Identifikasi dan Aplikasi Marka Berbasis PCR untuk Identifikasi Varietas Padi dengan Palatabilitas Tinggi

Puji Lestari, Andari Risliawati, Hee Jong Koh

Abstract


To date, there has
been no DNA fingerprint profile as unique identity of rice
variety that has a high palatability (overall eating quality) in
Indonesia, thus identification of premium varieties using
molecular markers is considered to be important. This study
aimed to establish DNA fingerprint profiles of indica and
japonica rice varieties, and unique identities of rice varieties
with high palatability using molecular markers associated
with palatability. Total of 22 japonica and 24 indica rice
varieties were evaluated their overall eating quality and
tested using 20 molecular markers STS (sequence-tagged
site) which were designed on the basis of japonica rice
genome. To identify the genes functions, all these markers
amplicons were cloned, transformed, sequenced and the
sequences results were analyzed their homologous against
the genome database. Ilpum (japonica) and Rojolele
(indica) were identified to have the highest palatability
compared to other varieties. DNA fingerprint profiles
identified with the total STS markers were not able to
differentiate each variety, however premium varieties of
japonica and indica showed specific identities. A unique
identity of Indonesian indica variety possessing high
palatability, Rojolele was successfully developed using a
markers set. DNA fingerprint profile in digital value system
facilitates the identification of premium rice from other
varieties. The fragments of the STS primers showed no any
known-genes functions related to rice eating quality,
therefore these markers are preferentially used for
identification of premium rice with high palatability than
differentiation of rice varieties based on the palatability. In
this study, the unique identity of rice variety with high
palatability is very usefull to evaluate the purity for
germplasm protection.


Keywords


Palatability; Polymerase Chain Reaction; rice; sequence-tagged site.

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DOI: http://dx.doi.org/10.21082/jbio.v8n2.2012.p69-77

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P-ISSN : 1907-1094
E-ISSN : 2549-1547


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