Identification of SNP and SSR Markers in Finger Millet Using Next Generation Sequencing Technologies

摘要: Finger millet is an important cereal crop in eastern Africa and southern India with excellent grain storage quality unique ability to thrive extreme environmental conditions. Since negligible attention has been paid improving this date, the current study used Next Generation Sequencing (NGS) technologies develop both Simple Sequence Repeat (SSR) Single Nucleotide Polymorphism (SNP) markers. Genomic DNA from cultivated finger genotypes KNE755 KNE796 was sequenced using Roche 454 Illumina technologies. Non-organelle sequencing reads were assembled into 207 Mbp representing approximately 13% of genome. We identified 10,327 SSRs 23,285 non-homeologous SNPs tested 101 each for polymorphism across a diverse set wild germplasm. For 49 polymorphic SSRs, mean information content (PIC) 0.42, ranging 0.16 0.77. also validated 92 SNP markers, 80 which PIC 0.29 30 59 accessions. Seventy-six germplasm 0.30 while only 22 markers showed among accessions average value 0.15. Genetic diversity analysis revealed two major clusters; one another Detailed STRUCTURE confirmed grouping pattern further 2 sub-populations within E. coracana subsp. africana. Both genetic assisted correct identification new collections. These SSR are significant addition existing 82 published especially regard previously reported low levels millet. Our results reveal unexploited resource that can be included regional breeding programs order efficiently optimize productivity.