Development of dominant sequence characterized amplified region (SCAR) marker linked with plume moth ( Exelastis atomosa   Walsingham 1886) resistance in pigeon-pea

The mode of gene action governing resistance to plume moth ( Exelastis atomosa

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Walsingham 1886) derived from pigeon-pea ( Cajanus scarabaeoides

(L.) Thouars) accession ICPW-94 has been determined and the resistance alleles have been designated as PPM₁. The progenies of F₂ population and F₃ families derived from an interspecific cross C. cajan

(L.) Huth (‘ICP-26’) × C. scarabaeoides (accession ICPW-94) revealed monogenic gene action for resistance to plume moth, and the dominant control by single locus or cluster of tightly linked alleles. Bulked segregant analysis (BSA) of 116 F₂ progenies by using 143 parental polymorphic RAPD primers could identify a fragment OPA09₉₁₀ associated with plume moth resistance in coupling phase of linkage. Further single plant analysis of the 116 F₂ mapping population revealed OPA09₉₁₀ was linked to PPM₁ locus conferring host resistance to plume moth with recombination fraction (rf) value of 0.125 (12.7 cM of Kosambi function). The resistance specific fragment OPA09₉₁₀ was cloned, sequenced and converted into a sequence characterized amplified region (SCAR) marker, SCOPA09₉₄₂, which was also closely associated (10.3 cM) with the locus PPM₁ with rf value 0.102. BLAST analysis with pigeon-pea genome sequence also confirmed its occurrence in CcLG02 (Scafseq.LG_V5.0fa) and contig 01597 (AFSP01.fsa1). This SCAR marker showed reasonable screening efficiency in the F₂, F₃, and BC₁F₁ lines, thus it can be used as genetic handle in marker-assisted introgression of the genomic fragment conferring plume moth resistance and screening of breeding lines in pigeon-pea.

Keywords
BSA; Cajanus cajan; Cajanus scarabaeoides; interspecific population; linkage mapping; marker assisted breeding