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Indian Journal of Genetics and Plant Breeding (The)
Year : 2019, Volume : 79, Issue : 4
First page : ( 719) Last page : ( 725)
Print ISSN : 0019-5200. Online ISSN : 0975-6906.
Article DOI : 10.31742/IJGPB.79.4.10

Molecular diversity analysis and DNA fingerprinting of cotton varieties of India

Santhy V.1,*, Meshram M., Santosh H. B.1, Kranthi K. R.2

Division of Crop Improvement, ICAR-Central Institute for Cotton Research, Nagpur, Maharashtra

1Equal contribution

2Present address: Technical Information Section, International Cotton Advisory Committee (ICAC), USA

*Corresponding author's e-mail: santhy100@gmail.com

Online published on 11 February, 2020.


Genetic diversity was assessed in 48 popular varieties of tetraploid cotton from each cultivated zone of India using 68 SSR markers distributed across linkage groups. The markers produced a total of 144 alleles with an average of 2.19 per locus. The polymorphism information content (PIC) ranged from 0.04 to 0.57 with a mean of 0.23 indicating lesser diversity in the studied material. Jaccard's similarity index based neighbourhood joining cluster analysis grouped the genotypes into three major clusters, each of which was further classified into sub-groups. Inconsistencies were observed between the clusters and known pedigree of the cultivars. A narrow genetic base was also revealed among the cotton cultivars. The SSR markers revealed a genetic similarity of 73% among the varieties studied. The DNA fingerprint developed using a selected set of 14 markers showed a probability of identical match of 2.47×10−3 with high goodness of fit (r2=0.86). The identified markers have great potential in DNA fingerprinting in cotton which in future could be integrated with DUS data descriptors for effective cultivar identification and differentiation.



Cotton, genetic diversity, fingerprinting, SSR markers, varieties.


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