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The Applicability of Wheat SSR Markers to Analyzing the Molecular Diversity and Distribution of Orchardgrass (Dactylis glomerata L.) Genotypes from Eastern Anatolian Habitats

Year 2023, , 732 - 744, 31.08.2023
https://doi.org/10.53433/yyufbed.1260839

Abstract

Türkiye is one of the world's nations with the greatest flora diversity in different plants. Moreover, it possesses a high level of plant genetic diversity. Orchardgrass (Dactylis glomerata L.) is one of the most important fodder species used during cool seasons since it is a hardy and perennial plant. The identification of Orchardgrass cultivars is essential for maximizing cultivar utilization, and safeguarding breeders' intellectual property. Dactylis glomerata L. is an allogamous, variable, monospecific genus with multiple subspecies distinguished by morphology, chromosomal count, and distribution. This genus has a single species, Dactylis glomerata L, which is comprised of multiple subspecies whose traits have not been exhaustively characterized. Using DNA assays that evaluated the transferability of nine SSR primers designed for wheat loci, the genetic diversity of 44 orchardgrass genotypes from eight naturally distributed locales in the Eastern Anatolia Area of Türkiye was calculated. On average, 6.78 alleles were discovered for each of the nine SSR primers, for a total of 61 alleles. A total of 54 polymorphic alleles were identified, with an average of 6.78 per primer. Polymorphism information content (PIC) values ranged from 0.320 (WMC96) to 0.626% (XBARC187). The average polymorphism rate of 88.89% suggests a high amount of genetic diversity among all studied genotypes. The average expected heterozygosity (He) ranged between 0.178 (Ağrı) to 0.882 (Erzurum). The genetic separation ranged from 0.01 to 0.66. In conclusion, our findings indicate that the Dactylis glomerata L genotypes gathered in Eastern Anatolia are a rich source of genetic variability, supplying a vast array of genetic material for orchardgrass breeding efforts.

Supporting Institution

Van Yüzüncü Yıl Üniversitesi Bilimsel Araştırma Projeleri koordinasyon Birimi

Project Number

FDK-2019_7650

Thanks

The authors extend their appreciation for providing necessary research facilities and support for the completion of this work to Van Yuzuncu Yil University.

References

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Doğu Anadolu Habitatlarından Domuz ayrığı (Dactylis glomerata L.) Türlerinin Moleküler Çeşitliliğinin ve Dağılımının Analizinde Buğday SSR Markerlerinin Uygulanabilirliği

Year 2023, , 732 - 744, 31.08.2023
https://doi.org/10.53433/yyufbed.1260839

Abstract

Türkiye, dünyanın flora çeşitliliği en fazla olan ülkelerinden biridir. Ayrıca, yüksek düzeyde bitki genetik çeşitliliğine sahiptir. Domuz ayrığı (Dactylis glomerata L.), dayanıklı ve çok yıllık bir bitki olması nedeniyle serin mevsimlerde kullanılan en önemli yem türlerinden biridir. Orchardgrass çeşitlerinin tanımlanması, çeşit kullanımını en üst düzeye çıkarmak ve yetiştiricilerin fikri mülkiyetini korumak için gereklidir. Dactylis glomerata L., morfoloji, kromozom sayısı ve dağılımı ile ayırt edilen çok sayıda alt türü olan allogam, değişken, monospesifik bir cinstir. Bu cinsin tek bir türü vardır, Dactylis glomerata L, özellikleri kapsamlı bir şekilde karakterize edilmemiş birden fazla alt türden oluşur. Buğday lokusları için tasarlanan dokuz SSR primerinin aktarılabilirliğini değerlendiren DNA tahlilleri kullanılarak, Türkiye'nin Doğu Anadolu Bölgesi'nde doğal olarak dağılmış sekiz yerel bölgeden 44 Domuz ayrığı genotipinin genetik çeşitliliği hesaplandı. Ortalama olarak, dokuz SSR primerinin her biri için toplam 61 alel için 6.78 alel keşfedildi. Primer başına ortalama altı olmak üzere toplam 54 polimorfik alel tanımlandı. Polimorfizm bilgi içeriği (PIC) değerleri %0,320 (WMC96) ile %0,626 (XBARC187) arasında değişmektedir. %88.89'luk ortalama polimorfizm oranı, çalışılan tüm genotipler arasında yüksek miktarda genetik çeşitlilik olduğunu göstermektedir. Beklenen ortalama heterozigotluk (He) 0,178 (Ağrı) ile 0,882 (Erzurum) arasında değişmekteydi. Genetik ayırma 0.01 ile 0.66 arasında değişmektedir. Sonuç olarak, bulgularımız, Doğu Anadolu'da toplanan Dactylis glomerata L. genotiplerinin, Domuz ayrığı bitkisi ıslah çabaları için çok çeşitli genetik materyal sağlayan zengin bir genetik çeşitlilik kaynağı olduğunu göstermektedir.

Project Number

FDK-2019_7650

References

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  • Aygün, C., Çakal, Ş., & Kara, A. (2009). Characterization of some coksfoot (Dactylis glomerata L.) lines from the natural rangelands of Eastern Anatolia. Biological Diversity and Conservation, 2(2), 57-64.
  • Balfourier, F., Charmet, G., & Ravel, C. (1998). Genetic differentiation within and between natural populations of perennial and annual ryegrass (Lolium perenne and L. rigidum). Heredity, 81, 100-110. doi:10.1046/j.1365-2540.1998.00381.x
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  • Bushman, B. S., Larson, S. R., Tuna, M., West, M. S., Hernandez, A. G., Vullaganti, D., Gong, G., Robins, J. G., Jensen, K. B., & Thimmapuram, J. (2011). Orchardgrass (Dactylis glomerata L.) EST and SSR marker development, annotation, and transferability. Theoretical and Applied Genetics, 123(1), 119-129. doi:10.1007/s00122-011-1571-2
  • Crawford, K. M., & Whitney, K. D. (2010). Population genetic diversity influences colonization success. Molecular Ecology, 19(6), 1253-1263. doi:10.1111/j.1365-294x.2010.04550.x
  • Demirkol, G. 2017. Domuz Ayrığı (Dactylis glomerata L.) Populasyonlarında Genetik Çeşitliliğin Belirlenmesi. Ordu Üniversitesi Bilim ve Teknoloji Dergisi: 7(2): 289–294.
  • Drummond, E. B. M., & Vellend, M. (2012). Genotypic diversity effects on the performance of Taraxacum officinale populations increase with time and environmental favorability. PLoS One, 7(2), e30314. doi:10.1371/journal.pone.0030314
  • Erfani, J., Ebadi, A., Abdollahi, H., & Fatahi, R. (2012). Genetic diversity of some pear cultivars and genotypes using simple sequence repeat (SSR) markers. Plant Molecular Biology Reporter, 30, 1065-1072. doi:10.1007/s11105-012-0421-y
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  • Furan, M. A., & Geboloğlu, M. D. (2017b). Two different molecular markers (SSR and IPBS) assessment on Coriandrum sativum L. with capillary electrophoresis. Fresenius Environmental Bulletin, 26(7), 4568-4573.
  • Garcia, A., & Lindner, R. (1998). Dactylis glomerata genetic resources: Allozyme frequencies and performance of two subspecies on an acid sandy loam with summer drought. Euphytica, 102, 255-264. doi:10.1023/A:1018377513189
  • Garcia, A. A. F., Benchimol, L. L., Barbosa, A. M. M., Geraldi, I. O., Souza Jr, C. L., & de Souza, A. P. (2004). Comparison of RAPD, RFLP, AFLP and SSR markers for diversity studies in tropical maize inbred lines. Genetics and Molecular Biology, 27(4), 579-588. doi:10.1590/S1415-47572004000400019
  • Gedil, M., & Menkir, A. (2019) An integrated molecular and conventional breeding scheme for enhancing genetic gain in maize in Africa. Frontiers in Plant Science, 10, 1430. doi:10.3389/fpls.2019.01430
  • Hongtrakul, V., Huestis, G. M., & Knapp, S. J. (1997). Amplified fragment length polymorphisms as a tool for DNA fingerprinting sunflower germplasm: genetic diversity among oilseed inbred lines. Theoretical and Applied Genetics, 95, 400-407. doi:10.1007/s001220050576
  • Jiang, L. F., Zhang, X. Q., Ma, X., Huang, L. K., Xie, W. G., Ma, Y. M., & Zhao, Y. F. (2013). Identification of orchardgrass (Dactylis glomerata L.) cultivars by using simple sequence repeat markers. Genetics and Molecular Research: GMR, 12(4), 5111-5123. doi:10.4238/2013.october.29.5
  • Kaya, S. (2015). Yabani arpa popülasyonları ve bazı arpa çeşitlerinin agro-morfolojik ve moleküler karakterizasyonu ile kalite özellikleri ve çinko eksikliğine toleranslarının saptanması. (Doktora Tezi), Çukurova Üniversitesi, Fen Bilimleri Enstitüsü, Adana, Türkiye.
  • Last, L., Widmer, F., Fjellstad, W., Stoyanova, S., & Kölliker, R. (2013). Genetic diversity of natural orchardgrass (Dactylis glomerata L.) populations in three regions in Europe. BMC Genetics, 14(1), 102. doi:10.1186/1471-2156-14-102
  • Last, L., Lüscher, G., Widmer, F., Boller, B., & Kölliker, R. (2014). Indicators for genetic and phenotypic diversity of Dactylis glomerata in Swiss permanent grassland. Ecological Indicators, 38, 181-191. doi:10.1016/j.ecolind.2013.11.004
  • Lindner, R., & Garcia, A. (1997). Geographic distribution and genetic resources of Dactylis in Galicia (northwest Spain). Genetic Resources and Crop Evolution, 44, 499-507. doi:10.1023/A:1008690831828
  • Litrico, I., Bech, N., Flajoulot, S., Cadier, D., Talon, C., Gibelin, C., & Barre, P. (2009). Cross-species amplification tests and diversity analysis using 56 PCR markers in Dactylis glomerata and Lolium perenne. Molecular Ecology Resources, 9(1), 159-164. doi:10.1111/j.1755-0998.2008.02168.x
  • Ma, J., Zhou, R., Dong, Y., Wang, L., Wang, X., & Jia, J. (2001). Molecular mapping and detection of the yellow rust resistance gene Yr26 in wheat transferred from Triticum turgidum L. using microsatellite markers. Euphytica, 120(2), 219-226. doi:10.1023/A:1017510331721
  • Madesis, P., Abraham, E. M., Kalivas, A., Ganopoulos, I., & Tsaftaris, A. (2014). Genetic diversity and structure of natural Dactylis glomerata L. populations revealed by morphological and microsatellite-based (SSR/ISSR) markers. Genetics and Molecular Research, 13(2), 4226-4240. doi:10.4238/2014.june.9.8
  • Manifesto, M. M., Schlatter, A. R., Hopp, H. E., Suárez, E. Y., & Dubcovsky, J. (2001). Quantitative evaluation of genetic diversity in wheat germplasm using molecular markers. Crop Science, 41(3), 682-690. doi:10.2135/cropsci2001.413682x
  • Mao, J.-X., Luo, D., Wang, G.-W., Zhang, J., Yang, Y.-M., Zhang, X.-Q., & Zeng, B. (2016). Genetic diversity of orchardgrass (Dactylis glomerata L.) cultivars revealed by simple sequence repeats (SSR) markers. Biochemical Systematics and Ecology, 66, 337-343. doi:10.1016/j.bse.2016.05.004
  • Münzbergová, Z., Cousins, S. A. O., Herben, T., Plačková, I., Mildén, M., & Ehrlén, J. (2013). Historical habitat connectivity affects current genetic structure in a grassland species. Plant Biology, 15(1), 195-202. doi:10.1111/j.1438-8677.2012.00601.x
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  • Parmaksız, İ. (2004). Analysis of genetic variation among Turkish oxytona section species of papaver genus using Rapd markers. (PhD), University of Ankara, Institute of Natural and Applied Sciences, Ankara, Turkey.
  • Peakall, R., & Smouse, P. E. (2006). GENALEX 6: genetic analysis in Excel. Population genetic software for teaching and research. Molecular Ecology Notes, 6(1), 288-295. doi:10.1111/j.1471-8286.2005.01155.x
  • Peng, Y., Zhang, X., Deng, Y., & Ma, X. (2008). Evaluation of genetic diversity in wild orchardgrass (Dactylis glomerata L.) based on AFLP markers. Hereditas, 145(4), 174-181. doi:10.1111/j.0018-0661.2008.02038.x
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There are 44 citations in total.

Details

Primary Language English
Subjects Agricultural, Veterinary and Food Sciences
Journal Section Agriculture / Zirai Bilimler
Authors

Ahmad Nabhan 0000-0002-8125-8913

Ösmetullah Arvas 0000-0001-8713-2388

M. Alp Furan 0000-0002-0171-0405

Project Number FDK-2019_7650
Publication Date August 31, 2023
Submission Date March 6, 2023
Published in Issue Year 2023

Cite

APA Nabhan, A., Arvas, Ö., & Furan, M. A. (2023). The Applicability of Wheat SSR Markers to Analyzing the Molecular Diversity and Distribution of Orchardgrass (Dactylis glomerata L.) Genotypes from Eastern Anatolian Habitats. Yüzüncü Yıl Üniversitesi Fen Bilimleri Enstitüsü Dergisi, 28(2), 732-744. https://doi.org/10.53433/yyufbed.1260839