Skip to main content

Table 1 Cross-species amplification of three-spined stickleback SSR primers in nine-spined sticklebacks.

From: Utility of sequenced genomes for microsatellite marker development in non-model organisms: a case study of functionally important genes in nine-spined sticklebacks (Pungitius pungitius)

SSR type Primer site N Amplified Polymorphic
Gene-based All 158 27 (17.1%) 16 (10.1%)
  Exonic pair 9 7 (77.8%) 4 (44.4%)
  Intronic pair 53 2 (3.8%) 1 (1.9%)
  Intergenic pair 55 9 (16.4%) 7 (12.7%)
  Other combinations 41 9 (22.0%) 4 (9.8%)
Genomic All 101 35 (34.7%) 26 (25.7%)
  Exonic pair 1 1 (100%) 1 (100%)
  Intronic pair 34 14 (41.2%) 10 (29.4%)
  Intergenic pair 58 16 (27.6%) 11 (19.0%)
  Other combinations 6 3 (50.0%) 3 (50.0%)
  Unknown 2 1 (50.0%) 1 (50.0%)
EST-derived All 87 35 (40.2%) 21 (24.1%)
  Exonic pair 14 7 (50.0%) 6 (42.9%)
  Intronic pair 11 4 (36.4%) 1 (9.1%)
  Intergenic pair 47 17 (36.2%) 10 (21.3%)
  Other combinations 15 7 (46.7%) 4 (26.7%)