TABLE 3.
Characteristics of 10 nasopharyngeal swabs with pneumococcal cocolonization
| Sample | Straina
|
plyNCR RFLP type(s) (serotype[s]) obtained:
|
||||
|---|---|---|---|---|---|---|
| Direct from swab
|
After culture
|
|||||
| No. | Ratio | Dominant strainb | Additional strain(s)c | Cultured strain | Subculture from frozen stock of cultured strain | |
| 122 6470 | 3 | 9.5:2:1 | 8 (7F/14/22) | 4 (19F); ? | 4 (19F) | Original strain confirmed |
| 123 1096 | 2 | 1.6:1 | 16 (23F) | 31 (3) | 16 (23F) | Original strain confirmed |
| 123 2386 | 2 | 7:1 | 3 (11) | 17 (3) | 3 (11) | Original strain confirmed |
| 123 5037 | 2 | 1:1 | 1 (14) | 4 (15) | 1 (14) | Mixture of two strains: 1 (14); 4 (15) |
| 123 5041 | 2 | 1.5:1 | 3 (3) | 17 (4) | 3 (3) | Original strain confirmed |
| 123 5697 | 2 | 7:1 | 20 (1) | 15 (15); 7; 45 | 20 (1) | Mixture of two strains: 20 (1); 15 (15) |
| 123 6336 | 2 | 8:1 | 8 (22) | 18 (14) | 8 (22) | Original strain confirmed |
| 124 0372 | 2 | 4.5:1 | 17 (4) | 4 (19F) | 17 (4) | Original strain confirmed |
| 124 1352 | 2 | 17:1 | 7 (3) | 15 (1/8/38) | 7 (3) | Original strain confirmed |
| 124 3829 | 2 | 2.5:1 | 14 (18C) | 4 (19F) | 14 (18C) | Original strain confirmed |
The number of strains and their relative quantities in a given sample as determined by plyNCR RFLP and T-RFLP.
Serotype for the dominant strain identified by direct swab analysis was inferred from serotyping of the (dominant) strain identified by culture if they showed identical RFLP types. For sample 122 6470, the strain identified by culture corresponded to an additional strain and not to the dominant strain identified by plyNCR RFLP.
RFLP types of additional strains were inferred after subtraction analysis of banding patterns as explained in the text and the Fig. 2C legend. For sample 122 6470, the RFLP type of the third strain could not be determined unequivocally; possible types were 1, 3, 17, 18, and 19. Serotypes of additional strains were predicted based on database analysis of RFLP types and associated serotypes, and for samples 123 5037 and 123 5697, the predicted serotype could be confirmed by serotyping of subcultures from frozen stock of the cultured strains.