23) | 63 |
ST271 (SLV) | 0 | 0 | 4.3 (1) | 1 | |
ST320 | 90.0 (9) | 90.3 (28) | 91.3 (21) | 58 | |
ST3159 (SLV) | 0 | 0 | 4.3 (1) | 1 | |
ST4465 (SLV) | 0 | 3.2 (1) | 0 | 1 | |
ST6398 (SLV) | 0 | 3.2 (1) | 0 | 1 | |
ST6400 (SLV) | 0 | 3.2 (1) | 0 | 1 | |
ST1374 | 10.0 (1) | 0 | 0 | 1 | |
19F | CC320 | 85.7 (6) | 100 (16) | 100 (2) | 24 |
ST236 (DLV) | 42.9 (3) | 6.3 (1) | 0 | 4 | |
ST271 (SLV) | 42.9 (3) | 0 | 0 | 3 | |
ST320 | 0 | 43.8 (7) | 0 | 7 | |
ST1464 (SLV) | 0 | 43.8 (7) | 50.0 (1) | 8 | |
ST2697 (SLV) | 0 | 0 | 50.0 (1) | 1 | |
ST3390 (SLV) | 0 | 6.3 (1) | 0 | 1 | |
ST2399 | 14.3 (1) | 0 | 0 | 1 | |
23A | ST338 | 0 | 100 (4) | 50.0 (2) | 6 |
ST10272 | 0 | 0 | 50.0 (2) | 2 | |
23B | CC439 | 0 | 0 | 50.0 (1) | 1 |
ST439 | 0 | 0 | 50.0 (1) | 1 | |
ST2372 | 0 | 0 | 50.0 (1) | 1 | |
23F | CC81 | 50.0 (8) | 36.4 (4) | 0 | 12 |
ST81 | 37.5 (6) | 27.3 (3) | 0 | 9 | |
ST83 (SLV) | 0 | 9.1 (1) | 0 | 1 | |
ST3392 (SLV) | 6.3 (1) | 0 | 0 | 1 | |
ST3415 (SLV) | 6.3 (1) | 0 | 0 | 1 | |
CC880 | 50.0 (8) | 63.6 (7) | 100 (2) | 17 | |
ST880 | 50.0 (8) | 54.5 (6) | 50.0 (1) | 15 | |
ST3176 (SLV) | 0 | 9.1 (1) | 50.0 (1) | 2 | |
24F | CC90 | 50.0 (1) | 0 | 0 | 1 |
ST3387 (SLV) | 50.0 (1) | 0 | 0 | 1 | |
ST3386 | 0 | 0 | 100 (1) | 1 | |
ST3393 | 50.0 (1) | 0 | 0 | 1 | |
33F | ST11188 | 0 | 100 (1) | 100 (1) | 2 |
34 | CC9395 | 0 | 100 (3) | 0 | 3 |
ST9395 | 0 | 66.7 (2) | 0 | 2 | |
ST11187 (SLV) | 0 | 33.3 (1) | 0 | 1 | |
ST3116 | 100 (1) | 0 | 0 | 1 | |
35B | CC558 | 100 (1) | 100 (1) | 0 | 2 |
ST558 | 100 (1) | 100 (1) | 0 | 2 | |
37 | ST447 | 0 | 0 | 100 (1) | 1 |
NT | CC90 | 0 | 20.0 (1) | 0 | 1 |
ST3387 (SLV) | 0 | 20.0 (1) | 0 | 1 | |
CC558 | 0 | 20.0 (1) | 0 | 1 | |
ST558 | 0 | 20.0 (1) | 0 | 1 | |
ST310 | 0 | 20.0 (1) | 0 | 1 | |
ST447 | 0 | 20.0 (1) | 0 | 1 | |
ST3386 | 0 | 20.0 (1) | 0 | 1 | |