(C-A) and (G-A) anchored simple sequence repeats (ASSRs) generated polymorphism in soybean, Glycine max (L.) Merr.

Abstract

We used thirty simple sequence repeats (SSRs) with a variable 2–4 base ‘anchor’ at their 5′ ends (ASSRs) independently or with arbitrary primers in analysis of soybean germplasm and the intercross of ‘Essex’ and PI 437654. (AG)6, (GA)6 or (CT)6 and (GT)6, (TG)6 or (CA)6 were efficient in the detection of (G-A) and (C-A) ASSR-generated polymorphisms, respectively. DNA sequence analysis of the ASSR-amplified fragments confirmed the presence of SSR sequences. (A-T) ASSRs failed to give amplification or generated fewer number of fragments. Only one of the four tested decamer primers altered ASSR banding patterns in the soybean. All the six long primers (18–20 mer) tested changed ASSR banding profiles. On average, seven polymorphic fragments per ASSR primer were produced in soybean germplasm and four in the intraspecific cross of ‘Essex’ and PI 437654. The grouping of 48 genotypes in UPGMA analysis using four (C-A) and four (G-A) ASSR primers was consistent with the classification obtained with RFLP markers. Seventy-seven (91%) ASSR markers were dominant, while the remaining 8 (9%) showed codominant segregation. Fifty-eight ASSR markers were mapped onto 18 RAPD/RFLP linkage groups, which covered approximately 50% of the soybean genome. Of the (G-A) ASSR-derived markers 49% remained unlinked compared with 17% of (C-A) ASSR markers at LOD 3.0. Map linkage information showed that the assigned (C-A) polymorphisms had a biased distribution, whereas (G-A) polymorphisms were randomly dispersed.