Simple sequence repeat markers associated with agro-morphological traits in chickpea (Cicer arietinum L.)

Abstract

Chickpea (Cicer arietinum L.), a cool season grain legume, serves as an important cheap source of protein and energy in developing countries, and plays an important role in the enrichment of soil fertility. In order to identify simple sequence repeat (SSR) markers associated with agro-morphological traits in chickpea, 44 genotypes comprising cultigen, landraces, internationally developed improved lines and wild relatives, were phenotyped for several agro-morphological traits in a randomized complete block design with three replications at Urmia Rainfed Research Station. High genetic variability was observed among the chickpea genotypes for the studied agro-morphological traits. In molecular experiment, genetic variability among genotypes was assessed by using SSR markers. One hundred alleles were generated at 16 SSR loci, with a mean number of alleles per locus of 6.25. Using general linear model (GLM) and applying multiple testing corrections, 10 SSR loci associated with the genes controlling the studied agro-morphological traits were identified. Some identified markers were associated with more than one trait. The identified markers could be of great interest in marker assisted selection (MAS) in chickpea breeding programmes.

Mixed linear model association mapping for low chloride accumulation rate in oriental-type tobacco (Nicotiana tabaccum L.) germplasm

“…However, current gene mapping efforts in plants are shifting from conventional biparental QTL mapping to LD-based association mapping (Sorkheh et al 2008), which is the most effective approach to utilize natural variation in the form of ex situ conserved crop genetic resources. Some successful reports on association mapping in plants such as rice (Yan et al 2009), barley (Kraakman et al 2006), wheat (Ghavami et al 2011;Zhang et al 2011Zhang et al ), potato (D'hoop et al 2008, soybean (Jun et al 2007), maize (Andersen et al 2007), chickpea (Saeed et al 2013), and forage grasses (Dobrowolski & Forster 2007) are available. To our knowledge, this is the first report on the identification of responsible locus for chloride accumulation rate via association mapping in tobacco.…”

“…Association mapping offers a good alternative approach for detecting tightly linked markers to the QTL of interest in natural populations, germplasm collections, and even routinely generated breeding programs (Parrisseaux & Bernardo 2004;Abdurakhmonov & Abdulkarimov 2008). This method has been used in several plants species, including maize (Thornsberry et al 2001), barley (Kraakman et al 2006), hexaploid wheat (Breseghello & Sorrells 2006), sunflower (Darvishzadeh et al 2008;Davar et al 2012), chickpea (Saeed et al 2013), and long life span forest plants (Wilcox et al 2007). …”

Association analysis of physiological traits in spring barley (Hordeum vulgare L.) under water‐deficit conditions

“…Association analysis is a method in the search for detecting relationships between phenotypic diversity and genetic polymorphisms in natural populations (Remington et al., 2001; Simko, et al., 2004; Simko, Haynes, et al., 2004; Thornsberry et al., 2001; Wilson et al., 2004). This method has been used in different plant crops, including maize (Thornsberry et al., 2001), barley (Kraakman et al., 2006), wheat (Breseghello & Sorrells, 2006), sunflower (Darvishzadeh et al., 2008; Davar et al., 2012), chickpea (Saeed et al., 2013), and tobacco (Basirnia et al., 2014). GWAS has advantages compared to linkage mapping in identifying QTLs related to traits.…”

Population structure, linkage disequilibrium and association mapping for morphological traits in sunflower (Helianthus annuusL.)

“…As a precondition, identifying tightly linked markers is essential for the successful and effective use of DNA marker technology in breeding programmes. [2,3] Mapping QTL in plants is commonly achieved by means of systematic bi-parental breeding populations, e.g. backcrosses, F 2 -intercrosses or recombinant inbred lines (RILs).…”

“…[7] Association mapping is particularly useful for the purpose of identifying markers that are tightly linked to a specific QTL in natural populations and germplasm collections. [4,8] This approach has been used in a number of plant species of agricultural importance, including maize, [7] barley, [9] hexaploid wheat, [10] sunflower, [11,12] chickpea, [2] tobacco, [13] and others. Association mapping is often preferred to bi-parental linkage analysis because it allows higher mapping resolution due to using all the meiosis events accumulated in the breeding history of a species.…”