Characterization and mapping of sequence-tagged microsatellite sites in the chickpea (Cicer arietinum L.) genome

Abstract

A size-selected genomic library comprising 280,000 colonies and representing approximately 18% of the chickpea genome, was screened for (GA)n, (GAA)n and (TAA)n microsatellite-containing clones, of which 389 were sequenced. The majority (approximately 75%) contained perfect repeats; interrupted, interrupted compound and compound repeats were only present in 6%-9% of cases. (TAA)-microsatellites contained the longest repeats, with unit numbers from 9 to 131. For 218 loci primers could be designed and used for the detection of microsatellite length polymorphisms in six chickpea breeding cultivars, as well as in C. reticulatum and C. echinospermum, wild, intercrossable relatives of chickpea. A total of 174 primer pairs gave interpretable banding patterns, 137 (79%) of which revealed at least two alleles on native polyacrylamide gels. A total of 120 sequence-tagged microsatellite site (STMS) markers were genetically mapped in 90 recombinant inbred lines from an inter-species cross between C. reticulatum and the chickpea cultivar ICC 4958. Markers could be arranged in 11 linkage groups (at a LOD score of 4) covering 613 cM. Clustering as well as random distribution of loci was observed. Segregation of 46 markers (39%) deviated significantly (P > or = 0.05) from the expected 1:1 ratio. The majority of these loci (73%) were located in three distinct regions of the genome. The present STMS marker map represents the most advanced co-dominant DNA marker map of the chickpea genome.

Phenotypic, Genetic and Biochemical Characterization of Five Tunisian Varieties of Chickpea

“…Chickpeas yields were improved since the introduction of winter chickpeas, during the 1999-2000 cropping season, with an average yield that went up from 6.2 quintals ha -1 in 1987-1999to 7.45 quintals ha -1 in 1999-2007(DGPA, 2008. New varieties were developed by researchers at ICARDA (International Center for Agricultural Research in the Dry Area) using a new concept of winter sowing that allows chickpeas to take advantage of winter rains to improve vegetative growth, biomass and yield production (Singh & Hawtin, 1979;Ben Mbarek, 2011).…”

Use of RAPD Markers in Comparison with Agro-morphological Traits for Estimation of Diversity among Chickpea Genotypes

“…Chowdhary et al (2002) compared chickpea and other pulses for the level of polymorphism with RAPD and reported low polymorphism in chickpea as compared to other pulses. Cultivated chickpea is characterized with limited genetic variability therefore, inter-specific crosses have been utilized for the construction of linkage maps (Simon and Muelbaur, 1997;Winter et al, 1999). Despite low level of polymorphism obtained, in the present study, three primers, OPP9, OPC5 and OPC14 differentiated between Kabuli genotypes (ILC482, ICCV2, Pb1) and Desi genotypes (Dasht, Balkasar) of chickpea.…”

“…It is suggested that STMS markers be used for variability studies in cultivated chickpea as RAPD markers are unable to reveal the DNA polymorphism that is responsible for genotypic variation with respect to agro-morphological traits. STMS markers have been extensively used for mapping in chickpea (Winter et al, 1999). The grouping of genotypes in two dandrograms constructed on the basis of RAPD data and morphological data did not reveal any relationship with each other.…”

DNA marker techniques in study and selection of plant

“…Kỹ thuật này cũng được sử dụng nhiều trong nghiên cứu đa dạng di truyền, phân tích genome [86], lập bản đồ di truyền [51,198] và nhận biết giống [47].…”