Analysis of genetic diversity of Pistacia atlantica Desf. populations from Zagros forests using ISSR, IRAP and SCoT molecular markers

Document Type : Research Paper

Authors

1 M.Sc. Graduate, Forest Ecology and Silviculture, Faculty of Natural Resources, University of Kurdistan, I.R.Iran

2 Corresponding author: Assoc. Prof., Faculty of Natural Resources, University of Kurdistan, I.R.Iran E-mail: n.shabanian@uok.ac.com

3 Assoc. Prof., Horticultural Sciences Department, Faculty of Agriculture and Natural Resources, Arak University , I.R.Iran

4 Ph.D Student in Plant Biotechnology, Faculty of Agriculture and Natural Resources, Department of Biotechnology, University of Tehran, I.R.Iran

Abstract

DOR: 98.1000/1735-0891.1397.2.177.52.26.1605.84

This study was conducted to investigate intra- and inter-population genetic diversity of 15
populations of Pistacia atlantica from Zagros forests, represented by 181 genotypes, using 15,
12 and 13 primers based on three molecular marker including inter simple sequence repeats
(ISSR), inter retrotransposal amplified polymorphism (IRAP) and start codon targeted (SCoT)
markers, respectively. ISSR, IRAP and SCoT primers produced a total of 186, 143 and 136
bands, of which 162 (87.0%), 130 (90.9%) and 120 (88.0%) showed polymorphisom,
respectively. Results showed that all marker systems revealed relatively high genetic variation
at population level (hISSR = 0.22, PPLISSR = 61.92%; hIRAP = 0.25, PPLIRAP = 74.19%; hSCoT =
0.20, PPLSCoT = 64.09%). According to ISSR, IRAP and SCoT based genetic differentiation
coefficient (ΦST; 0.28, 0.23, and 0.22, respectively), a higher level of genetic variation was
recorded within populations than that of among populations, that could be due to wind-based
extensive gene flow among the populations. UPGMA cluster analysis based on three used
molecular systems, devided the studied populations into distinct clusters. According to Mantel
test, no significant correlation was recorded between genetic and geographic distances of the
populations.

Keywords

References

- Alikhani, L., Rahmani, M.S., Shabanian, N., Badakhshan, H. and Khadivi-Khub, A., 2014. Genetic variability and structure of Quercus brantii assessed by ISSR, IRAP and SCoT markers. Gene, 552:176–183.
- Bihamta, M.R, Shabanian, N., Rahmani, M.S. and Vafaee, Y., 2015. Forest Genetics (Translation), University of Tehran Press, Tehran, 861 pp (In Persian).
- Biswas, M.S., Hassan, J. and Hossain, M.M., 2010. Assessment of genetic diversity in French bean (Phaseolus vulgaris L.) based on RAPD marker. African Journal of Biotechnology, 9: 5073–5077.
- Bohonak, A.J., 1999. Dispersal, gene flow, and population structure. The Quarterly Review of Biology, 74:21–45.
- Debinski, D.M. and Holt, R.D., 2000. A survey and overview of habitat fragmentation experiments. Conservation Biology, 14:342–355.
- Derero, A., Gailing, O. and Finkeldey, R., 2011. Maintenance of genetic diversity in Cordia africana Lam., a declining forest tree species in Ethiopia. Tree Genetics & Genomes, 7:1-9.
- Ding, G., Zhang, D., Ding, X., Zhou, W. and Li, X., 2008. Genetic variation and conservation of the endangered Chinese endemic herb Dendrobium officinale based on SRAP analysis. Plant Systematics and Evolution, 276: 149–156.
- Doyle, J.J. and Doyle, J.L., 1987. A rapid DNA isolation procedure for small quantities of leaf tissue. Phytochemical Bulletin of the Botanical Society of America, 19:11-15.
- Excoffier, L., Smouse, P. and Quattro, J., 1992. Analysis of molecular variance inferred from metric distances among DNA haplotypes: Application to human mitochondrial DNA restriction data. Genetics, 131: 479-491.
- Fortini, P., Viscosi, V., Maiuro, L., Fineschi, S. and Vendramin, G.G., 2009.Comparative leaf surface morphology and molecular data of five oaks of subgenus Quercus Oerst (Fagaceae), Plant Biosystems, 143: 543-554.
- Hormaza, J.I., Dollo, L. and Polito, V.S., 1994. Determination of relatedness and geographic movements of Pistacia vera (Pistachio; Anacardiaceae) germplasm by RAPD analysis. Economic Botany, 48:349–358.
- Iranjo, P., NabatiAhmadi, D.,  Sorkheh, K., Rajabi Memeari, H. and Ercisli S., 2016. Genetic diversity and phylogenetic relationships between and within wild Pistacia species populations and implications for its conservation. Journal of Forestry Research, 27:685–697.
- Kafkas, S. and Perl-Treves, R., 2001. Morphological and molecular phylogeny of Pistacia species in Turkey. Theoretical and Applied Genetics, 102:908–915.
- Kafkas, S., Cetiner, S. and Perl-Treves, R., 2001. Development of sex-associated RAPD markers in wild Pistacia species. Journal of Horticultural Science and Biotechnology, 76:242–246.
- Kercher, S.M. and Sytsma, K.J., 2000. Genetic and morphological variation in populations of the rare prairie annual Agalinis skinneriana (Wood) Britton (Scrophulariaceae). Natural Areas Journal, 20:166-175.
- Khatamsaz, M., 1988. Studies on the Rosaceae family in Iran, new taxa and new records. Iranian Journal of Bontany, 4:111-125.
- Kramer, A.T., Ison, J.L., Ashley, M.V. and Howe, H.F., 2008. The paradox of forest fragmentation genetics. Conservation Biology, 22: 878–885.
- Mantel, N., 1967. The detection of disease clustering and a generalized regression approach, Cancer Research, 27: 209–220.
- Nei, M., 1978. Estimation of average heterozygosity and genetic distance from a small number of individuals. Genetics, 89: 583–590.
- Peakall, R. and Smouse, P.E., 2006. GenAlEx6: genetic analysis in excel population genetic software for teaching and research. Molecular Ecology Notes, 6: 288–295.
- Rahmani, M.S., Shabanian, N., Khadivi-Khub, A., Woeste, K.E., Badakhshan, H. and Alikhani, L., 2015. Population structure and genotypic variation of Crataegus pontica inferred by molecular markers. Gene, 572: 123-129.
- Roncal, J., Francisco-Ortega, J. and Lewis, C.E., 2007. An evaluation of the taxonomic distinctness of two Geonoma macrostachys (Arecaceae) varieties based on intersimple sequence repeat (ISSR) variation. Bot. J. Linn. Soc., 153: 381–392.
- Salehi Shanjani, P., Mardi, M., Pazouki, L., Hagidimitriou, M., Avanzato, D., Pirseyedi, M., Ghaffari, M. R. and Khayam Nekoui, M., 2009. Analysis of the molecular variation between and within cultivated and wild Pistacia species using AFLPs. Tree Genetics and Genomes, 5: 447-458.
- Salehi Shanjani, P., Vendramin, G.G. and Calagari, M., 2010. Genetic diversity and differentiation of Fagus orientalis Lipsky in Hyrcanian forests revealed by nuclear and chloroplast microsatellite markers. Conservation Genetics, 11: 2321-2331.
- Shaffer, M., 1981. Minimum population sizes for species conservation. BioScience, 31: 131–134.
- Sreekumar, V.B. and Renuka, C., 2006. Assessment of genetic diversity in Calamus thwaitesii Becc. (Arecaceae) using RAPD markers. Biochemical Systematics and Ecology, 34: 397–405.
- Tayefeh Aliakbarkhany, S., Talaie, A.R. and Fatahi Moghadam, M.R., 2013. Investigation of genetic diversity among Pistacia vera in the Khorasan by using molecular markers. Modern Genetics, 8: 169–176.
- Thriveni, H.N., Sumangala, R.C., Shivaprakash, K.N., Ravikanth, G., Vasudeva, R. and Ramesh, H.N., 2013. Genetic structure and diversity of Coscinium fenestratum: a critically endangered liana of Western Ghats, India. Plant Systematics and Evolution, 300: 403-413.
- Valipour, A., Plieninger, T., Shakeri, Z., Ghazanfari, H., Namiranian, M. and Lexer, M.J., 2014. Traditional silvopastoral management and its effects on forest stand structure in northern Zagros, Iran. Forest Ecology and Management, 327: 221–230.
- Vogel, J.M., Rafalski, A., Powell, W., Morgante, M., Andre, C., Hanafey, M. and Tingey, S.V., 1996. Application of genetic diagnostics to plant genome analysis and plant breeding. HortScience, 31: 1106–1107.
- Wong, K.C. and Sun, M., 1999. Reproductive biology and conservation genetics of Goodyera
procera (Orchidaceae). American Journal of Botany, 86: 1406–1413.
- Wright, S., 1951. The genetical structure of populations. Annals of Eugenics, 15: 323-354.
- Zolfaghari, R., Akbarinia, M., Mardi, M. and Ghanati, F., 2009. Genetic diversity in Persian oak (Quercus branti Lindl) from Kohkiluye and Boyerahmad using SSR. Iranian Journal of Rangelands and Forests Plant Breeding and Genetic Research, 16: 172-181.
Iranian Journal of Rangelands and Forests Plant Breeding and Genetic Research
Volume 26, Issue 2 - Serial Number 52
December 2018
Pages 177-195

Files

Share

How to cite

Statistics