Implementation of association mapping for identification of ISSR markers linked with morphological characteristics of Ajowan (Trachyspermum copticum)

Document Type : Research Paper


1 Ph.D. Student, Department of Horticulture, Faculty of Agriculture, Urmia University, Urmia, Iran.

2 Professor, Department of Plant Production and Genetics, Faculty of Agriculture, Urmia University, Urmia, Iran

3 Assistant Professor, Department of Biotechnology, Institute of Science, High Technology and Environmental Sciences, University of Advanced Technology, Kerman, Iran.

4 Associate Professor, Department of Plant Production and Genetics, Faculty of Agriculture, University of Maragheh, Maragheh, Iran.


Ajowan (Trachyspermum copticum) is a medicinal species that is very useful and is used to treat stomach problems and some other diseases. This study aimed to fingerprint Ajowan accessions collected from different geographical regions of Iran by using ISSR markers and identifying markers linked with agro-morphological traits through an association mapping approach.
Materials and methods
In this study, a number of 40 Ajowan genotypes related to 10 different populations from different regions of Iran were collected, and then their morphological characteristics were recorded in greenhouse conditions. Leaf samples were taken from each genotype and ISSR fingerprinting was done after DNA extraction.
The results of descriptive statistics indicate the existence of genetic diversity in the germplasm of the studied Ajowan in terms of morphological characteristics and the highest and lowest coefficients of phenotypic variation were obtained for the number of seeds formed and the number of flowers per umbrella, respectively. Results of DNA fingerprinting using 12 ISSR primers lead to the amplification of 153 loci, 93 of which were polymorphic and the rest were monomorphic. Analysis of molecular variance depicted that 37% and 63% of total variation belonged to between and within populations. In this research private markers were detected for accessions collected from Hamedan and Rafsanjan. The study of population structure related to 40 Ajowan genotypes using ISSR data and STRUCTURE software placed them in two different subpopulations. Using an association mapping approach, significant positive markers for biological yield, shoot dry weight, harvest index, number of lateral branches, number of seeds formed, 100-seed weight, mean internode length, umbrella per flower, stem diameter, and single plant yield, number of umbrellas, number of leaves, number of flowers in an inflorescence and leaf length were identified.
In this research, the UBC807-2, UBC812-10, UBC818-8, UBC840-5, UBC848-4, UBC857-11, and UBC857-6 markers control more than one trait simultaneously and can thus be bred in breeding programs of Ajowan to a simultaneous selection of multiple traits.


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