Evaluation of molecular diversity analysis and relation with environmental factors in accessions of Cumin (Cuminum cyminum L.) in Iran, revealed by inter-simple sequence repeat (ISSR) markers and start codon targeted (SCoT) markers

Abstract

Cuminum cyminum (as an aromatic herb) is the sources of cumin, which has been commonly used in traditional medicine for the treatment of various diseases especially in tropical Asia. Thus, the current experiment was performed to accesses molecular genetic diversity among 22 collected accessions of cumin from different area of Iran, based on inter simple sequence repeat (ISSR) markers and start codon targeted (SCoT) markers. Analysis of molecular variance revealed that a significant genetic difference between the studied accessions reach to 43%. Mantel test between genetic diversity and geographical distance indicated that an increase in geographical distance of collected accessions did not influence on genetic differentiation. Results about all agro-morphological traits showed a significant difference between the ecotypes except the number of branches. Canonical correspondence analysis ballot of genetic features and environmental factors included 5 geographic and climatic factors for seed origin’s habitat, which have been show that the mentioned parameters had no strong effect on the plant genotypes. However, difference in elevation and latitude of accession origins had effect on genetic clustering in two major groups. The consensus tree of both molecular and morphological data relieved that the accessions Chah-Dashi, Damghan, Ferdows and Nehbandan formed discreet clusters based on genetic and agro-morphological features. In conclusion, the results confirmed that both ISSR and SCoT markers were reliable and useful tools for analyzing the genetic diversity of cumin in Iran.

Evaluation of Genetic Variability within a Collection of Cumin Genotypes Using RAPD, ISSR, SRAP and SCoT Markers and Variability of In Vitro Callus Induced Therefrom

“…Using various RAPD primers, polymorphism percentages have reached about 86%, according to Baghizadeh et al [17], among 32 cumin genotypes; 62% as reported by [19]; and 54% as reported by Rostami-Ahmadvani et al [42]. ISSR markers have shown varying polymorphism percentages, attaining 25.74 [43], 67% [42], 70% [19] and a range from 56 to 89% [44]. SCoT markers have also exposed diverging polymorphism values ranging from 29.67% [43] to 79.80% [8,9].…”

“…ISSR markers have shown varying polymorphism percentages, attaining 25.74 [43], 67% [42], 70% [19] and a range from 56 to 89% [44]. SCoT markers have also exposed diverging polymorphism values ranging from 29.67% [43] to 79.80% [8,9]. Our findings revealed average values of the PIC of 0.01, 0.04, 0.06 and 0.01 obtained by the RAPD, ISSR, SCoT and SRAP markers, respectively.…”