유전체재해석(resequencing)에 의한 통일형 벼 품종간 단일염기서열변이(SNP) 탐색

• 영문명: Genome-wide Detection of SNPs between Two Korean Tongil-Type Rice Varieties
• 발행기관: 한국육종학회
• 저자명: 지현소(Hyeonso Ji) 안억근(Eokkeun Ahn) 서보윤(Bo Yoon Seo) 강현주(Hyun-Ju Kang) 최인찬(Inchan Choi) 김경환(Kyung-Hwan Kim)
• 간행물 정보: 『한국육종학회지』Vol.48 No.4, 460~469쪽, 전체 10쪽
• 주제분류: 농수해양 > 기타농수해양
• 파일형태: PDF
• 발행일자: 2016.12.30

영문 초록

As a first step of mapping genes conferring resistance to the brown planthopper, Nilaparvata lugens Stål, in Gayabyeo using a population derived from a cross between Gayabyeo and Taebaegbyeo, we performed the whole genome resequencing of these two Tongil-type rice varieties. The amount of raw sequence data was about 18.5X109 bp and 17.9X109 bp in Gayabyeo and Taebaegbyeo, respectively. After quality trimming and read mapping onto Nipponbare reference genome sequence, 9.3X109 bp was mapped in Gayabyeo with mapping depth of 25.0X, and 9.5X109 bp was mapped in Taebaegbyeo with mapping depth of 25.5X. Between Gayabyeo and Nipponbare, 1,585,880 SNPs were detected, while 1,416,898 SNPs were detected between Taebaegbyeo and Nipponbare. Between Gayabyeo and Taebaegbyeo, 284,501 SNPs were detected. Among the SNPs between Gayabyeo and Taebaegbyeo, 21.2% were in genic region and 78.8% were in intergenic region. In CDS region, 15,924 SNPs were detected, among which synonymous SNPs covered 47.3% and non-synonymous SNPs covered 52.7%. We designed Cleaved Amplified Polymorphic Sequences (CAPS) markers with SNPs in the restriction enzyme recognition sites, and 20 CAPS markers were tested. Of the 20 markers, 19 markers showed polymorphism and one marker showed monomorphism between Gayabyeo and Taebaegbyeo. It is expected that sufficient DNA markers for mapping genes with a population derived from a cross between Gayabyeo and Taebaegbyeo can be developed based on the results of the study.

목차

1. 서언

2. 재료 및 방법

3. 결과 및 고찰

4. 적요

5. 사사

키워드

Rice ,Resequencing SNP DNA marker