Identification of Highly Polymorphic Molecular Markers and Potential Genotypes for Harnessing Chickpea Breeding Strategies

Abstract

Background: STMS markers and morphological traits were used to investigate the genetic relationship and allelic diversity in chickpea. In this study, we focused on the selection and more efficient utilization of core germplasm in breeding programs for chickpea crop improvement using STMS and quantitative / morphological traits. Methods: Seeds of elite accessions of chickpea were obtained from ICRISAT, Patancheru, Andhra Pradesh, India. 50 STMS markers and 11 quantitative traits were used for exploring the genetic variability and relationship in 35 chickpea accessions. Result: A total of 97 alleles were produced out of the 32 polymorphic STMS loci with an average of 3.03 alleles per locus ranging between 2-6 alleles per primer. The PIC value ranged from 0.029 to 0.768 with an average of 0.502. PIC value showed a highly positive correlation (r = 0.718) with number of alleles at the STMS loci. In both molecular and morphological markers / traits-based clustering, out of 35 chickpea accessions only one accession ICC-13892 was isolated at the end of clustering. The results indicated that highly polymorphic microsatellite markers NCPGR 68, NCPGR 50, NCPGR 81, NCPGR 48 and NCPGR 77 along with the accessions ICC-13892 having distant associations with ICC-13816, ICC-15697, ICC-15610, ICC-15868, ICC-15888, ICC-15996 with novel findings should be useful resources for strategies of allele mining, association genetics, mapping and cloning of gene(s) and in applied breeding to broaden the genetic base of chickpea.

Disentangling potential genotypes for macro and micro nutrients and polymorphic markers in Chickpea

“…The consequent depicted phenogram assembled 9 genotypes into 3 distinct clusters with different sub clusters (Figure1). Similar works have also been reported [34,35,36,37,38] utilizing different molecular markers in chickpea.…”

Genome-wide discovery of di-nucleotide SSR markers based on whole genome re-sequencing data of Cicer arietinum L. and Cicer reticulatum Ladiz

“…In the present study, heterozygosity was detected in genotypes that ranged from 0.03 to 0.66 with mean of 0.34, which is similar to previous studies reported previously by Upadhyaya et al 74 and Hajibarat et al 75 . Genetic diversity analysis showed that the average PIC value of SSR markers was 0.73, higher than PIC value of the SNPs 76 , STMS 77 , 78 , AFLP 20 and SilicoDArT 79 markers used to identify genetic variation in chickpea. Botstein et al 80 reported the PIC values of markers as highly informative (≥ 0.5), reasonably informative (0.50–0.25), or least informative (≤ 0.25).…”

Unclasping potential chickpea resources for the antioxidant enzyme superoxide dismutase

“…Chickpea mapping is acutely obstructed by amazing little genetic polymorphisms in cultivated genotypes and previously utilized molecular oligos such as isozymes, RFLP, RAPD, AFLP, and so forth being unsuccessful to disclose intra-specific differentiations. [4][5][6] Amidst an array of DNA-based markers, Sequence Tagged Microsatellite Site (STMS) markers are often preferred in varied crop plants, inclusive of chickpea owing to their plethora, genomic compass, genetically co-dominant nature along with alleviated polymorphism [7][8][9][10][11][12][13][14] and their distribution on various linkage groups or chromosomes. [15][16][17] Chickpea specific STMS molecular markers were developed first time 18 that divulged polymorphism up to a prudent degree.…”