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All Journal HAYATI Journal of Biosciences BERITA BIOLOGI
HEE JONG KOH
Seoul National University, San56-1, Kwanak-gu, Sillim-dong, Seoul 151-921 South Korea
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Earth & Planetary Sciences

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EVALUASI KANDUNGAN PROTEIN DAN SIFAT PASTA BERAS JAPONICA DENGAN MARKA DNA Lestari, Puji; Koh, Hee Jong
BERITA BIOLOGI Vol 12, No 2 (2013)
Publisher : Research Center for Biology-Indonesian Institute of Sciences

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (219.594 KB) | DOI: 10.14203/beritabiologi.v12i2.526

Abstract

An evaluation of protein content and pasting properties of rice using molecular markers approach is still limited. This study was aimed to evaluate protein content and pasting properties of japonica rice using DNA marker in complement to conventional tools. This study was further analysis based on the data of protein content and pasting properties of 22 japonica varieties and genotyping data using 30 DNA markers. Multiple regression analysis was performed to formulate equations to estimate the protein content and pasting properties. As a result, the protein content and Rapid Visco Analyzer (RVA) pasting properties values of 22 varieties demonstrated in the range of japonica rice with high variation. Correlation between protein content and RVA pasta properties showed differential profiles. Several type of DNA markers tested in this study showed allele variation among varieties. To estimate the protein content and several parameters of pasting properties of japonica rice, six marker sets in the form of model equations were successfully developed. High resolutions of equations with signifikant R2 in range of 0.95 - 0.99 showed their potency to predict rice physicochemical properties. These developed marker sets are an initial step which needs further validation in order to be able for evaluation of thephysicochemical properties in early generation of breeding and germplasm collection of japonica rice in the future.
Development of New CAPS/dCAPS and SNAP Markers for Rice Eating Quality LESTARI, PUJI; KOH, HEE JONG
HAYATI Journal of Biosciences Vol. 20 No. 1 (2013): March 2013
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (71.358 KB) | DOI: 10.4308/hjb.20.1.15

Abstract

 Rice eating quality traits are very complex and essential to be evaluated not only through physicochemical analysis and sensory test but also by PCR-based marker approach. To date, simple markers based on single nucleotide polymorphism (SNP) discovery to evaluate eating quality of cooked rice are still limited. Thus, the aims of this study were to develop PCR-based markers, called SNAP (single nucleotide amplified polymorphism) as alternative markers of cleaved amplified polymorphic sequence/derived cleaved amplified polymorphic sequence (CAPS/dCAPS). Four primer pairs specific to targeted alleles (CAPS/dCAPS and SNAP) of four loci were successfully designed based on the discovered SNPs according to the eating quality-QTL and searching genomic database. The primer pairs were able to identify alleles corresponding loci among indica and japonica varieties with diverse palatability (overall eating quality). There was consistent allele pattern produced by SNAP and CAPS/dCAPS for the same base mutation. The SNAP marker for rice eating quality trait could be easily assayed by standard agarose gel electrophoresis, allowing to increase the advantage of genotyping methods. Moreover, the SNAP markers together with our previous developed markers which were recommended as applicable marker set for evaluation of rice eating quality, will facilitate as marker-assisted selection for rice breeding program.   
Co-Authors PUJI LESTARI