Table 1.
Details of the 18 selected microsatellite loci and the characteristics of the two multiplex microsatellite PCR assays. Loci Sh1-15 are from Travis et al., 2013 and Loci C102, C111 and C131 are from Gower et al., 2011. For Niger Ho = 0.596, He = 0.609, for Pemba Ho = 0.599, He = 0.638. The overall Ho = 0.597, He = 0.623
| Panel 1 | Marker | Forward Primer 5'- 3' | Reverse Primer 5'- 3' | Dye | Size Range (bp) | Repeat | A | Niger | Zanzibar | ||
|---|---|---|---|---|---|---|---|---|---|---|---|
| H o | H e | H o | H e | ||||||||
| Panel 1 | C102 | TGTCTCTGTGAATGACCGAAT | TTAGATGAATAATAATGTTGAAACCAC | VIC | 184–199 | ATT | 6 | 0.42 | 0.37 | 0.02 | 0.02 |
| Sh1 | GCATCCAATTTCGTACAC | CCACATTAGGCCAACAAG | VIC | 245–284 | AAT | 13 | 0.76 | 0.72 | 0.84 | 0.80 | |
| Sh14 | GTCCTCCTTCCCTCTTTG | CACATTCGTCCTAGATATCG | NED | 184–240 | ACTC | 15 | 0.94 | 0.85 | 0.86 | 0.88 | |
| C131 | CTTGTCATTTGGGCATTGTG | CATGGTGAGGTTCAAACGTG | NED | 253–265 | AAT | 4 | 0.00 | 0.00 | 0.00 | 0.00 | |
| Sh6 | GGGATGTATGCAGACTTG | TTGTTTGGCTGCAGTAAC | NED | 309–321 | AAT | 7 | 0.48 | 0.44 | 0.84 | 0.76 | |
| Sh9 | GCTGAGCTTGAGATTG | CTTCTGTCCCATCGATACC | 6-FAM | 197–227 | AAT | 11 | 0.46 | 0.76 | 0.46 | 0.86 | |
| Sh3 | GCTGAGCTTGAGATTG | CTTCTGTCCCATCGATACC | 6-FAM | 270–366 | AAT | 30 | 0.76 | 0.86 | 0.94 | 0.86 | |
| C111 | CCCTTGTCTTCAATGCGTTA | GAACGTCTAACTGGCGATCA | PET | 201–225 | ATT | 9 | 0.74 | 0.67 | 0.76 | 0.68 | |
| Sh7 | TCCAAGCACCATTATCAAG | ACGGAAACTTGTTGAAATG | PET | 293–311 | AAT | 7 | 0.46 | 0.62 | 0.42 | 0.48 | |
| Panel 2 | Sh2 | TTAGTGTGTTTGGCTTCAAC | CCTCGAATGAAATCCTGAC | NED | 155–218 | AAT | 21 | 0.84 | 0.90 | 0.56 | 0.89 |
| Sh5 | TGTGCACAAGAAAGATTAAATG | ACGACAATGTTGCAAGTTC | NED | 263–314 | AAT | 16 | 0.78 | 0.81 | 0.36 | 0.48 | |
| Sh13 | GAGCAGCTATTTCGTATCG | ACCGTGGACAGTTCATCAG | 6-FAM | 163–211 | AAT | 17 | 0.78 | 0.72 | 0.68 | 0.64 | |
| Sh4 | CCCATCGCTGATATTAAAG | TCTAGTCGTCTTGGGATCC | 6-FAM | 268–313 | AAT | 13 | 0.84 | 0.78 | 0.72 | 0.79 | |
| Sh10 | CGCATGTCATACCTATCTCC | GCTTATCAGGCCTATCTCC | PET | 183–207 | AAT | 9 | 0.18 | 0.34 | 0.74 | 0.70 | |
| Sh12 | CGTCTTAGTGAGCCAGATG | CTCGTGGACATCATCAG | PET | 245–278 | AAC | 11 | 0.06 | 0.06 | 0.56 | 0.65 | |
| Sh8 | CTAAACTGGCAAGATTTC | CAACGTGCCTTTATTTC | PET | 282–321 | AAT | 14 | 0.76 | 0.81 | 0.84 | 0.83 | |
| Sh11 | TTGGTTTAGAAATTACATCACC | CCAACAATATTAATGGACAGC | VIC | 183–213 | ATC | 9 | 0.68 | 0.58 | 0.68 | 0.69 | |
| Sh15 | CTTTCAGTAGGATTTGTTG | CGACGTCAAGCACTGTAC | VIC | 274–301 | ATC | 10 | 0.78 | 0.65 | 0.50 | 0.466 | |
Panel = single mulitplex PCR. A = observed number of alleles. Dye = the fluorescent dye label of the forward primer (VIC = green, NED = yellow, 6-FAM = Blue, PET = red). Ho = observed heterozygosity, He = expected heterozygosity