Retrotranspozon temelli moleküler belirteçler kullanılarak Türk arpa (Hordeum vulgare L.) çeşitlerinin genomik karakterizasyonu

Year 2020, , 275 - 283, 01.08.2020

Hülya Sipahi , Ayşen Yumurtacı

https://doi.org/10.29136/mediterranean.690224

Cited By: 1

Abstract

Kökeni Doğu Akdeniz ülkelerine dayanan, hayvan yemi ve maltlık olarak tüketilen arpanın, dünyanın birçok bölgesinde tarımı ve ıslahı yapılmaktadır. Arpa çeşitlerinde genetik çeşitliliğin belirlenmesi, çeşitler arasındaki genetik ilişkilerin ortaya çıkarılması ve ıslahçı haklarının korunması için moleküler yöntemlerden faydalanılmaktadır. Bu çalışmada, arpa genomunun önemli bileşenlerinden olan BARE-1 retrotranspozonu ile ilişkili IRAP (Retrotranspozon-arası Çoğaltılmış Polimorfizm), REMAP (Retrotranspozon-Mikrosatellit Çoğaltılmış Polimorfizmi) ve iPBS (Primer Arası Bağlanma Yeri Polimorfizmi) olarak adlandırılan moleküler belirteçler kullanılarak ulusal birçok çeşidin karakterizasyonu yapılmıştır. Toplamda 211 alel olmak üzere, 3 IRAP primer çifti 49.5 REMAP primer çifti 55 ve 7 iPBS primer çifti için 107 alel tespit edilmiştir. Lokus başına ortalama 14 alel belirlenmiştir. Polimorfik Bilgi İçeriği (PIC) ortalama değeri REMAP için 0.407, IRAP için 0.454 ve IPBS için de 0.442 bulunmuştur. Genetik benzerlik değerleri 0.41 ila 0.93 arasında değişmiştir. Tüm belirteçler için ortalama fark yöntemi (UPGMA) kümeleme analizi yapılarak, çeşitler genetik benzerliklerine göre gruplandırılmışlardır. Bu çalışmada, fazla sayıda alel ve yüksek PIC değeri vermeleri, ucuz ve kolay elde edinimleri nedeniyle, transposon temelli moleküler belirteçler ile çok yakın ilişkili çeşitlerin dahi ayrımının kolay bir şekilde yapılabileceği görülmüştür. Transposon esaslı belirteçler, çeşitler arasında genetik ilişkileri belirlemenin yanı sıra genetik kaynakların korunmasında ve tohum bankalarının yönetiminde faydalı olabilecektir.

Keywords

Arpa, Retrotranspozon belirteçler, IRAP, REMAP, iPBS

Supporting Institution

Sinop Üniversitesi Bilimsel Araştırma Projeleri Koordinasyon Birimi

Project Number

FEF-1901-18-20

Thanks

Bu çalışma Sinop Üniversitesi Bilimsel Araştırma Projeleri Koordinasyon Birimince desteklenen FEF-1901-18-20 no’lu proje kapsamında gerçekleştirilmiştir.

Genomic characterization of Turkish barley (Hordeum vulgare L.) cultivars using retrotransposons-based molecular markers

Abstract

Barley, which is originated from Eastern Mediterranean countries and is consumed as animal feed and malt, is cultivated and breeding in many regions of the world. Molecular methods are benefited to determine the genetic diversity in barley cultivars, to define the genetic relationship between cultivars and to protect the breeder rights. In this study, characterization of many national cultivars was carried out using molecular markers called as IRAP (Inter retrotransposon amplified polymorphism), REMAP (Retrotransposon microsatellite polymorphism) and iPBS (inter-priming binding site) associated with BARE-1 retrotransposons that is one of the important components of barley genome. A total of 211 alleles, 49 for 3 IRAP, 55 for 5 REMAP, and 107 for 7 IPBS primer pairs were detected. An average of 14 alleles per locus was determined. Polymorphic Information Content (PIC) mean value was 0.407 for REMAP and 0.454 for IRAP and 0.442 for IPBS. Genetic similarity values ranged from 0.41 to 0.93. Cultivars were divided into groups according to their genetic similarities by performing the unweighted pair group method with arithmetic mean (UPGMA) clustering analysis for all markers. In this study, it was observed that, due to their high number of alleles and high PIC values, and their cheap and easy acquisition, it can be easily distinguished even very closely related cultivars by using transposon-based molecular markers. Transposon based markers can be useful for conservating the genetic resources and managing the seed banks beside as determining the genetic relationship between cultivars.

Keywords

Barley, Retrotransposon markers, IRAP, REMAP, iPBS

Project Number

FEF-1901-18-20

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