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Table 3 Observed allele sizes, heterozygosities and estimated frequency of null alleles of conserved microsatellite loci

From: Enhanced cross-species utility of conserved microsatellite markers in shorebirds

Locus Charadri: Kentish plover Lari: whiskered auklet Scolopaci: ruff
  N k Allele size (bp) H o H e Est. null alleles* pHW1 N k Allele size (bp) H o H e Est. null alleles* pHW1 N k Allele size (bp) H o H e Est. null alleles* p HW 1
a) standard primer                      
BmaTATC371 16 6 144, 148, 150, 152, 154, 156 0.75 0.62 -0.12 0.45 16 12 158, 161, 169, 171, 173, 174, 176, 177, 178, 180, 181, 190 0.88 0.88 -0.01 0.53 16 1 140 0 0 0 na
Mopl 18 16 1 139 0 0 0 na 16 2 128, 136 0.06 0.06 -0.01 na 16 1 137 0 0 0 na
Mopl 21 15 2 315, 321 0.47 0.48 -0.02 1 16 2 315, 322 0.13 0.12 -0.02 1 16 3 308, 314, 320 0.69 0.54 -0.14 0.31
Mopl 6 16 4 290, 292, 294, 296 0.81 0.70 -0.09 0.94 15 1 278 0 0 0 na 16 5 299, 301, 303, 305, 307 0.44 0.38 -0.11 1
Cmms 26 16 1 320 0 0 0 na 14 5 304, 306, 308, 310, 312 0.79 0.75 -0.05 0.92 8 2 316, 324 0.38 0.33 0 1
Cmms 9 16 2 239, 241 0.13 0.12                 
  -0.02 1 15 8 250, 252, 254, 256, 258, 260, 262, 268 0.87 0.75 -0.11 0.94 14 1 246 0 0 0 na      
LarsZAP26/K32 16 2 100, 102 0.38 0.39 0 1 12 10 101, 106, 108, 117, 119, 123, 125, 129, 130, 133 0.58 0.90 0.20 0.01 15 1 106 0 0 0 na
b) consensus primer                      
54F2 14 2 215, 217 0.14 0.42 0.48 0.03 16 1 220 0 0 0 na 16 1 212 0 0 0 na
Apy07 16 1 146 0 0 0 na 16 8 170, 182, 186, 190, 194, 198, 202, 206 0.75 0.78 0.01 0.80 16 1 145 0 0 0 na
BmaAGGT503 16 1 249 0 0 0 na 16 4 251, 252, 253, 254 0.69 0.72 0.02 0.23 16 1 257 0 0 0 na
BmaTATC453 16 2 235, 239 0.06 0.06 -0.01 na 16 1 239 0 0 0 na 16 2 239, 241 0.13 0.12 -0.02 1
BmaTGAA523 16 1 71 0 0 0 na 16 2 69, 77 0.06 0.06 -0.01 na 16 1 71 0 0 0 na
Calex-01 13 11 201, 205, 209, 211, 213, 215, 217, 219, 221, 223,227 1 0.91 -0.07 0.32 16 3 199, 201, 203 0.19 0.54 0.52 <0.001 16 2 207, 209 0.06 0.06 -0.01 na
Calex-05 14 6 173, 179, 180, 181, 183, 184 0.64 0.71 0.03 0.60 16 2 173, 175 0.38 0.32 -0.10 1 16 1 173 0 0 0 na
Mopl 15 16 6 170, 172, 174, 176, 180, 182 0.75 0.71 0.03 0.48 15 2 174, 182 0.07 0.07 -0.01 na 15 1 172 0 0 0 na
Mopl 22 13 2 394, 404 0.31 0.27 -0.08 1 16 1 402 0 0 0 na 16 1 401 0 0 0 na
Mopl 26 16 9 188, 190, 194, 196, 198, 200, 208, 210, 212 0.69 0.82 0.08 0.05 16 6 189, 190, 191, 192, 193, 194 0.75 0.73 -0.04 0.80 16 1 184 0 0 0 na
Cmms3 14 1 95 0 0 0 na 16 6 102, 106, 108, 110, 112, 114 0.81 0.78 -0.03 0.02 16 1 95 0 0 0 na
SNIPE B2 16 2 170, 172 0.19 0.35 0.29 0.11 16 1 164 0 0 0 na 16 8 168, 172, 176, 180, 184, 192, 196, 200 0.75 0.80 0.03 0.32
Pgt 83 14 1 132 0 0 0 na 16 1 142 0 0 0 na 16 2 149, 151 0.06 0.06 -0.01 na
Rbg 18 16 7 259, 263, 265, 267, 269, 275, 277 0.75 0.77 0.01 0.76 8 4 260, 264, 266, 272 0.38 0.66 0 0.08 16 3 257, 259, 261 0.13 0.12 -0.02 1
Rbg 27 16 1 184 0 0 0 na 16 2 180, 182 0.06 0.06 -0.01 na 15 1 184 0 0 0 na
Rbg 29 15 1 127 0 0 0 na 16 12 116, 118, 120, 124, 126, 128, 130, 132, 136, 138, 144, 146 0.69 0.90 0.13 <0.01 14 1 127 0 0 0 na
  1. N, number of individuals amplified in polymorphism test
  2. k, number of alleles found in test sample
  3. Ho, observed heterozygosity
  4. He, expected heterozygosity
  5. * estimated null allele frequency using CERVUS v. 2.0
  6. 1probability that locus is in Hardy-Weinberg equilibrium estimated by GENEPOP v 3.3
  7. All primers were tested in 16 unrelated individuals from single populations of each of Kentish plover Charadrius alexandrinus, whiskered auklet Aethia pygmaea and ruff Philomachus pugnax. Populations with significant deviation from Hardy-Weinberg equilibrium are indicated in bold.