Genetic Characterization of Landraces and Varieties using Functional Microsatellite Markers in Eleusine Coracana (L.)
Journal Title: International Journal of Agricultural Science and Research (IJASR) - Year 2017, Vol 7, Issue 3
Abstract
About 3515 genomic and EST sequences from the public database were mined in-silico for microsatellite repeats containing di-, tri-, tetra- and Penta-nucleotide repeat motifs and 3334 primer pairs were designed. One hundred primers were synthesized and validated in Eleusine coracana species, and the polymorphic microsatellites were used for characterizing 32 local land races and commercial varieties collected from five different districts in Karnataka. The studies were focused on estimating genetic parameters of the markers, genetic diversity and population structure. Functional annotation and gene ontology was assigned using Uniprot database under the categories of molecular function, biological process and cellular component. The mean values of the number of alleles per locus, diversity index and polymorphic information, content were 4.6, 0.5 and 0.43 respectively. The population structure analysis performed under an admixture model with correlated allele frequencies using STRUCTURE, and the principal coordinate analysis indicated four subgroups within the population. While AMOVA indicated significant variation within and among populations, Hardy-Weinberg test indicated no significant deviations in majority of the markers.
Authors and Affiliations
Nagabhushana Kotrappa, Shailaja Hittalmani, Krishna Venkatarangaiah
Keywords
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