Table 2.
Expected and observed allele sizes of conserved chicken-Charadriiformes microsatellite markers
| Locus | Exp. allele size (bp)* | Observed allele size (bp) | |||||||||||
| Charadri | Lari | Scolopaci | |||||||||||
| KPL | OYS | AVO | GSH | WAU | CPR | BSK | GBT | RUF | RNP | GSN | DUN | ||
| a) standard primer design | |||||||||||||
| BmaTATC371 | 200 | 144, 152, 156 | 144, 146 | 149, 153, 157, 161, 165 | 152 | 158, 171, 173, 176, 180, 181, 190 | 173, 185 | 178, 182 | 173, 177, 185 | 140 | 136 | failed | 136 |
| Cmms 9 | 252 | 241 | 241 | 241 | 245 | 252, 256, 258, 262 | 252 | 255 | 250 | 246 | 244 | failed | 243 |
| Cmms 26 | 313 | 320 | 318 | 319 | 339 | 304, 308, 310 | 320, 327, 329, 338 | 304 | 310 | 316, 324 | 324, 326 | 326 | 312 |
| Mopl 6 | 281 | 290, 292, 294 | 274 | 274 | 273 | 278 | failed | 283 | 267 | 301, 303, 305 | 283, 287, 291, 303 | 277, 293, 295 | 284, 288, 290, 292 |
| Mopl 18 | 141 | 139 | 137 | 137 | 152 | 136 | 129 | 136 | 128 | 137 | failed | 136, 140 | 136 |
| Mopl 21 | 230 | 315, 321 | 317 | 321 | 320 | 315, 322 | 322 | 322 | 328, 330, 334 | 314, 320 | 316, 318 | 322 | 309, 311, 313 |
| LarsZAP26/K32 | 125 | 100, 102 | 98 | 97 | 94 | 106, 108, 133 | failed | 120 | 122, 124, 126, 134 | 106 | 99 | 105 | 106, 108 |
| b) consensus primer design | |||||||||||||
| 54F2 | 207 | 215, 217 | 206, 208 | 216 | 189 | 220 | 217, 221 | 228 | 219 | 212 | 212 | 218, 226 | 212 |
| Apy07 | 191 | 146 | 146 | 144 | 146 | 170, 190, 194, 198, 202, 206 | 157 | 154 | 154 | 145 | 145 | 145 | 145 |
| BmaAGGT503 | 255 | 249 | 248 | 249 | 247 | 251, 252, 253, 254 | 255 | 249 | 249 | 257 | 258 | 263 | 256 |
| BmaTATC453 | 294 | 239 | 239 | 239 | 239 | 239 | 236 | 239 | 239, 241 | 239 | 239 | 237, 239, 241 | 239 |
| BmaTGAA523 | 120 | 71 | 73 | 73 | 74 | 77 | 74 | 78 | 78 | 71 | 73 | 74 | 73 |
| Calex-01 | 221 | 201, 209, 211, 213, 221, 227 | 197 | 200 | 197 | 201, 203 | 224 | 201 | 233, 235, 239, 244 | 207 | 197, 201 | 211 | 207 |
| Calex-05 | 197 | 179, 181, 183 | 173 | 171 | 168 | 173 | 173, 175 | 173 | 177, 179 | 173 | 171, 173 | 171 | 173, 175 |
| Cmms3 | 146 | 95 | 101 | 95 | 97 | 102, 106, 108, 110 | 93, 95, 97, 99, 101, 103 | 105 | 108 | 95 | 95 | 95 | 95 |
| SNIPE B2 | 212 | 170, 172 | 183 | failed | 172 | 164 | 165 | 164 | 165 | 176, 180, 184, 196, 200 | 164, 168, 172, 184, 192, 196 | 188, 196, 200, 204, 208, 212 | 188 |
| Mopl 15 | 170 | 174, 182 | 160 | failed | 161 | 182 | 178 | 172, 182 | 178 | 172 | 172 | 173 | 172 |
| Mopl 22 | 404 | 394, 404 | 388 | 404 | 394 | 402 | 389 | 406 | 393 | 401 | 404 | 394, 404 | 412 |
| Mopl 26 | 195 | 188, 190, 194, 200, 212 | 191 | 192, 194, 195 | 191 | 192, 193, 194 | 189, 199 | 188 | 185 | 184 | 174 | 184 | 185 |
| Pgt 83 | 151 | 132 | 147 | 147 | 147 | 142 | 147 | 142 | 142 | 149 | 142, 144, 161 | 141, 143 | 142, 150, 156, 160 |
| Rbg 18 | 270 | 259, 263, 265, 267, 269, 275, 277 | 262, 264 | 261, 265 | 268 | 260, 266, 272 | Failed | 268, 271 | 266 | 259, 261 | 265, 267 | 259 | 256, 260 |
| Rbg 27 | 194 | 184 | 184 | 186 | 182 | 182 | 182 | 186, 188 | 182, 190, 196 | 184 | 186 | 186, 188 | 184 |
| Rbg 29 | 129 | 127 | 125 | 125 | 127 | 116, 118, 126, 132, 136, 146 | 118, 120, 122 | 127 | 122, 132, 134, 142 | 127 | 127 | 120 | failed |
The markers were tested in four unrelated individuals from a single population of each of 12 species of Charadriiformes.
*expected product size in source species based on the sequence of the originally cloned allele.
KPL Kentish plover (Charadrius alexandrinus), OYS oystercatcher (Haematopus ostralegus), AVO avocet (Recurvirostra avosetta), GSH greater sheathbill (Chionis alba), WAU whiskered auklet (Aethia pygmaea), CPR collared pratincole (Glareola pratincola), BSK brown skua (Catharacta lonnbergi), GBT gull-billed tern (Gelochelidon nilotica), RUF ruff (Philomachus pugnax), RNP red-necked phalarope (Phalaropus lobatus), GSN great snipe (Gallinago media), DUN dunlin (Calidris alpina)