Table 2.
Serotypes and strains included in this study and sequetyping results based on cpsB sequencesa
| Serotype | Sequetype | Strain | Sequence typeb | Isolation sourcec | Sequetype accession no. |
|---|---|---|---|---|---|
| 1 | 1 | 3OP2 Sep | 217 | NP | JN642309 |
| 1 | H0 8114 0126 | 217 | BC | JN660116 | |
| 1 | H0 8212 0279 | 303 | BC | JN660117 | |
| 1 | H0 8078 0043 | 618 | BC | JN660118 | |
| 1 | H0 6274 0473 | 304 | BC | JN660119 | |
| 1 | H0 8228 0507 | 227 | BC | JN660120 | |
| 1 | H0 6196 0204 | 228 | BC | JN660121 | |
| 1 | H0 5122 0138 | 306 | BC | JN660122 | |
| 3 | 3 | H0 9260 0327 | 180 | BC | JN660145 |
| 3 | 12.1690.X | 180 | BC | JQ743514 | |
| 3 | 12.1655.E | 180 | BC | JQ743515 | |
| 3 | 12.1640.H | 180 | BC | JQ743516 | |
| 3 | 12.1409.G | 180 | BC | JQ743517 | |
| 3 | 12.1259.V | 180 | BC | JQ743518 | |
| 4 | 4 | H0 9146 0234 | 246 | BC | JN660124 |
| 4 | H0 8102 0237 | 246 | BC | JN660125 | |
| 4 | H0 7406 0041 | 246 | BC | JN664256 | |
| 4 | 11.6349.S | 205 | BC | JQ743519 | |
| 4 | 11.5324.N | 246 | BC | JQ743520 | |
| 4 | 11.4573.Q | 246 | BC | JQ743521 | |
| 5 | 5 | H0 8034 0160 | 289 | BC | JN660126 |
| 5 | 02-4520 | ND | BC | JQ743522 | |
| 5 | 04-2077 | 1400 | BC | JQ743523 | |
| 5 | 07-2667 | 289 | BC | JQ743524 | |
| 5 | 10-1351 | 4840 | Eye | JQ743525 | |
| 6A | 6A | H0 8212 0259 | 65 | BC | JN660127 |
| 6A | N15 | 65 | BC | JN680106 | |
| 6A | N94 | 65 | BC | JN680118 | |
| 6A | N155 | 65 | BC | JN680128 | |
| 6A | N259 | 65 | BC | JN680138 | |
| 6A | N405 | 65 | BC | JN680146 | |
| 6A/6B | 12.1624.T | 396 | BC | JQ743526 | |
| 6A | 11.6939.E | 2467 | BC | JQ743527 | |
| 6A | 11.5544.Z | 1876 | BC | JQ743528 | |
| 6A/6B | 11.5346.W | 327 | BC | JQ743529 | |
| 6A | 11.3085.J | 65 | BC | JQ743530 | |
| 6B | 6B | H0 8052 0052 | 176 | BC | JN660128 |
| 6B | H0 7156 0309 | 3481 | BC | JN660129 | |
| 6B | 11NP10 Jan | 4432 | NP | JN642310 | |
| 6B | 69OP10 | 4429 | NP | JN642311 | |
| 6B | 35NP1 | 4157 | NP | JN642312 | |
| 6B | 35NP6 | 854 | NP | JN642313 | |
| 6B | 3OP7 Sep | 4373 | NP | JN642314 | |
| 6B | 3NP7 Mar | 4368 | NP | JN642315 | |
| 6C | 6C/D | H0 5252 0052 | 1390 | BC | JN660130 |
| 7C | 7C | 1003-2 | ND | NP | JN642316 |
| 7C | 2514-1 | ND | NP | JN642317 | |
| 7F | 7F/7A | SG07F | ND | C | JN660086 |
| 7F/7A | 12.1695.Y | 191 | BC | JQ743531 | |
| 7F/7A | 12.1675.H | 191 | BC | JQ743532 | |
| 7F/7A | 12.1666.R | 191 | BC | JQ743533 | |
| 7F/7A | 12.1426.R | 191 | BC | JQ743534 | |
| 7F/7A | 12.1299.R | 191 | BC | JQ743535 | |
| 7F/7A | 12.1276.C | 191 | BC | JQ743536 | |
| 8 | 8 | H0 8342 0074 | 53 | BC | JN660132 |
| 8 | H0 9122 0175 | 53 | BC | JN660133 | |
| 9N | 9N | H0 7174 0058 | 66 | BC | JN660134 |
| 9N | H0 7018 0063 | 66 | BC | JN660146 | |
| 9N | H0 9080 0083 | 66 | BC | JN660135 | |
| 9V | 9V | H0 7016 0058 | 156 | BC | JN660136 |
| 9V | H0 8156 0265 | 162 | BC | JN660141 | |
| 9V | 11.5715.C | 156 | BC | JQ743537 | |
| 9V | 11.3601.D | 162 | BC | JQ743538 | |
| 9V | 11.3021.E | 162 | BC | JQ743539 | |
| 9V | 11.2143.S | 156 | BC | JQ743540 | |
| 10A | 10A | SG10a | ND | C | JN660087 |
| 10A | 21NP1 | ND | NP | JN642318 | |
| 10A | 18NP10 | 852 | NP | JN642319 | |
| 10F | 10F/10C | SG10f | ND | C | JN660088 |
| 11A | 11A/11D/18F | SG11a | ND | C | JN660089 |
| 11A/11D/18F | 29OP10 | 5752 | NP | JN642320 | |
| 12B | 12B | SG12b | ND | C | JN660091 |
| 12F | 12B | SG12f | ND | C | JN660090 |
| 14 | 14 | H0 8208 0041 | 9 | BC | JN660147 |
| 14 | H0 8396 0107 | 124 | BC | JN660142 | |
| 14 | H0 8084 0056 | 124 | BC | JN660143 | |
| 14 | H0 7442 0047 | 124 | BC | JN660144 | |
| 14 | 10-1688 | ND | S | JQ743541 | |
| 14 | 10-2893 | ND | S | JQ743542 | |
| 15A | 15A | SG15a | ND | C | JN660092 |
| 15B | 15B | SG15b | ND | C | JN660093 |
| 16F | 16F | SG16f | ND | C | JN660094 |
| 17A | 34/17A | SG17a | ND | C | JN660095 |
| 17F | 17F/33C | H0 9084 0082 | 392 | BC | JN660140 |
| 4/17F/33C/9V | 22NP2 | 4160 | NP | JN642321 | |
| 17F/33C | H0 6092 0119 | 392 | BC | JN660137 | |
| 17F/33C | H0 8334 0064 | 964 | BC | JN660138 | |
| 18B | 18B/18C | SG18b | ND | C | JN660096 |
| 18C | 18B/18C | 10.2671.G | 113 | BC | JQ743543 |
| 18B/18C | 10.2178.X | 113 | BC | JQ743544 | |
| 18B/18C | 09.2555.S | 113 | BC | JQ743545 | |
| 18B/18C | 09.2223.P | 638 | BC | JQ743546 | |
| 18B/18C | 09.1742.V | 2449 | BC | JQ743547 | |
| 18B/18C | 09.1153.K | 4162 | BC | JQ743548 | |
| 19A | 19A | 35NP10 (4162) | 4162 | NP | JN642322 |
| 19A | H0 9186 0354 (199) | 199 | BC | JN664257 | |
| 19A | 12.1625.M | 2081 | BC | JQ743549 | |
| 19A | 12.1623.F | 461 | BC | JQ743550 | |
| 19A | 12.1579.M | 450 | BC | JQ743551 | |
| 19A | H0 7336 0087 | 276 | BC | JN664258 | |
| 19F | 19F | ATCC 49619 | ND | C | JN642323 |
| 19F | 16OP4 | 347 | NP | JN642324 | |
| 19F | 35NP8 | 6170 | BC | JN642325 | |
| 19F | H0 8112 0101 | 162 | BC | JN664259 | |
| 19F | H0 8242 0108 | 162 | BC | JN664260 | |
| 19F | 11.6554.S | ND | Sputum | JQ743552 | |
| 1d | 11.6402.H | ND | Sputum | JQ743553 | |
| 20 | 20/13 | SG20 | ND | C | JN660097 |
| 21 | 21 | 45OP9 Jan (1145) | 1145 | NP | JN642326 |
| 21 | 7NP4 | ND | NP | JQ009436 | |
| 22A | 22F/22A | SG22a | ND | C | JN660098 |
| 22F | 22F/22A | SG22f | ND | C | JN660099 |
| 23B | 23B | SG23b | ND | C | JN660100 |
| 23B | 7OP9 | ND | NP | JN642327 | |
| 23F | 23F | SG23f | ND | C | JN664261 |
| 23F | 11.4091.H | ND | BC | JQ743554 | |
| 23F | 11.3056.E | 33 | BC | JQ743555 | |
| 23F | 11.2827.S | 1682 | BC | JQ743556 | |
| 23F | 11.2737.T | 1682 | BC | JQ743557 | |
| 23F | 11.1373.Z | 6959 | BC | JQ743558 | |
| 24B | 24B | SG24b | ND | C | JN660101 |
| 24F | 24B | SG24f | ND | C | JN660102 |
| 27 | 27 | H0 8432 0293 | 1475 | BC | JN660139 |
| 28A | 28A | SG28a | ND | C | JN660103 |
| 28F | 28A | SG28f | ND | C | JN660104 |
| 29 | 29 | SG29 | ND | C | JN660105 |
| 31 | 31 | SG31 | ND | C | JN660106 |
| 33B | 33B | SG33b | ND | C | JN660108 |
| 33C | 35B/35C | SG33c | ND | C | JN660109 |
| 33D | 33B | SG33d | ND | C | JN660110 |
| 33F | 33A/33F/35A | SG33f | ND | C | JN660111 |
| 33A/33F/35A | SG33fb | ND | C | JN660107 | |
| 34 | 34/17A | SG34 | ND | C | JN660112 |
| 35A | 35A/33F/33A | SG35a | ND | C | JN642328 |
| 35B/35C | 16NP10 | 840 | NP | JN660113 | |
| 35B/35C | 55OP3 | ND | NP | JQ009437 | |
| 35B | 35B/35C | SG35b | ND | C | JN660114 |
| 36 | 7F/21 | SG36 | ND | C | JN660115 |
a
Serotypes covered in PPV23, PCV7, and PCV13 are in bold.
b
ND, no data.
c
NP, nasopharynx; BC, blood culture; C, control laboratory strain.
d
Strain 11.6402 (serotype 19F) was sequetyped as serotype 1, with 98% identity (715/732) with the variation at the 5′ end of the gene. Note that the correct 19F serotype was identified at 97% homology.