Genetic Diversity of Local Black Rice Cultivars Based on Microsatellite Markers. Kristamtini, Taryono, Panjisakti Basunanda, and Rudi H. Murti. Indonesia has diverse accessions of local black rice, which are important sources of germplasm. However, some of the local black rice cultivars have different names, leading a need to be identified to determine their genetic diversity using molecular marker. This study aimed to identify genetic diversity of eleven cultivars of local black rice, collection of the Assessment Institute for Agricultural Technology, Yogyakarta and compared them with two white rice varieties using four microsatellite markers. Detection of microsatellite alleles polymorphism was carried out by visualization of PCR amplicons by electrophoresis on agarose gel. To estimate their genetic diversity, phylogenetic tree and principal coordinate analysis were performed using binary data of SSR alleles. The results revealed that total markers enabled to differentiate black rice cultivars as reflected by high value of polymorphic information content (PIC) mean (0.695). This value was consistent with the high genetic diversity of black rice (genetic diversity index, h = 0.283) in comparison with white rice cultivars (h = 0.020). The phylogenetic and main coordinate analyses suggested that black rice cultivars genetically differed from white rice. The local black rice cultivars were preferentially grouped based on their genetic those were distributed in three coordinates and did not represent their local geographic origin. Genetic diversity analysis in this study will be useful as an initial basis for proper identification and selection for appropriate parents to assist breeding program of black rice in Indonesia.Keywords: Genetic diversity, local cultivar, black rice, microsatellite markers.
ABSTRAK
PENDAHULUANBeras hitam merupakan salah satu jenis beras yang ada di dunia, di samping beras putih, beras cokelat, dan beras merah. Akhir-akhir ini beras hitam mulai populer dan dikonsumsi oleh sebagian masyarakat sebagai bahan pangan fungsional karena secara alami atau melalui proses tertentu mengandung satu atau lebih senyawa yang dianggap mempunyai fungsi fisiologis yang bermanfaat bagi kesehatan. Beras hitam memiliki kandungan antosianin tinggi yang terletak pada lapisan perikarp, yang memberikan warna ungu gelap (Ryu et al., 1998;Takashi et al., 2001). Antosianin telah diakui sebagai bahan pangan fungsional kesehatan karena aktivitas antioksidan