Novel SNP based analysis of genetic diversity in Polygonatum verticillatum Linn. across Indian Himalayas

Polygonatum verticillatum Linn. is an endangered medicinal herb from Himalayas whose rhizomes have recently been used to curate symptoms of COVID-19. During present investigation, a gene bank of P. verticillatum was established at High Altitude Herbal Garden of Forest Research Institute, Dehradun at Chakrata, at 2600 m amsl with germplasm collected from different states and union territory of India including Himachal Pradesh, Sikkim, Uttarakhand and Jammu and Kashmir covering a wide range of geographical locations from an altitude of 1800 to 3600 m amsl. Genotyping by sequencing was applied to a set of 66 accessions of P. verticillatum to identify genome-wide high quality single nucleotide polymorphisms (SNPs) for analysis of genetic diversity. Neighbour-joining tree created from the distance matrix data grouped the genotypes into five distinct clusters. The results of principal coordinate analysis and Cluster analysis overlapped to identify Narkanda, Shimla (Himachal Pradesh) and Sunil village, Chamoli (Uttarakhand) as the regions with undisturbed, highly diverse natural populations of P. verticillatum. The species displayed little congruence in terms of genetic similarities with altitudinal range. This investigation is first of its kind on generation and utilization of SNPs to analyse genetic diversity in P. verticillatum with a very vivid sample collection across the entire Himalayan range in India.