Identification of SSR Markers for Differentiating Rice (Oryza sativa L.) Varieties Marketed in Turkey

This study was carried out to identify SSR markers for thedifferentiation and identification of rice cultivars marketed inTurkey between 2016 and 2017. In this study 60 registered orproduction permitted, some local and foreign rice varieties wereused as a material. DNA was isolated from single polished ricekernels for PCR amplification and rice cultivars were genotyped by50 SSR markers. We found that 45 out of 50 SSR markers producedreproducible and polymorphic alleles. Thirty-six rice varieties hadvariety specific alleles among 60 rice varieties analysed in the study.This variety specific alleles belong to only one variety and they canbe used to identify rice variety among 60 rice varieties studied.Osmancık-97, Cammeo, Ronaldo and Baldo are the most import 4varieties in Turkish rice production and milled rice market. In thisstudy, it was found that RM152, RM144, RM259 and RM118 SSRmarkers can be used to differentiate and identify these mostimportant four varieties with different combinations. Collectively,this study provided some variety specific SSR markers that can beused to differentiate and identify rice varieties sold in Turkey.

PDF

___

Bay S (2009). Türk çeltik çeşitlerinin (oryza satıva l.) tohum depo proteinleri ve Random amplified polymorphic DNA (RAPD) belirleyicileri ile genetik analizi. Diss. Yüksek Lisans Tezi, Kahramanmaraş Sütçü İmam Üniversitesi, Fen Bilimleri Enstitüsü, Biyoloji Ana Bilim Dalı, Kahramanmaraş
Choudhary G, Ranjitkumar N, Surapaneni M, Deborah D A, Vipparla A, Anuradha G, Siddiq E A & Vemireddy L R (2013). Molecular genetic diversity of major indian rice cultivars over decadal periods. Plos One. 8(6): e66197
Cömertpay G, Baloch F S, Derya M, Andeden E E, Alsdeh A, Sürek H & Özkan H (2016). Population structure of rice varieties used in Turkish rice breeding programs determined using simple-sequence repeat and inter binding site-retrotransposon data. Genetics and Moleculer Research. 15 (1): gmr.15017158
Gramene (2015). Panel of 50 standard SSR markers. Retrieved in December, 20, 2015 from http://archive.gramene. org/db/markers/ssrtool Hossain Z, Rasul M G, Ali M S, Iftekharuddaula K M & Mian M A K (2007). Molecular characterization and genetic diversity in fine grain and aromatic landraces of rice using microsatellite markers. Bangaldes Jornal of Plant Breeding and Genetics 20(2): 1-10
Kostova A, Todorovska E, Christov N, Hristov K & Atanassov A (2006). Assesment of genetic variability induced by chemical mutagenesis in elite maize germplasm via SSR markers. Journal of Crop Improvement 16: 37-48
Kumar S, Tantwai K, Kottapalli P R & Katiyar S K (2014). Genetic diversity analysis of rice genotypes collected from different villages of Chhattisgarh using simple sequence repeat (SSR) markers. Advances in Plant Sciences 25(2): 419-422 Li F P, Lee S, Kwon S W, Li G & Park Y J (2014). Analysis of genetic diversity and trait correlations among Korean landrace rice (Oryza sativa L.). Genetics and Molekuler Research 13(3): 6316-6331
Morgante M & Olivieri A (1993). PCR-amplified microsatelites as markers in plant genetics. Plant Journal 3: 175-182
Ni J, Colowit P M & Mackill D J (2002). Evaluation of genetic diversity in rice subspecies using microsatellite markers. Crop Science 42: 601-607
Pal S, Jain S, Saini N, Jain A, Jain R K & Jain A (2004). Identification of microsatellite markers for differentiating some Basmati and non-Basmati rice varieties. Indian Journal of Biotechnology 3: 519-526
Pervaiz Z H, Rabbani M A, Khaliq, Pearce S R & Malik S A (2010). Genetic diversity associated with agronomic traits using microsatellite markers in Pakistani rice landraces. Electronic Journal of Biotechnology 13(3): 7-9
Powell W, Machray G C & Provan J (1996). Polymorphism revealed by simple sequence repeats. Trends Plant Science 1: 215-222
Rahman M M, Rasaul M G, Hossain M A, Iftekharuddaula K M & Hasegawa H (2012). Moleculer characterization and genetic diversity analysis of rice (Oryza sativa L.) using SSR markers. Journal of Crop Improvment 26: 244-257
Rajendrakumar P, Sujatha K, Rao K S, Kumar P N, Viraktamath B C, Balachandran S M & Sundaram R M (2007). A protocol for isolation of DNA suitable for rapid seed and grain purity assessments in rice. Rice Genentics Newsletter 23: 92-94
Yüzbaşıoğlu G, Yılmaz S & Gözükırmızı N (2016). Houba retrotransposon-based molecular markers: a tool for variation analysis in rice. Turkish Jornual of Agriculture and Forestry 40: 456-464
Weising K, Winter P, Hüttel B & Kahl G (1997). Microsatellite markers for moleculer breeding. Journal of Crop Production 1: 113-143
Worede F, Sreewongchai T, Phumichai C & Sripichitt P (2013). Genetic diversity analysis of rice cultivars from various origins using simple sequence repeat (SSR) markers. African Journal of Biotechnology 12(26): 4074-4081
Zhao X & Kochert G (1993). Phylogenetic distribution and genetic mapping of a (GGC)n microsatellites from rice (Oryza sativa L). Plant Moleculer Biology 21: 697-614