Pakistan Journal of Biological Sciences1028-88801812-5735Asian Network for Scientific Information10.3923/pjbs.2017.447.456TodingMarjam Magdalena TalleiTrina Ekawati UtamiDwinita Wikan 92017209Background and Objective: The genetic character of North Sulawesis local rice cultivated by local communities has not been extensively explored. Genetic character can be used as tool for rice varieties identification to complement the morphological characters. This study aimed at developing genetic character of North Sulawesis local rice varieties Burungan and Super Win using SSR and SNP molecular markers. Materials and Methods: Two local North Sulawesi varieties of rice from Bolaang Mongondow Regency, namely Super Win (Tropical Japonica) and Burungan (Japonica), were used. Control varieties included in this research were IR64 (Indica), Nipponbare (Japonica), Super Win Aromatik (Tropical Japonica) and Leukat Hitam (Tropical Japonica). The significant markers associated with agro-morphological characters were used, such as flowering date, panicle length, flag leaf corner, leaf length, panicle branches and the number of productive tillers. The SSR and SNP 384-chip which are mapped in the entire rice genome were employed. Results: The study showed that Burungan has alleles size range 108.7-148.8 with a mean size of alleles 118.97. The frequency of this allele is 33.33%. Alleles size range of Super Win is 109.2-148.8 with a mean size of alleles 119.50. The frequency of this allele is 22.22%. This diversity variation of allele size cannot be used as a genetic identifier for both varieties. The genetic distance between Burungan and Super Win varieties was quite high (0.461). It was due to they came from different sub species, Burungan was from Japonica while Super Win was from Tropical Japonica. Conclusion: Burungan and Super Win varieties are not a local rice of North Sulawesi.]]>Hawkes, J.G., N. Maxted and B.V. Ford-Lloyd,2000Ex situ Conservation of Plant Genetic Resources.]]>Pages: 250Pages: 250Nafisah, A., A. Daradjat and H. Sembiring,20062006pp: 6373Lenak, A.A., S.A. Nio, F.R. Mantiri and S. Mambu,201437983Ai, N.S., A.A. Lenak, F.R. Mantiri, S.M. and D.P.M. Ludong,2015Oryza sativa L.) cultivars under water deficit condition].]]>56368, (In Indonesian)Rumintjap, V.N.D., J.F.X. Rogi and D. Tooy,2016Oryza sativa L) dengan menggunakan model simulasi tanaman di Kabupaten Minahasa Selatan.]]>125364Moeljopawiro, S.,20101617Arif, I.A., H.A. Khan, A.H. Bahkali, A.A. Al Homaidan, A.H. Al Farhan, M. Al Sadoon and M. Shobrak,201118219225Nybom, H., K. Weising and B. Rotter,20142014Mammadov, J., R. Aggarwal, R. Buyyarapu and S. Kumpatla,20122012Miah, G., M.Y. Rafii, M.R. Ismail, A.B. Puteh, H.A. Rahim, K.N. Islam and M.A. Latif,2013142249922528Gao, L., J. Jia and X. Kong,20162016Singh, N., P.K. Jayaswal, K. Panda, P. Mandal and V. Kumar et al.,20152015Rahman, M.S., M.K.H. Sohag and L. Rahman,2010Oryza sativaL.) varieties of Bangladesh.]]>8717Bora, A., P.R. Choudhury, V. Pande and A.B. Mandal,2016Oryza sativa L.) hybrids using microsatellite markers.]]>2016Choudhury, D.R., N. Singh, A.K. Singh, S. Kumar and K. Srinivasan et al.,20142014Sambrook, J. and D.W. Russell,20012001pp: A8.19-A8.24pp: A8.19-A8.24Bradbury, P.J., Z. Zhang, D.E. Kroon, T.M. Casstevens, Y. Ramdoss and E.S. Buckler,20072326332635Anderson, J.A., G.A. Churchill, J.E. Autrique, S.D. Tanksley and M.E. Sorrells,199336181186Nei, M.,19737033213323Liu, K. and S.V. Muse,20052121282129Wang, C.H., X.M. Zheng, Q. Xu, X.P. Yuan and L. Huang et al.,2014Oryza sativa with emphasis on Chinese rice germplasm.]]>112489496Garris, A.J., T.H. Tai, J. Coburn, S. Kresovich and S. McCouch,2005Oryza sativa L.]]>16916311638Tantasawat, P., J. Trongchuen, T. Prajongjai, S. Jenweerawat and W. Chaowiset,2011Glycine max (L.) Merr.) genetic relationship and variety identification in Thailand.]]>5283290Susanto, U., Satoto, N.A. Rohmah and M.J. Mejaya,2014337176Singh, A. and R.S. Sengar,2015Oryza sativa L) via molecular marker (SSR, ISSR and RAPD) in aerobic condition.]]>2015Kumar, B., S.M. Gomez, N.M. Boopathi, S.S. Kumar and D. Kumaresan et al.,2005Oryza sativa L.) using bulked line analysis.]]>173947Lu, B.R., X. Cai and J. Xin,2009indica and japonica rice identification based on the InDel molecular method: Its implication in rice breeding and evolutionary research.]]>1912411252Tang, W., T. Wu, J. Ye, J. Sun and Y. Jiang et al.,20162016