Molecular Diversity Analysis of Somaclonal Variants of Potato (Solanum tuberosum L.) by Random Amplified Polymorphic DNA Markers

Abstract

Aims: An experiment was conducted to analyze the DNA fingerprinting and genetic diversity of nine potato (Solanum tuberosum L.) somaclonal variants and three check varieties.
 Place and Duration of Study: The experiment was carried out at the Biotechnology laboratory of the Department of Biotechnology, Faculty of Agriculture, Sher-e-Bangla Agricultural University, Dhaka-1207, Bangladesh during November, 2013 to December, 2014.
 Methodology: The somaclonal variants investigated were SIP-3, SIP-5, SVP-6, SVP-18, SVP-19, SVP-25, SVP-55, SVP-56 and SVP-68, while the check varieties were Cardinal, Diamant and Asterix. Six RAPD primers were used to perform PCR reaction after genomic DNA was extracted from young leaves.
 Results: The selected 6 primers produced total 54 distinct and differential amplified DNA bands of size range 88 bp to 3265 bp, where 47 bands (~87%) were polymorphic and 7 bands (~13%) were monomorphic. The pair-wise inter-genotype similarity indices were ranged from 61.59% to 93.55% with an average of 74.31%. The Nei’s genetic distance among 12 potato genotypes was estimated from 0.0972 to 0.6217 whereas, genetic identity was between 0.5370 and 0.9074. Here, the distantly linked accessions among the somaclonal variations with check varieties were SVP-6 (to Cardinal and Diamant) and SVP-25 (to Asterix). In addition, the UPGMA dendrogram segregated the 12 potato genotypes into two broad clusters containing 8 and 4 genotypes, respectively. Furthermore, the dendrogram also displayed the highest genetic distance between SVP-6 vs SVP-68 genotype pair.
 Conclusion: Significant relationship and diversity were found among the studied 12 genotypes. This genetic diversity among the potato genotypes would be utilized for further potato improvement.

Molecular characterization and diversity analysis of some local potato (Solanum tuberosum L.) genotypes of Bangladesh by RAPD markers

“…Here, Sheel Bilati and SAU Promising Genotype-5 genotype pairs are more closely related than other genotype pairs. Likewise, Brenna (2004) andShamsuzzaman et al (2021) showed the genetic relationship among 12 potatogenotypes with similar dendrogram.…”

“…Seven decamer primers of random sequence viz. OPA-17, OPA-18, OPB-06, OPB-09, OPC-01, OPF-08 and OPW-01 (Operon Technologies, Inc., Alameda, California, USA; Pattanayak et al, 2004;Shamsuzzaman et al, 2021) were initially screened on 10 potato genotypes and the best five (OPA-18, OPB-06, OPC-01, OPD-02 and OPW-01) were selected based on their ability to produce polymorphic DNA band.…”

“…Polymerase chain reactions were conducted for every sample with 12.5 µL of 2X Taq Mastermix (GeneON, Germany), 2.5 µL of RAPD primer, 7.5 µL of sterile deionized water and 2.5 µL of Genomic DNA (25 ng/ µl); total reaction mixture volume was 25 µL. An oil-free thermal cycler (Esco Technologies Swift™ Mini Thermal Cyclers) was used to perform DNA amplification following the thermal profile described by Shamsuzzaman et al, (2021).…”

“…However, the PCR-based RAPD (random amplified polymorphic DNA) marker technique has various precedence because these are generally dominant in nature, can be carried out efficiently with a small amount of DNA, and can also demonstrate polymorphism to a high degree. The method does not need radioactive labeling or previous genomic information (Shamsuzzaman et al, 2021). In addition to that, it is a reliable and comparatively inexpensive technique too (Tiwari et al, 2015).…”