Analysis of genetic diversity, phylogenetic relationships and population structure of Arasbaran cornelian cherry (Cornus mas L.) genotypes using ISSR molecular markers

Document Type : Original research paper

Authors

Department of Horticultural Sciences, Faculty of Agriculture and Natural Resources, University of Mohaghegh Ardabili, Ardabil, Iran

Abstract

Cornelian cherry (Cornus mas L.), considered as the ancestor of cultivated trees in Arasbaran region, is a medicinally and economically plant species. However, little is known about genetic diversity, breeding programs, and population structure of this species in mentioned region. Keeping this in view, the main objectives of present study were to analysis the genetic diversity, phylogenetic relationships and population structure of cornelian cherry genotypes from Arasbaran region using Inter Simple Sequence Repeat molecular markers. Utilized primers amplified 153 bands, of which 98 bands were polymorphic (64% polymorphism). Highest Jaccard’s similarity coefficient was obtained 0.777. Based on Unweighted Pair Group Method with Arithmetic Averages, genotypes were divided into seven major groups. On the other hand, Principal Coordinate Analysis (PCoA) as a complementary method to cluster analysis demonstrated genotypes grouping in phylogenetic dendrogram. Relatively low amount of three main components in Principal Component Analysis (PCA) (41.464%) indicated the scattering distribution of utilized primers’ sequence in cornelian cherry genome. The mean values of polymorphism information content, marker index, resolving power, observed number of alleles, effective number of alleles, Nei’s gene diversity, and Shannon’s information index were 0.230, 1.769, 4.7, 1,642, 1.498, 0.271, and 0.392 respectively. Population structure analysis showed the seven groups or sub- populations (K= 7) when the amount of K value was set at K= 2 to K= 10, which demonstrated the results of phylogenetic dendrogram and Principal Coordinate Analysis (PCoA). Results of this study can be useful for planning future studies on cornelian cherry germplasm and breeding programs.

Keywords

[1] Bijelic, S.M., Golosin, B.R., Ninic Todorovic, J.I., Cerovic, S.B. and Popovic, B.M. 2011. Physicochemical fruit characteristics of cornelian cherry (Cornus mas L.) genotypes from Serbia. HORTSCIENCE 46: 849–853.
[2] Bornet, B. and Branchard, B. 2001. Nonanchored Inter Simple Sequence Repeat (ISSR) markers: reproducible and specific tools for genome fingerprinting. Plant Molecular Biology Reporter 19: 209-215.
[3] Chennaoui-Kourda, H., Marghali, S., Marrakchi, M. and Trifi-Farah, N. 2007. Genetic diversity of Sulla genus (Hedysarea) and related species using Inter Simple Sequence Repeat (ISSR) markers. Biochemical Systematics and Ecology 35: 682-688.
[4] Doyle, J.J and Doyle, J.L. 1987. A rapid DNA isolation procedure for small quantities of fresh leaf tissue. Phytochemical Bulletin 19: 11–15.
[5] Ercisli, S. 2004. Cornelian cherry germplasm resources of Turkey. Journal of Fruit and Ornamental Plant Research 12: 87-92.
[6] Ercisli, S., Orhan, E. and  Esitken, A. 2006. Genetic diversity in fruit quality traits in cornelian cherry (Cornus mas L.). Asian Journal of Chemistry 18: 650-654.
[7] Ercisli, S., Orhan, E., Esitken, A., Yildirim, N. and Agar, G. 2008. Relationships among some cornelian cherry genotypes (Cornus mas L.) based on RAPD analysis. Genet Resour Crop Evol 55: 613-618.
[8] Ercisli, S., Yilmaz, S.O., Gadze, J., Dzubur, A., Hadziabulic, S. and Aliman, J. 2011. Some Fruit Characteristics of Cornelian Cherries (Cornus mas L.). Not Bot Hort Agrobot Cluj 39: 255-259.
[9] Evanno, G., Regnaut, S. and Goudet, J. 2005. Detecting the number of clusters of individuals using the software STRUCTURE: a simulation study. Molecular Ecology 14: 2611–2620.
[10] Farmanpour Kalalagh, K., Mohebodini, M., Ghanbari, A., Chamani, E. and Erfani, M. 2016. Determination of genetic diversity among Arasbaran cornelian cherry (Cornus mas L.) genotypes based on quantitative and qualitative traits. IRANIAN JOURNAL of GENETICS and PLANT BREEDING 5: 32-40.
[11] Ghanavati, F. 2011. Cytogenetical survey of Cornus mas populations in Iran. New Cell Moll Biotech J 1: 71-79. (Article in Persian with an abstract in English)
[12] Hassanpour, H., Hamidoghli, Y. and Samizadeh, H. 2012. Some fruit characteristics of Iranian cornelian cherries (Cornus mas L.). Not Bot Horti Agrobo 40: 247-252.
[13] Hogbin, P.M. and Peakall, R. 1999. Evaluation of the contribution of genetic research to the management of the endangered plant Zieria prostrata. Conser Biol 13:514-522.
[14] Jacimovic. V., Bozovic, D., Ercisli, S., Ognjanov, V. and Bosancic, B. 2015. Some Fruit Characteristics of Selected Cornelian Cherries (Cornus mas L.) from Montenegro. Erwerbs-Obstbau 57: 119-124.
[15] Kimura, M. and Crow, J.F. 1964. The number of alleles that can be maintained in a finite population. Genetics 49: 725-738.
[16] Naderi, B., Maghsoudlou, Y., Aminifar, M., Ghorbani, M. and Rashidi, L. 2015. Investigation on the changes in color parameters and turbidity of cornelian Cherry (Cornus mas L.) produced by microwave and conventional heating. Nutrition and Food Sciences Research 2: 39-46.
[17] Nei, M. 1973. Analysis of gene diversity in subdivided populations (population structure/ genetic variability/heterozygosity/gene differentiation). Proc. Nat. Acad. Sci 70: 3321-3323.
[18] Prevost, A. and Wilkinson, M.J. 1999. A new system of comparing PCR primers applied to ISSR fingerprinting of potato cultivars. Theor Appl Genet 98: 107-112.
[19] Pritchard, J.K., Stephens, M. and Donnelly, P. 2000. Inference of population structure using multilocus genotype data. Genetics 155: 945-959.
[20] Roldan-Ruiz, I., Dendauw, J., Van Bockstaele, E., Depicker, A. and De Loose, M. 2000. AFLP markers reveal high polymorphic rates in ryegrasses (Lolium spp.). Molecular Breeding 6: 125–134.
[21] Schaal, B.A., Hayworth, D.A., Olsen, K.M., Rauscher, J.T. and Smith, W.A. 1998. Phylogeographic studies in plants: problems and prospects. Molecular Ecology 7: 465-474.
[22] Shannon, C.E. and Weaver, W. 1949. The mathematical theory of communication, University of Illinois Press, Urbana, Illinois, USA.
[23] Stankovic, M.S., Zia-ui-haq, M., Bojovic, B.M. and Topuzovic, M.D. 2014. Total phenolics, flavonoid content and antioxidant power of leaf, flower and fruits from cornelian cherry (Cornus mas L.). Bulgarian Journal of Agricultural Science 20: 358-363.
[24] White, T.L., Adams, W.T. and Neale, D.B. 2007. Forest Genetics, CABI Publishing, Cambridge, Massachusetts, USA.
[25] Wunsch, A. and Hormaza, J.I. 2002. Cultivar identification and genetic fingerprinting of temperate fruit tree species using DNA markers. Euphytica 125: 59–67.
[26] Yamagishi, M., Nishioka, M. and Kondo, T. 2010. Phenetic diversity in the Fritillaria camschatcensis population grown on the Sapporo campus of Hokkaido university. Landscape Ecol Eng 6: 75–79.
[27] Zhang, D.Q., Gao, L.M. and Yang, Y.P. 2010. Genetic diversity and structure of a traditional Chinese medicinal plant species, Fritillaria cirrhosa (Liliaceae) in southwest China and implications for its conservation. Biochemical Systematics and Ecology 38: 236-242.
Volume 5, Issue 2
December 2017
Pages 60-67
  • Receive Date: 31 December 2017
  • Revise Date: 15 January 2018
  • Accept Date: 22 January 2018
  • First Publish Date: 22 January 2018