Table 2.
Characterized SSR primers with their diversity characteristics. PN series primers are newly developed primers in the present study
| Primer ID | Primer sequence (5´–3´) | Repeat motif | Ta (°C) | No. of bands | Size range (bp) | PIC | Ho | He |
|---|---|---|---|---|---|---|---|---|
| SSR-13 |
F:CGACCAGAGAAGGAAGGAG R:CAACCACGCTCATAAGAAC |
(TC)11 | 49 | 4 | 590–680 | 0.630 | 0.479 | 0.682 |
| SSR-15 |
F:ATGATCCCTGAAGTTGTTG R:GTTCCTCTACCAGCCAAG |
(TC)20(TG)10 | 47 | 8 | 90–200 | 0.628 | 0.646 | 0.668 |
| SSR-22 |
F:TAAGCAACTCACTCACTATG R:TGATGTGTGAAGGAGGAGG |
(CACT)5 | 48 | 7 | 350–470 | 0.790 | 0.708 | 0.820 |
| SSR-37 |
F:TATGTTCCTTGCTTCCATG R:CGGTAGAAGTGATTGTGTAT |
(AG)11 | 47 | 7 | 140–270 | 0.771 | 0.750 | 0.807 |
| SSR-40 |
F:GCATATTTCTACTACGCCTCC R:CAAACTAACCCTCAATCACTCG |
(ATAGA)5 | 52 | 5 | 400–440 | 0.576 | 0.167 | 0.622 |
| SSR-43 |
F:CTTGATGGAGCTGGTCTTGT R:TTCTCCACCCTCAATCTCAATAC |
(AG)9 | 52 | 3 | 250–400 | 0.630 | 0.458 | 0.696 |
| SSR-56 |
F:GCTGCTAAGGGATATAGTGCCA R:TATGGTTGCAGAGGATAGGT |
(GACAAT)6 | 50 | 5 | 180–350 | 0.760 | 0.542 | 0.800 |
| SSR-63 |
F:TTAAGTCAGGTGGTGCTCTC R:CTGGATTAGTGGTTGATGATG |
(TTGAAAA)54 | 50 | 3 | 140–200 | 0.585 | 0.083 | 0.658 |
| SSR-69 |
F:GGCTAATTGTGTTGGGAATCG R:CCAACTAATCTACTGACACACG |
(AG)14 | 52 | 5 | 220–400 | 0.699 | 0.583 | 0.750 |
| SSR-77 |
F:GGCCTGCATGTTCTTTATATC R:GCTCATTCTCATCCACTCAT |
(CA)12 | 50 | 6 | 230–300 | 0.679 | 0.333 | 0.726 |
| SSR-83 |
F:GAGTTGAGGCGAGGGACAT R:GTTACTTTCGAGGAGGCCA |
(AC)10 | 51 | 4 | 180–400 | 0.644 | 0.208 | 0.702 |
| PN3 |
F: CCCCTCAAAATCTAACTTCTC R:CAGTTCTACATGCAGATGACC |
(GGC)7 | 50 | 4 | 125–160 | 0.389 | 0.208 | 0.411 |
| PN4 |
F:CCCCCTCTCTAGATATCGTC R:AAGAAGTCGAGGTTTCTGATG |
(CT) 12 | 50 | 6 | 500–620 | 0.743 | 0.667 | 0.785 |
| PN9 | F:TGAATCTATGGATACCGAAAA R:ATAAAGCCAGACACATCAACA | (TC) 12 | 47 | 5 | 320–450 | 0.767 | 0.646 | 0.804 |
| PN10 |
F:GATTTTTCTGCCTTCTCTACC R:ATTTTGCCCTTCCATTATCT |
(CT)8 | 46 | 5 | 180–230 | 0.616 | 0.625 | 0.664 |
| PN12 |
F:TGGCTTTTGTGTTGAAATACT R:ACAAATTTTCCCCAATTTTC |
(GGT)6 | 44 | 5 | 280–450 | 0.641 | 0.729 | 0.702 |
| PN13 |
F:TTTCTATTGCCGGAGACTAA R:GCAACTATTCTTCATCCACAG |
(GAT)6 | 48 | 6 | 140–170 | 0.782 | 0.938 | 0.817 |
| PN14 |
F:GACATCGATCTCCTTCTTCTT R:AATCCTGGCATCTGAGGT |
(TC)9 | 48 | 5 | 400–600 | 0.763 | 0.333 | 0.802 |
| PN15 |
F:CCGCTCAGAACTTGTTATTAT R:AATTACAAATAGCCTCTTTTGG |
(TA)16 | 47 | 5 | 400–600 | 0.710 | 0.333 | 0.756 |
| AGA1 |
F: CCGGTGCTTTGATTACTGCT R: GATCATCATCTTGCGCATTG |
(AGA)11 | 50 | 3 | 480–600 | 0.536 | 0.479 | 0.598 |
| AG5 |
F: GATTAATAAAGCGCCGCTGA R:ACATAAGCCCATACTTGCGG |
(TC)18 | 50 | 5 | 490–640 | 0.784 | 0.396 | 0.820 |
| TC1 |
F: AGGTGGAGAACAAATGGCTG R:CGAGCTCAATTGAAATCCATAA |
(TC)12 | 49 | 5 | 150–250 | 0.789 | 0.479 | 0.824 |
| TC3 |
F: CACCATTTCAAATCCCCACT R:GAGGCTAGAGCTCCGCTCAT |
(AG)13 | 50 | 7 | 150–350 | 0.775 | 0.750 | 0.809 |
| TC8 |
F: GGCTAGCCGAAAGAATCTCC R:TCTTCCTCCTCCTCCTCCTC |
(CT)10 | 54 | 4 | 130–160 | 0.726 | 0.354 | 0.773 |
| Mean | 5 | 0.683 | 0.495 | 0.729 |
Ta annealing temperature, PIC polymorphism information content, bp base pair, He expected heterozygosity, Ho observed heterozygosity