CAPS and SCAR markers linked to maintenance of self-incompatibility developed from SP11 in Brassica napus L.

Difficulty in propagating self-incompatible lines on a large scale limits the utilization of self-incompatibility in Brassica napus. The self-incompatible line S-1300 and its maintainer Bing409 were used in this study to develop molecular markers linked to the maintenance for the self-incompatibility of S-1300. The maintenance of Bing409 is controlled by one recessive gene. SLG-specific primer pairs PS5/PS15 and PS3/PS21 cannot be used to discriminate the S haplotypes of Bing409 and S-1300. BrSRK-60-based primer pair SRKa-L and SRKa-R produced one band in S-1300, but no band in Bing409. BrSP11-60-based primer pair SP11a-L and SP11a-R gave rise to one band in S-1300 and Bing409, but their length was different. Compared with SP11-S-1300, SP11-Bing409 had two deletions of 2 and 9 bp. One co-dominant cleaved amplified polymorphic sequence marker was developed; two dominant sequence characterized amplified region markers linked to the maintenance were developed on the 9 bp deletion. The markers co-segregated with self-incompatibility phenotypes in S-1300 × Bing409 F2, two BC1 and eight BC1F2 populations. We have shown a way to develop PCR markers linked to the S haplotype of B. napus, which could be very helpful for marker-assisted selection in B. napus hybrid breeding.