Vol. 19 No. 3
Efficient separation of PCR products of SSR markers linked with brown plant hopper resistance in rice using high-resolution metaphor agarose
Author(s): A. CHACKO, V. G. JAYALEKSHMY, A. M. SHAHIBA AND S. ANAND
Abstract: Detecting polymorphism is necessary for developing and mapping SSR markers, efficient selection of parents for crossing, and progenies carrying the gene of interest in segregating generations for an efficient backcross breeding program. Brown plant hopper resistance breeding studies in rice involve SSR marker-based screening and PCR analysis. In this study, metaphor agarose is compared with normal agarose gel electrophoresis for separating similar fragments or small difference bands. Rice SSR marker was analyzed in a susceptible and resistant variety and their F1 progenies. PCR products were distinctly separated on metaphor agarose gel electrophoresis and showed parental polymorphism and F1 hybridity confirmation with a high resolution of bands even within a 20bp difference compared to normal agarose gel. The results confirmed that Metaphor Agarose is an effective substitute for normal agarose and other electrophoresis techniques when compared on basis of cost, time, and need for specialized equipment and technology.
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