Indian Society of Genetics & Plant Breeding


Development of chloroplast microsatellite markers in Capsicum: Insight into evolution of Bhut Jolokia - a clad of ghost chilli landraces

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In the present study, a total of 27 chloroplast specific SSRs
(CpSSR) have been identified in the chloroplast genome of
Capsicum annum L. The frequency of the SSRs was about
one in 5.7 kb of the chloroplast genome. Out of 27 SSRs, 26
were mono-nucleotide repeats of A/T and one was a trinucleotide repeat (TTA). Further a set of seven markers
were validated by genotyping 48 capsicum accessions
comprising of cultivars from five different species and
landraces of unknown identity. The seven SSR markers
generated a total of 27 alleles among 48 samples used in
this study. The size of the amplicons varied from 161 bp
(CaCpM22 & 26) to 339 bp (CaCpM06). The polymorphic
information content (PIC) value for the set of the primers
used ranged from 0.11 to 0.48 with an average of 0.33. The
number of alleles for markers ranged from three to six with
an average of 3.28 alleles per marker. The phylogenetic
analysis of the chilly accessions showed that the Bhut
jolokia land race is clustered along with the
C. frutescence
indicating the it’s probable parentage. The chloroplast
genome based SSR markers identified in the present study
can be further used for the marker-assisted genomic

Keywords: Bhut Jolokia, Capsicum, Chilly, Chloroplast, SSR


Year: 2021
Volume: 81
Issue: 1
Article DOI: 10.31742/IJGPB.81.1.10
Print ISSN: 0019-5200
Online ISSN: 0975-6906



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