Application of maize genomic SSR markers to identify the cross transferable, polymorphic markers and orthologous regions for finger millet genomics

摘要

The vast amount of genetic information of maize crop gives a lot of scope for enriching the finger millet genomics research. There were very few genomic SSRs available in finger millet which was a major hurdle for the crop improvement. Hence, in the present study, we screened 271 maize genomic SSRs to identify the cross transferable, polymorphic SSRs, orthologous regions and for genetic diversity analysis in finger millet. Out of the 271 SSRs, 134 (49.4%) showed transferability and only 24 (18%) were found polymorphic. Seven markers were polymorphic between the genotypes VR708 and GPU48, whereas six markers were between GE86 and PRM801 genotypes which can be used in mapping populations and in comparative maps. The study also identified few putative orthologous regions for the genes like Zein alpha protein 1 (ZPI), golden 2 plant 2 gene (G2) and coloured aleurone gene. These 24 polymorphic SSRs yielded 61 scorable alleles with a mean of 2.37 alleles per locus. The polymorphism information content (PIC) varied from 0.14 to 0.69 at an average of 0.33, gene diversity was varied from 0.15 to 0.74 with an average value of 0.39, whereas heterozygosity observed with an average of 0.46 and ranged from 0.00 to 1.00 which showed a wide range of heterozygosity. The dendrogram generated from Power Marker V3.25 software grouped the finger millet genotypes into two major clusters based on the races. The markers identified in the study can be further use for linkage maps, comparative maps between maize and finger millet and for QTL mapping studies.