Türk antepfıstığı (Pistacia vera L.) şeşitlerinin SSR markörleri kullanılarak genetik çeşitliliğinin belirlenmesi

Year 2025, Volume: 30 Issue: 2, 399 - 409, 21.08.2025

Başak Özdemir

https://doi.org/10.37908/mkutbd.1604635

Abstract

Türkiye’nin Güneydoğu Anadolu Bölgesi dünya antepfıstığı üretiminin yaklaşık dörtte birine katkıda bulunmaktadır. Bu alan aynı zamanda çeşitli fıstık genetik materyallerini de içermektedir. Bu çalışmada P. vera türüne ait “Siirt”, “Uzun”, “Kırmızı” ve “Akıncı dört uzun meyve şekline sahip standart yerli antepfıstığı çeşitlerinin genetik çeşitliliği 7 SSR markörü kullanılarak araştırılmıştır. Analizlerde kullanılan yedi SSR markör (Ptms-3, Ptms-9, Ptms-14, Ptms-31, Ptms-33, Ptms-40 ve Ptms-41) toplam on yedi polimorfik alel ortaya çıkarmış ve bunlardan altısı (Çeşitler arasında % 35.3) polimorfik bulunmuştur. Polimorfik alellerin aralığı 2 ile 3 arasında belirlenmiştir (ortalama 2.42). Genetik benzerlik oranları (Pairwise) % 64 ile % 79 aralığında değişmiştir. “Siirt” ile “Akıncı” çeşitleri arasında genetik benzerlik oranı % 78.6, “Siirt” ile “Uzun” ve “Kırmızı” ile “Akıncı” çeşitleri arasında genetik benzerlik oranı % 78.0, “Akıncı” ile “Uzun” çeşitleri arasında genetik benzerlik oranı % 71.4, “Siirt” ile “Kırmızı” çeşitleri arasında genetik benzerlik oranı % 64.3, “Kırmızı” ile “Uzun” çeşitleri arasındaki genetik benzerlik oranı ise % 64.0 olarak gözlemlenmiştir. Ortalama beklenen ve gözlenen heterozigotluk değerleri sırasıyla 0.450 ve 0.286 olarak hesaplanmıştır.

Keywords

Antepfıstığı , P.vera , SSR markörler , Ptms , Genetik çeşitlilik

Thanks

Ankara Üniversitesi Biyoteknoloji Enstitüsü'ne teşekkürü borç bilirim.

Detection of genetic diversity of Turkish pistachio (Pistacia vera L.) cultivars using SSR markers

Abstract

The Southeastern Anatolian region of Türkiye contributes to nearly a quarter of the global pistachio production. This area also contains a diverse pistachio germplasm. In this study, the genetic diversity of four long-type standard local pistachio cultivars “Siirt”, “Uzun”, “Kırmızı” and “Akıncı” was investigated using 7 SSR markers. The seven SSR markers (Ptms-3, Ptms-9, Ptms-14, Ptms-31, Ptms-33, Ptms-40, and Ptms-41) used in the analyses revealed a total of seventeen polymorphic alleles and six of them (35.3 %) were identified between 2 to 3 (with an average of 2.42). Pairwise genetic similarity coefficients varied from 64 % to 79 %. Genetic similarity between the “Siirt” and “Akıncı” (78.6 %), “Siirt” and “Uzun”; “Kırmızı” and “Akıncı” cultivars (78.0 %), “Akıncı” and “Uzun” (71.4 %), “Siirt” and “Kırmızı”, (64.3 %) and “Kırmızı” and “Uzun” (64.0 %) were calculated. The average values of expexted (He) and observed (Ho) were calculated as 0.450 and 0.286, respectively.

Keywords

Pistachio , P.vera , SSR markers , Ptms , Genetic diversity

References

• Ahmad, R., Ferguson, L., & Southwick, S. (2003). Identification of pistachio (Pistacia vera L.) nuts with microsatellite markers. Journal of the American Society for Horticultural Science, 128 (6), 898-903. https://doi.org/10.21273/JASHS.128.6.0898
• Ahmad, R., Ferguson, L., & Southwick, S.M. (2005). Molecular marker analyses of pistachio rootstocks by simple sequence repeats and sequence-related amplified polymorphisms. The Journal of Horticultural Science and Biotechnology, 80 (3), 382-386. https://doi.org/10.1080/14620316.2005.11511948
• Alhajjar, N.M., & Muzher, B.M. (2019). Genetic relationships among Pistacia vera L. F1 hybrids and their parents (P. vera x Hermaphrodite Genotpyes of P. atlantica) using SSR markers. AGROFOR International Journal, 4 (2), 28-34. https://doi.org/10.7251/AGRENG1902028A
• Anonymous (1993). Antepfıstığı Çeşit Kataloğu. Tarım ve Köyişleri Bakanlığı, Ankara, Türkiye. 361 (20), 6-29. Anonymous (2022). Faostat. Agriculture data [online]. Available form: http://faostat.fao.org/ (Erişim tarihi: 17.12.2024)
• Arabnezhad, H., Bahar, M., & Pour, A.T. (2011). Evaluation of genetic relationships among Iranian pistachios using microsatellite markers developed from Pistacia khinjuk Stocks. Scientia Horticulturae, 128 (3), 249-254. https://doi.org/10.1016/j.scienta.2011.01.028
• Arslan, N., Yılmaz Baydu, F., Hazrati, N., Yüksel Özmen, C., Ergönül, O., Uysal, T., Yaşasın, A.S., Özer, C., Boz, Y., Kuleyin, Y.S., & Ergül, A. (2023). Genetic diversity and population structure analysis of Anatolian Kara grapevine (Vitis vinifera L.) germplasm using simple sequence repeats. Horticulturae, 9 (7), 743. https://doi.org/10.3390/horticulturae9070743
• Baghizadeh, A., Noroozi, S., & Javaran, M.J. (2010). Study on genetic diversity of some Iranian pistachio (Pistacia vera L.) cultivars using random amplified polymorphic DNA (RAPD), inter sequence repeat (ISSR) and simple sequence repeat (SSR) markers: A comparative study. African Journal of Biotechnology, 45, 7632-7640. https://doi.org/10.5897/AJB10.701
• Barone, E., Marco, L.D., Marra, F.P., & Sidari, M. (1993). Isozymes and multivariate analysis to discriminate male and female Sicilian germplasm of pistachio. IX G.R.E.M.P.A. meeting Pistachio, Agrigento, Italy. IXth Groupe de Recherches et d’Etudes Mediterraneen pour le Pistachier et l’Amandier, Agrigento (1993): 73-79.
• Bowcock, A.M., Ruiz-Linares, A., Tomfohrde, J., Minch, E., Kidd, J.R., & Cavalli-Sforza, L.L. (1994). High resolution of human evolutionary trees with polymorphic microsatellites. Nature, 368, 455-457. https://doi.org/10.1038/368455a0
• Choulak, S., Chatti, K., Rhouma-Chatti, S., Guenni, K., Salhi-Hannachi, A., Said, K., & Chatti, N. (2019). Microsatellite (SSR) markers reveal genetic diversity and population structure in Tunusian pistachio. Fruits, 74 (2), 73-81. https://doi.org/10.17660/th2019/74.2.3
• Çınar, B. (2012). Researches on vitamin, mineral compound, fat and fatty acid compositions of Turkish pistachio nut cultivars. (Publication No. 323229) [Master dissertation, Ankara University]. PQDT Open. https://tez.yok.gov.tr/UlusalTezMerkezi/tezDetay.jsp?id=iNPmzcQ3OfkkQzI3S9tQ-g&no=d68Rs78GQ3w7fD2ygt73mA
• Doulati-Baneh, H., Mohammadi, S.A., & Labra, M. (2013). Genetic structure and diversity analysis in Vitis vinifera L. cultivars from Iran using SSR markers. Scientia Horticulturae, 160, 29-36. https://doi.org/10.1016/j.scienta.2013.05.029
• Hormaza, J.I., Dollo, L., & Polito, V.S. (1994). Determination of relatedness and geographic movements of Pistacia vera (Pistachio; Anacardiaceae) germplasm by RAPD analysis. Economic Botany, 48, 349-358. https://www.jstor.org/stable/4255662
• Kafkas, S., Kaska, N., Wassimi, A.N., & Padulosi, S. (2006). Molecular characterization of Afghan pistachio accessions by amplified fragment length polymorphisms (AFLPs). The Journal of Horticultural Science and Biotechnology, 81, 864-868. https://doi.org/10.1080/14620316.2006.11512151
• Kafkas, S., & Perl-Treves, R. (2002). Interspecific relationships in Pistacia based on RAPD Fingerprinting. Hortscience, 37 (1), 168-171. https://doi.org/10.21273/HORTSCI.37.1.168
• Kafkas, S. (2006). Phylogenetic analysis of the genus Pistacia by AFLP markers. Plant Systematics and Evolution, 262 (1), 113-124. https://doi.org/10.1007/s00606-006-0460-7
• Kafkas, S., Dogan, Y., & Zaloglu, S. (2009). Phylogenetic analysis in the genus Pistacia by simple sequence repeat markers. 5th International Symposium on Pistachios and Almonds, ISHS- Şanlıurfa-Türkiye, 06-10 October 2009 Şanlıurfa. Abstract, pp. 84.
• Kafkas, S. (2019). Advances in breeding of pistachio. Chapter. Burleigh Dodds Science Publishing Limited. https://doi.org/10.19103/AS.2018.0042.17
• Karcı, H., Paizila, A., Topçu, H., Ilikçioğlu, E., & Kafkas, S. (2020). Transcriptome sequencing and development of novel genic SSR markers from Pistacia vera L. Frontiers in Genetics, 11, 1021. https://doi.org/10.3389/fgene.2020.01021
• Karcı, H., Paizila, A., Güney, M., Zhaanbaev, M., & Kafkas, S. (2022). Revealing genetic diversity and population structure in pistachio (Pistacia vera L.) by SSR markers. Genetic Resources and Crop Evolution, 69, 2875-2887. https://doi.org/10.1007/s10722-022-01410-w
• Karcı, H. (2023). Detection of in silicoSSR markers specific to Uzun and Kırmızı cultivars in pistachio. Turkish Journal of Agriculture-Food Science and Technology, 11 (10), 1947-1952. https://doi.org/10.24925/turjaf.v11i10.1947-1952.6341
• Khadivi, A. (2018). Assessment of genetic variability in pistachio (Pistacia vera L.) with nuclear SSR molecular markers. Erwerbs-Obstbau, 60 (4), 289-294. https://doi.org/10.1007/s10341-018-0372-z
• Khodaeiaminjan, M. (2017). Development of novel SSR markers by next generation sequencing and construction of the first SSR linkage reference maps in pistachio. [Doctoral dissertation, Çukurova University].
• Khodaeiaminjan, M., Kafkas, S., Motalebipour, E.Z. & Coban, N. (2018). In silico polymorphic novel SSR marker development and the first SSR-based genetic linkage map in pistachio. Tree Genetics and Genomes, 14 (4), 1-14. https://doi.org/10.1007/s11295-018-1259-8
• Kolahi-Zonoozi, S.H., Mardi, M., Zeinalabedini, M., Pirseydi, S.M., Mahmoodi, P., Tabatabaei, I., Mosavi-Derazmahalleh, S.M., Farsi, M., Ebrahimi, M.A., Khayam-Nekoui, S.M., & Ahmadi, K. (2014). Development of 12 new SSR markers for genetic diversity and structure analysis in pistachio (Pistacia vera L.). Journal of Horticultural Science and Biotechnology, 89 (6), 707-711. https://doi.org/10.1080/14620316.2014.11513141
• Lefort, F., Lally, M., Thompson, D., & Douglas, G C. (1998). Morphological traits microsatellite fingerprinting and genetic relatedness of a stand of elite oaks (Q. robur L.) at Tuallynally, Ireland. Silvae Genetica, 47, 5-6.
• Mandalari, G., Barreca, D., Gervasi, T., Roussell, M.A., Klein, B., Feeney, M.J., & Carughi, A. (2022). Pistachio nuts (Pistacia vera L.): Production, nutrients, bioactives and novel health effects. Plants, 11 (1), 18. https://doi.org/10.3390/plants11010018
• Minch, E., Ruiz-Linares, A., Goldstein, D.B., Feldman, M., & Cavalli-Sforza, L.L. (1995). MICROSAT (Version 1.4d): A computer program for calculating various statistics on microsatellite allele data. Stanford, CA, USA: Stanford University.
• Mirzaei, S., Bahar, M., & Sharifnabi, B. (2006). A phylogenetic study of Iranian wild pistachio species and some cultivars using RAPD markers. Acta Horticulture, 726, 30-43. https://doi.org/10.17660/ActaHortic.2006.726
• Motalebipour, E., Kafkas, S., Khodaeiaminjan, M., Çoban, N., & Gözel, H. (2016). Genome survey of pistachio (Pistacia vera L.) by next generation sequencing: development of novel SSR markers and genetic diversity in Pistacia species. BMC Genomics, 17, 998. https://doi.org/10.1186/s12864-016-3359-x
• Pazouki, L., Mardi, M., Shanjani, P.S., Hagidimitriou, M., Pirseyedi, S.M., Naghavi, M.R., Avanzatto, D., Vendramin, E., Kafkas, S., Ghareyazie, B., Ghaffari, M. R., & Khayam Nekoui, S.M. (2010). Genetic diversity and relationships among Pistacia species and cultivars. Conservation Genetics, 11, 311-318. https://doi.org/10.1007/s10592-009-9812-5
• Rohlf, F. (1988). NTSYS-PC Numerical Taxonomy and Multivariate Analysis System, Version 2.0. Setauket, NY, USA: Exeter Publishing, Ltd.
• Santana, J.C., Lucas, A.I., Arranz, C., Rubio, J.A., Yuste, J., et al. (2007). Genetic characterization of grapevine varieties from Castilla y León (Spain) using 23 microsatellite markers. In: Proceedings of the 30th OIV World Congress; Budapest, Hungary.
• Sneath, P.H.A., & Sokal, R.R. (1973). Numerical taxonomy. Freeman WH and Company (eds) San Francisco, USA.
• Sefc, K.M., Lopes, M.S., Lefort, F., Botta, R., Angelakis, K.A.R., Ibanez, J., Pejic, I., Wagner, H.W., Glossl, J., & Steinkellner, H. (2000). Microsatellite variability in grapevine cultivars from different European regions and evaluation of assignment testing to assess the geographic origin of cultivars. Theoretical and Applied Genetics, 199 (3-4), 498-505. https://doi.org/10.1007/s001220050065
• Tomaino, A., Martorana, M., Arcoraci, T., Monteleone, D., Giovinazzo, C., & Saija, A. (2010). Antioxidant activity and phenolic profle of pistachio (Pistacia vera L., variety Bronte) seeds and skins. Biochimie, 92 (9), 1115-1122. https://doi.org/10.1016/j.biochi.2010.03.027
• Topçu, H., Kafkas, S., Doğan, A., Akcay, M.E., & Ercişli, S. (2015). Genetic relatedness among quince (Cydonia oblonga Miller) accessions from Turkey using amplifed fragment length polymorphisms. Journal of Applied Botany and Food Quality, 88, 197-201. https://doi.org/10.5073/JABFQ.2015.088.028
• Wagner, H.W., & Sefc, K.M. (1999). IDENTITY 1.0. Vienna, Austria: Centre for Applied Genetics, University of Agricultural Science.
• Vendramin, E., Dettori, M.T., Verde, I., Micali, S., Giovinazzi, J., Mardi, M., Avanzato, D., & Quarta, R. (2009). Molecular characterization of genus Pistacia by microsatellite markers. Acta Horticulture, 825, 55-62. https://doi.org/10.17660/ActaHortic.2009.825.5
• Vieira, M.L.C., Santini, L., Diniz, A.L., & Munhoz, C.D.F. (2016). Microsatellite markers: What they mean and why they are so useful. Genetics and Molecular Biology, 39, 312-328. https://doi.org/10.1590/1678-4685-GMB-2016-0027
• Yılmaz, F., Shidfar, M., Hazrati, N., Kazan, K. & Yüksel Özmen, C., Uysal, T., Özer, C., Yaşasın, A.S., Söylemezoğlu, G., Boz, Y., Çelik, H., & Ergül, A. (2020). Genetic analysis of Central Anatolian grapevine (Vitis vinifera L.) germplasm by simple sequence repeats. Tree Genetics & Genomes, 16, 55. https://doi.org/10.1007/s11295-020-01429-z
• Zaloglu, S., Kafkas, S., Dogan, Y., & Guney, M. (2015). Development and characterization of SSR markers from pistachio (Pistacia vera L.) and their transferability to eight Pistacia species. Scientia Horticulturae, 189, 94-103. https://doi.org/10.1016/j.scienta.2015.04.006