Genetic and sequence analysis of the RAPD fingerprint containing a Rsv3-linked marker rapidly identified by using RILs in soybean

Abstract

Soybean mosaic virus (SMV) is a prevalent virus that infects soybean [Glycine max (L.) Merr.] crops worldwide. The Rsv3 gene of soybean confers resistance to three (G5-G7) of the most virulent strains of 7 defined SMV strains, which were grouped based on virus-reaction phenotypes of a spectrum of soybean cultivars mainly carrying Rsv1 alleles. The objective of this study was to develop high throughput molecular markers tightly linked to Rsv3 for marker-assisted selection by the random amplified polymorphic DNA (RAPD) fingerprinting method. A recombinant inbred line (RIL) population from a cross between 'IT182932' and 'Hwangkeumkong' and a BC3F2 population from a cross between 'L29' (resistant) and 'Sowonkong' (susceptible) were primarily used. Two hundred twenty oligonucleotide primers (10mer) were run in a set of recombinant individuals. A polymorphic DNA fragment generated by OP-Z20 was tightly linked to Rsv3 in the analysis of the BC3F 2 population. The fragment was subsequently sequenced and converted to a semi-codominant marker. Sequence analysis of a common band generated by OP-Z20 revealed similarity to the sequence of transposase, characteristic of the Mutator transposable element system. The results could facilitate marker-assisted selection to pyramid Rsv3 with other SMV resistance genes into elite soybean cultivars.