Screening of a SSR marker tightly linked to nectariless gene in cotton and the SCAR marker conversion

Abstract

A DNA marker linked to the nectariless gene in cotton was explored based on the population of F1 and F2 of 97014×TM-1 by bulk segregant analysis (BSA) and simple sequence repeats(SSRs) technique. A total of 203 SSR primers were screened and a SSR marker(BNL1673) closely linked to nectariless gene(1.33 cM) was identified and then sequenced. Two pairs of specific PCR primers were designed, and the products of SCAR(sequence characterized amplified region)-PCR indicated that only one pair of primers could amplify polymorphic bands between nectary and nectariless traits .The specific pair of primers was chosen to amplify each individual in the F1 and F2 population, and the result showed that the segregation pattern of this SCAR marker for nectariless gene was the same as that of the SSR marker, thus these primers could use as the specific primer of SCAR marker for identifying nectariless gene.