Prediction of Physicochemical Properties of Indonesian Indica Rice Using Molecular Markers

Abstract

Physicochemical properties determine the palatability and cooking quality of rice, which must be determined efficiently in order to satisfy consumer demand. To date, little information exists on the use of molecular markers to predict physicochemical properties of the "indica" rice varieties found in Indonesia. The objective of this study was to investigate physicochemical properties and genetic variation of Indonesian rice varieties, and to formulate regression equations to analyze sets of DNA markers which could predict amylose content (AC), protein content (PC) and pasting properties of the varieties. A total of 24 Indonesian indica rice varieties were chosen based on their genetic background and agricultural characteristics. We then measured selected physicochemical properties, and genotyped the varieties using 30 DNA markers. The chosen varieties showed favorable values for PC, AC, and six rapid viscosity analyzer (RVA) pasting properties, which was supported by molecular data. As demonstrated by principal component analysis (PCA), markers could provide a complementary method for differentiating rice varieties, as an alternative to measuring physicochemical properties. PCA analysis also allowed us to establish marker sets using multiple regression analysis. We formulated eight model regression equations comprising data regarding 15 to 19 markers with high coefficients (R 2 =0.98-0.99). The formulas provided results that consistently correlated and therefore predicted the physicochemical properties of indica rice. Further validation of these marker sets may provide rapid and efficient means for predicting the physicochemical properties of Indonesian-bred indica rice in the future.

Seed Quality Status of Rice Varieties Based on Physical Properties, Seed Health and Proximate Composition

“…Protein content in this study varied from 6.51 to 9.13% and was comparable to that found by Thomas et al [17] and Lestari et al [29]. The protein content values of Asaduzzaman et al [30] and Rohman et al [31] were found less or near to the results of this study.…”

Genetic Diversity Analysis of Indonesian Pigmented Rice Accessions Based on Functional Molecular Markers

“…Penggunaan lebih banyak marka molekuler yang polimorfis juga perlu dilakukan untuk memperoleh hasil pengelompokan aksesi yang lebih baik. Hal ini tidak hanya akan meningkatkan akurasi studi diversitas genetik, tetapi juga dapat menjadi dasar pengembangan set marka molekuler berbasis formula regresi dan analisis komponen utama untuk memprediksi karakter palatabilitas beras (Lestari et al 2009;Lestari et al 2014).…”

KERAGAMAN GENETIK VARIETAS PADI <em>japonica</em> DAN <em>indica</em> BERDASARKAN MARKA DNA TERKAIT MUTU RASA

“…Secara umum Kalimutu memiliki rataan kesamaan genetik paling rendah dengan varietas lain. Variasi yang luas yang terlihat pada varietas indica dapat disebabkan oleh bervariasinya ekosistem penanaman di Indonesia misalnya di lahan sawah, tadah hujan dan rawa (Lestari et al, 2014). Secara keseluruhan antara varietas japonica dan indica, koefisien kesamaan yang paling rendah (0,4) dalam arti jarak genetik paling jauh ditemukan antara varietas japonica dan indica baik varietas elit maupun lokal, khususnya Onnuri atau Manmi dengan Cigeulis atau Fatmawati.…”