Table 3 The different protocols and the species and loci (primer pairs) to which they were applied.
From: An efficient method to find potentially universal population genetic markers, applied to metazoans
Protocol name | DNA extraction | PCR program | Primer pairs tested | Species |
|---|---|---|---|---|
Standard | Phenol-chloroform (except P. lividus stage III (i21-i58) where we used Promega extracts) | TD6 | All | Pl, As, Ec, Ce, Sc, Pj (4 ind. per species) |
S-F | Idem | Std-Fix | 1, 2, 3, 4, 5, 6, 7, 9, 13, 14, 15, 17 | Pl, As, Ec, Ce, Sc, Pj (4 ind. per species) |
S-F-60 | Idem | Fix50-60 | 5b, 21a-d, 25a-d, 35ab, 19ab, 22, 24ab, 29, 30, 34ab, 49a-d, ATPSαJ, ATPSαi2 | Pl, As, Ec, Ce, Sc, Pj (4 ind. per species) |
S-CR | According to taxon and individuals | TD6' | All | Aca(4), Aa(3), Ac(3), An(1), Sn(3), Sa(1), Mb(4), Ce(4) |
EE4 | 1 Qiagen + 1 Promega + 1 Chelex + 1 CTAB-phenol | EE-GP | All | Ec(4) |
EE16 | 8 Chelex + 8 Qiagen | EE-GP | 1b, 5b, 22, 25, 29, 37, 43, 53b, 54c, 55, ATP-Sa, EF4c | Ec(16) |
GP | 8 Promega | EE-GP | All introns, but only with the primer pair "a" (Fig. 1) | Pl(8) |
DA | 3 Qiagen + 1 Phenol-chloroform | DA | All primer pairs tested for 29 loci in Cr, 22 in Pc (intron numbers in Table 1) | Cr(3-4), Pc(3-6) |