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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%)