Development of a cleaved amplified polymorphic sequence (CAPS) marker linked to pungency in pepper

Abstract

AbstractThe complete tack of pungency in pepper (Capsicum annuum L.) is controlled by a single recessive gene (c). To develop a molecular marker linked to the C locus, two segregating F2 populations (TM2 and TF2) derived from crosses between occasionally pungent and non‐pungent peppers in C. annuum were used. Using the RAPD (random amplified polymorphic DNA) technique in combination with a bulked segregation analysis, two RAPD markers, OPD20‐800 and OPY09‐800, were obtained. Of the two markers, the more closely linked marker. OPY09‐800, was converted into a codominant CAPS (cleaved amplified polymorphic sequence) marker using data from the alignment of the two allelic sequences. This CAPS marker was linked to the C locus (3.6 cM in the TF2 population), and polymorphism was detected among accessions within C. annuum. This marker might be helpful for the selection of a c gene in backcross and progeny tests in a conventional breeding system.