SSR and RAPD-Based Genetic Diversity in Cotton Germplasms

Abstract

SummaryThis study aimed to evaluate the genetic diversity and to characterize 11 Gossypium hirsutum L. (cotton) germplasms by RAPD and SSR markers. The genomic DNA from the 11 cotton germplasms was amplified with 10 oligonucleotide primers and five microsatellite primer pairs for RAPD and SSR assay, respectively. The 10 RAPD primers generated 335 distinct bands with 100% polymorphisms indicated highly diversed nature. In addition to polymorphism, 29 unique RAPD sequences were identified in 11 cotton germplasms. The five SSR primer pairs generated 69 distinct bands of which 39 were considered as polymorphic (56.52% polymorphisms). Moreover, four unique SSR sequences were identified in three germplasms, namely CB-1, CB-5 and CB-9. The combined RAPD and SSR dendrogram made CB-11 germplasm distinct from the rest and placed alone in a separate cluster that correlated with its phenotypic and agronomic features. Thus, by means of RAPD and SSR markers the genetic diversity was assessed and the 11 cotton germplasms could be characterized authentically.

Comparison of Individual- and Bulked-Samples-Based Approaches Using RAPD and ISSR Markers for Identifying Genetic Relationships in <i>Brassica</i> Cultivars

“…Among the different molecular genetic markers, RAPD and ISSR markers have been used to generate vast quantities of data, resulting in their rapid application for addressing a diverse range of biological questions (Semagn et al 2006, Agarwal et al 2008, Verma et al 2016, Kalia et al 2017). Because of their efficiency and convenience, these techniques have been applied to taxonomic comparisons of many plant species (Fernández et al 2002, Sudupak 2004, Wu et al 2004, Liu and Wang 2006, Han and Wang 2010, Sultana and Alam 2016, Dasgupta et al 2018. To estimate the genetic distance between cultivars or populations, analyzing a large number of accessions individually within a cultivar or population is desired.…”

Karyotype and RAPD Diversity in Four Varieties of <i>Gossypium hirsutum</i> L.

“…Sultana and Alam (2016a) reported 100% polymorphism in 11 germplasms of Gossypium hirsutum revealing maximum genomic difference. In this study, 90.56% polymorphism was found in four varieties indicating that the newly released four varieties of G. hirsutum from CDB possessing relatively low polymorphism to that of Sultana and Alam (2016b).…”

“…The unique bands were stable, reproducible and specific, and thus could be used as a tool for characterization of Rupali-1. In the earlier literature, there was no information about unique bands (Esmail et al 2008, Maleia et al 2010, Saravanan et al 2006 except Sultana and Alam (2016b). Therefore, the report for RAPD unique band is the pioneer for G. hirsutum.…”