Characterization and genetic diversity analysis of cotton cultivars using microsatellites

Abstract

Genetic diversity and the relationship between varieties are of great importance for cotton breeding. Our work was designed to estimate the informativeness of the cotton (Gossypium hirsutum L.) simple sequence repeat (SSR) microsatellite locus and to estimate the genetic distance between 53 cotton cultivars as well as to select a set of SSR primers able to differentiate between the 53 cotton cultivars studied. After extracting DNA from the 53 cultivars and characterized it using 31 pairs of SSR primers we obtained a total of 66 alleles with an average of 2.13 alleles per SSR locus and values of polymorphism information content (PIC) varying from 0.18 to 0.62, the dissimilarity coefficient varying from zero to 0.41. Statistical analysis using the unweighted pair-group method using arithmetic average (UPGMA) revealed seven subgroups which were consistent with the genealogical information available for some of the cultivars. The SSR genetic profile obtained for each of the cultivars made it possible to discriminate 52 of the 53 cultivars. This study of the genetic diversity of cotton cultivars with SSR markers support the need to introduce new alleles into the gene pool of the breeding cultivars.

Assessment of allelic diversity among drought-resistant cotton genotypes using microsatellite markers

“…PIC values ranged from 0.17-0.70. These findings were consistent with that of Bertini et al (2006), who reported low PIC values while examining the genetic diversity in 53 cotton cultivars. In addition, Jia et al (2014), who used 106 SSR primer pairs to estimate molecular diversity in 323 genotypes of Gossypium hirsutum grown under drought stress, detected narrow genetic base in the experimental material, indicated by low PIC value (0.53).…”

Genetic diversity of Turkish commercial cotton varieties revealed by molecular markers and fiber quality traits

“…Regarding our SSR markers and DPL series SSR markers analysis the average of alleles per locus of 30 SSRs (2.56) is similar to that observed by Bertini et al (2006) using 31 SSR primers to characterize 53 cultivars (2.13 alleles per locus). PIC values provide an estimation of marker power by considering both the number of alleles at a locus and the relative frequencies of those alleles in the population under study (Pei et al, 2010).…”

“…From 1964 to the present, critical improvements in fiber quality have been observed; for example, Maydos Yerlisi is one of the oldest varieties, released in 1964, with medium quality and is not cultivated nowadays. The most qualified genotypes detected in this study were Delcerro, Aydın 110, Diva, Menderes 2005, ST 373, Claudio, and Lydia (released in 1977, 2001, 2002, 2005, 2006, after Egyptian cotton Giza 70. While Delcerro (parent of Aydın 110) and Aydın 110 are the oldest cultivars ST 373, Claudio and Lydia are new cultivars with high fiber quality; therefore, they are promising varieties for fiber quality improvements in breeding programs and the textile industry.…”

Screening of highly informative and representative microsatellite markers for genotyping of major cultivated cotton varieties

“…In previous studies, accessions with significantly different phenotypes and genetic backgrounds were used for primer screening, and the obtained markers were applied for genetic diversity assessment, genetic map construction, quantitative trait loci mapping, etc. (Bertini et al, 2006;Chen and Du, 2006;Pang et al, 2006;Guo et al, 2007;Pan et al, 2008;Yu et al, 2012b). These markers may represent polymorphisms between different Gossypium species.…”