Novel EST-SSR marker development and validation in black pepper cultivars and varieties

Sherin Jose, R. Sujatha, K.P. Deeshma

Abstract


Expressed Sequence Tags-Simple Sequence Repeat (EST-SSR) markers are more preferred because it is more efficient, fast and low cost. The main objective of the study was to develop new EST-SSR markers in black pepper. Sixty eight unigene sequences containing 70 SSRs were detected from 1048 unigenes using MIcroSAtellite (MISA) identification tool. Sixty two mononucleotides, two dinucleotides and six trinucleotides were the repeat motifs obtained. Nine primer pairs were designed for eight unigene sequences. Primers were screened using DNA isolated from Panniyur-1 variety at different annealing temperature. Primers which are clear and unambiguous were selected for validation in 35 black pepper varieties and cultivars. In total, 18 alleles were obtained from five EST-SSR markers with an average of 3.6.


Keywords


Black pepper, Cultivars, EST-SSR markers, Genotypes

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References


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A KAU publication [CODEN: JTAGEI; ISSN 0971-636X; eISSN 0973-5399]