Genetic diversity analysis of Cuban traditional rice (Oryza sativa L.) varieties based on microsatellite markers

Abstract

Microsatellite polymorphism was studied in a sample of 39 traditional rice (Oryza sativa L.) varieties and 11 improved varieties widely planted in Cuba. The study was aimed at assessing the extent of genetic variation in traditional and improved varieties and to establish their genetic relationship for breeding purposes. Heterozygosity was analyzed at each microsatellite loci and for each genotype using 10 microsatellite primer pairs. Between varieties genetic relationship was estimated. The number of alleles per microsatellite loci was 4 to 8, averaging 6.6 alleles per locus. Higher heterozygosity (H) was found in traditional varieties (H TV = 0.72) than in improved varieties (H IV = 0.42), and 68% of the total microsatellite alleles were found exclusively in the traditional varieties. Genetic diversity, represented by cluster analysis, indicated three different genetic groups based on their origin. Genetic relationship estimates based on the proportion of microsatellite loci with shared alleles indicated that the majority of traditional varieties were poorly related to the improved varieties. We also discuss the more efficient use of the available genetic diversity in future programs involving genetic crosses.

Screening and Estimation of Allelic Differentiation in Indian mustard Using SSR Markers for Background Selection

“…A similar criterion was followed by Alvarez et al, (2007). In this study, 26 frequent alleles were identified among 139 loci, with an average of 0.19 alleles per locus.…”

Molecular Characterization and Genetic Diversity Analysis of Rice (Oryza sativaL.) Using SSR Markers

“…Very frequent alleles were considered to be those occurring in more than 10% of the varieties in the collection, whereas those occurring between 2% and 10% of the varieties in the collection were classified as rare alleles (Alvarez et al 2007). In this study, 85 frequent alleles were identified at 34 microsatellite loci, with an average of 2.50 alleles per locus.…”

Genetic diversity in basmati rice (Oryza sativa L.) germplasm as revealed by microsatellite (SSR) markers

“…The use of these molecular markers investigates the genotypic variations among the different rice geno types are previously reported by some researchers [13,[24][25][26][27][28]. The implication of these molecular tech niques to investigate the genetics of Pakistani basmati genotypes is much limited.…”