EST-SSR marker revealed effective over biochemical and morphological scepticism towards identification of specific turmeric (Curcuma longa L.) cultivars

Abstract

Turmeric (Curcuma longa L., family Zingiberaceae) is one of the most economically important plants for its use in food, medicine, and cosmetic industries. Cultivar identification is a major constraint in turmeric, owing to high degree of morphological similarity that in turn, affects its commercialization. The present study addresses this constraint, using EST-SSR marker based, molecular identification of 8 elite cultivars and 88 accessions in turmeric. Fifty EST-SSR primers were screened against eight cultivars of turmeric (Suroma, Roma, Lakadong, Megha, Alleppey Supreme, Kedaram, Pratibha, and Suvarna); out of which 11 primers showed polymorphic banding pattern. The polymorphic information content (PIC) of these primers ranged from 0.13 to 0.48. However, only three SSR loci (CSSR 14, CSSR 15, and CSSR 18) gave reproducible unique banding pattern clearly distinguishing the cultivars 'Lakadong' and 'Suvarna' from other cultivars tested. These three unique SSR markers also proved to be effective in identification of 'Lakadong' cultivars when analysed with 88 accessions of turmeric collected from different agro-climatic regions. Furthermore, two identified cultivars (Lakadong and Suvarna) could also be precisely differentiated when analysed and based on phylogenetic tree, with other 94 genotypes of turmeric. The novel SSR markers can be used for identification and authentication of two commercially important turmeric cultivars 'Lakadong' and 'Suvarna'.

De novo assembly of transcriptomes, mining, and development of novel EST-SSR markers in Curcuma alismatifolia (Zingiberaceae family) through Illumina sequencing

“…This can be compared to reports from previous studies on C . longa (Na = 4.7 and 7.1, PIC = 0.32) 15,72 , Cardamom (Ne = 1.32 to 1.52 and I = 0.22 to 0.36) 73 , and Aframomum corrorima (Braun) from the ginger family (Na = 4.82, Ne = 2.09, I = 0.83) 74 for genomic SSRs. Currently, development of genic SSR markers through NGS-based RNA-seq has become one of the most efficient methods in both model and non-model plants, and many EST-SSR markers have been widely utilized in genetic diversity studies 75,76 .…”

Phylogeny Study of 20 Selected Species of Zingiberaceae from Ex situ Collections in Peninsular Malaysia

“…(Vanijajiva et al, 2005), Curcuma spp. (Basak et al, 2017;Das et al, 2011;Kitamura et al, 2007;Prashanth Sahoo et al, 2017;Senan et al, 2013;Siriluck et al, 2014;Theanphong et al, 2016;Zou et al, 2011), and Kaempferia spp. (Devi et al, 2015;Pojanagaroon et al, 2004;Theanphong et al, 2018;Vanijajiva et al, 2005).…”

Distribution, Cytology, Genetic Diversity and Molecular phylogeny of selected species of Zingiberaceae – A Review

“…Sahoo et al. () using EST‐SSR markers investigated eight (Lakadong, Suvarna, Suroma, Roma, Megha, Alleppeysupreme, Khedaram and Pratibha) elite cultivars and 88 accessions of C . longa .…”

“…were strongly supported as monophyletic. Xia et al (2004) analyzed the evolutionary relationships among 53 accessions of 13 genera of Zingiberaceae including 31 AFLP, ISSR, RAPD, SSR, Syamkumar and Sasikumar 2007;Siju et al 2010;Das et al 2011;Sigrist et al 2011;Mohanty et al 2013;Siriluck et al 2014;Prashanth et al 2015;Singh et al 2015;Sahoo et al 2017;Basak et al 2017Hedychium spp. ISSR, RAPD Basak et al 2014Sanatombi 2018 Feddes Repertorium 2020, 131, 58-68 A review on selected species of Zingiberaceae accessions of Amomum with the sequences obtained from the ITS and matK regions.…”