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Development of Kompetitive Allele Specific PCR Markers for Submergence Tolerant Gene Sub1 in Rice
Plant Breeding and Biotechnology 2019;7:62-66
Published online March 1, 2019
© 2019 Korean Society of Breeding Science.

Je-Hoon Moon1, Daniel Son2, Jung-Woo Lee1, Soo-Cheul Yoo1*

1Department of Plant Life & Environmental Science, Hankyong National University, Anseong 17579, Korea
2Department of Agronomy & Medicinal Plant Resources, Gyeongnam National University of Science and Technology, Jinju 52725, Korea
Corresponding author: Soo-Cheul Yoo,, Tel: +82-31-670-5082, Fax: +82-31-670-5089
Received December 17, 2018; Revised December 24, 2018; Accepted December 24, 2018.
This is an Open-Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License ( which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
The SUBMERGENCE 1 (SUB1) locus, conferring tolerance to complete inundation, was identified, and gel-based DNA markers, AEX1 and GnS2, were previously developed for marker-assisted breeding (MAB). However, a high throughput and high specific method, at low cost, is still required to detect Sub1 alleles. Kompetitive Allele Specific PCR (KASP) markers enable high throughput analysis for a large number of seeds, as well as detection of both alleles, in a single reaction. In this study, we developed KASP markers that can distinguish specific alleles at Sub1A loci based on single nucleotide polymorphisms (SNPs). Marker validations were carried out by genotyping of a segregating population with the developed KASP markers. The results from KASP assay and gel-based marker analysis were consistent for Sub1A alleles. KASP markers developed for Sub1A would be helpful due to high accuracy, low cost, and a high throughput genotyping feature in MAB.
Keywords : Submergence tolerance, Gel-based marker, KASP marker, Sub1A, Single-nucleotide polymorphism

March 2019, 7 (1)
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