Evaluation of genetic diversity and relationships within an on-farm collection of Perilla frutescens (L.) Britt. using microsatellite markers

Abstract

The present study demonstrates utilization of 11 microsatellite markers to explore genetic diversity held in Perilla frutescens (L.) Britt. landrace accessions growing on farms in different parts of Korea and Japan and to assess their genetic relationships. All microsatellite loci were polymorphic and produced a total of 96 alleles ranging from 4 to 20, with an average of 8.7 alleles per locus. Of the 96 alleles found, a total of 15 unique landrace-specific alleles were observed at 9 different loci. The locus GBPFM203 provided the highest number of alleles (20), of which five were unique and each specific to a particular landrace accession. The occurrence of unique, accession-specific alleles presented molecular evidence for the generation of new alleles within onfarm collection of Perilla. The mean values of observed (H O ) and expected heterozygosity (H E ) were 0.39 and 0.68, respectively, indicating a considerable amount of polymorphism within this collection. A genetic distance-based phylogeny grouped the two Perilla varieties, var. frutescens and var. crispa (Thunb.) Decne into two distinct groups. Accessions belonging to var. frutescens could also be divided into two subgroups at a close genetic distance (GD = 0.432). The overall clustering pattern did not strictly follow the grouping of accessions according to their geographic origins. These observations are indicative of extensive germplasm exchange among farms from different geographical regions. The genetic similarity observed among the Perilla landraces may be useful for future Perilla crop variety identification, conservation, and improvement programs.

Assessment of Genetic Diversity and Fatty acid Composition of Perilla (Perilla frutescens var. frutescens) Germplasm

“…The sequences of seven primer pairs of SSR markers were obtained Park et al (2008) and additional five polymorphic SSR markers were isolated from the microsatellite enriched library prepared using the protocol described by Dixit et al (2005) in this study. A final set of 12 SSR primer pairs was used for the analyses of 94 genotypes ( Table 2).…”

“…The clustering patterns based on the used SSR markers in this paper permitted clear distinctions landraces and weedy types, and it indicated enough polymorphism to differentiate the intra-and interpopulation diversity. These 12 SSR marker set, that consist of newly developed and derived from Park et al (2008), will be useful tools for assessing genetic diversity and population structure in P. frutescens.…”

“…frutescens were (Park et al, 2008) and the weedy types are grown naturally , even though some varieties have been developed for mainly seed or leaf production. Landraces have been continuously maintained by farmers within their local biological, cultural and socio-economic context.…”

“…Recently, the variability of some perilla genotypes has been described in terms of their morphology, cultivation, use, and diversification (Lee and Ohnishi, 2001;Nitta et al, 2003 and, as well as their genetic diversity and relationships with weedy forms using random amplified polymorphic DNA (RAPD) (Nitta and Ohnishi, 1999), amplified fragment length polymorphism (AFLP; Lee et al, 2002;Lee and Ohnishi, 2003), and SSR markers (Park et al, 2008;Verma et al, 2010). However, limited information is available on population structure and fatty composition of Korea landraces and weedy types in P. frutescens var.…”

Research Article Genetic diversity and population structure analysis in Perilla frutescens from Northern areas of China based on simple sequence repeats.

“…Among them, random amplified polymorphic DNA or RAPD (Nitta and Ohnishi, 1999), amplified fragment length polymorphism or AFLP (Lee et al, 2002;Lee and Ohnishi, 2003), and simple sequence repeats or SSR (Lee and Kim, 2007;Park et al, 2008;Sa et al, 2013Sa et al, , 2015 markers have been applied in the analysis of genetic diversity and relationships among cultivated and weedy types of Perilla crop in East Asia and other countries. Particularly, SSR markers are highly reproducible, polymorphic, generally codominant, and abundant in plant genomes (Powell et al, 1996;Park et al, 2009).…”