Establishment of core Short Tandem Repeat (STR) markers for rice (Oryza sativa L.) varietal identification

Issue Date

12-2019

Abstract

The genetic identity of rice cultivars is important to acquire plant variety protection and breeders' right. DNA-based cultivar identification can help to establish the varietal genetic identity of rice based on unique DNA profile. Short Tandem Repeat (STR) marker selection and validation were conducted following the recommendations of the Scientific Working Group in DNA Analysis Method (SWGDAM) in establishing the STR markers for rice varietal identification. Forty-one STR markers were selected based on its polymorphism, sensitivity, stability, and species specificity. Polymorphism Information Content (PIC) values of the markers range 0.1889 to 0.7568 and detected an average number of 3.4 alleles per marker indicating high level of polymorphism. Genetic diversity index was 0.9609 indicating high level of genetic variation detected among rice cultivars used. Sensitivity test showed that the DNA concentration optimum for PCR analysis was 10.0 ng. Stability test showed that STR markers were able to amplify degraded DNA samples. Species specificity test revealed that STR markers generated PCR amplifications in both target (Oryza sativa L.) and non-target DNA sources including wild rice species, weeds, corn, rats, and human. This paper discusses details of STR marker selection for rice identification following SWGDAM parameters for DNA analysis.

Source or Periodical Title

Philippine Journal of Crop Science

ISSN

0115-463x

Volume

44

Issue

3

Page

31-44

Document Type

Article

Physical Description

illustrations, tables, graphs

Language

English

Subject

Oryza sativa. varietal identification, plant variety protection, STR DNA markers

Identifier

https://www.cabdirect.org/cabdirect/abstract/20203113781

Digital Copy

Yes

En – AGROVOC descriptors

ORYZA SATIVA; VARIETIES; IDENTIFICATION; DNA; GENETIC MARKERS; BREEDERS RIGHTS

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