Mapping Analysis of a New Bacterial Blight Resistance Gene Xa49(t) in Rice

doi:10.16819/j.1001-7216.2025.240302

Abstract

Abstract:

【Objective】 Bacterial blight (BB) is one of the most serious diseases in rice. Breeding and planting resistant varieties is the most efficient strategy for disease control, and exploring resistance (R) genes is key to developing BB-resistant varieties. 【Method】 Wild rice provides valuable genetic resources for rice breeding. In this study, an introgression line, W6023, derived from a cross between Oryza rufipogon and Oryza sativa (IR24), was used. Genetic and resistance spectrum analyses revealed that W6023 carries a novel dominant BB R gene, tentatively named Xa49(t). An F₂ segregating population from IR24 × W6023 was constructed, and bulk segregant analysis (BSA) combined with newly designed InDel and SNP markers was applied for preliminary mapping of the target gene Xa49(t). 【Result】 Thirteen molecular markers linked to Xa49(t) were identified on chromosome 11, and the gene was ultimately delimited to a region between markers D11-111 and D11-241. 【Conclusion】 The novel broad-spectrum BB R gene Xa49(t) was preliminarily mapped to an approximately 968 kb region on rice chromosome 11.

Key words: rice, bacterial blight, Xa49(t), gene mapping

摘要：

【目的】白叶枯病是水稻生产上的重要病害之一，培育和推广种植抗病品种是防治该病害最理想的措施，而挖掘广谱抗病基因是培育抗病新品种的关键。【方法】野生稻为水稻育种提供了丰富的遗传资源。本研究前期通过普通野生稻(Oryza rufipogon)和籼稻IR24杂交创制了新的野生稻导入系W6023。经抗谱鉴定和遗传群体分析，发现W6023携带一个新的白叶枯病抗性基因，将其暂命名为Xa49(t)。通过构建IR24×W6023的F₂群体，运用BSA关联分析，结合新设计的InDel、SNP标记对目标基因Xa49(t)进行初定位。【结果】在水稻11号染色体上鉴定到13个与Xa49(t)基因抗性连锁的分子标记，最终将其定位到D11-111和D11-241间的区域内。【结论】广谱抗白叶枯病新基因Xa49(t)被初步定位于11号染色体968 kb的区间内。

关键词: 水稻, 白叶枯病, Xa49(t), 基因定位

DENG Huan, LIU Yapei, WANG Chunlian, GUO Wei, CHEN Xifeng, JI Zhiyuan. Mapping Analysis of a New Bacterial Blight Resistance Gene Xa49(t) in Rice[J]. Chinese Journal OF Rice Science, 2025, 39(6): 825-831.

邓欢, 刘亚培, 王春连, 郭威, 陈析丰, 纪志远. 水稻抗白叶枯病新基因Xa49(t)的定位分析[J]. 中国水稻科学, 2025, 39(6): 825-831.

Figures/Tables 7

References 21

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分子标记 Marker	正向引物(5′-3′) Forward sequence(5'-3')	反向引物(5′-3′) Reverse sequence(5'-3')
D11-44	CCGGCCCATCTGGCGTAT	TTACAGCACGTTGGTTGGTGG
D11-63	AGAGCTCGTCGCAATGAAGAC	TACTGAGGTCGTGGAAGCATA
DM-32	TTGGTTAGGCTTGGCTGAGTT	TGTCCAGCGTGGTAAGTCAA
DM-23	ACACAAACACACACGCACAC	GCCCTCGTTCCTGTCTGAAT
DM-19	GAGAATTCCTGTTCAGCCGC	ATAGACGCAAACCTGTCGAA
DM-22	ATGGCATCAATTGTCTTACCAGA	GTTTGCGCATAAATCAATGGCT
DM-47	GGAACTGGACAGGGCACTAA	AAAAGCTCCCCAACCAGTCTA
D11-86	TTAGCTGGGGCTTCATGGTG	TTATTTCGCGAAGTGAGCGT
D11-111	GATCACTCGAACACACCCCA	TCTAGCTTCTGGTCAACTGGA
D11-241	GTTTGCTGCACGTTTGGAAATTGTA	TGGACGCAACCAAGATTGAGATTAG
DM-49	AAGAAGGGGTTGGGAGGACAGGA	TTTTAGGATGGATGGAGGGAGTAGTT
DM-21	CAGGGTCGTCTGTTGACTTGA	AAAGGTGGACTTCACTACTTCAG
RM206	CCCATGCGTTTAACTATTCT	CGTTCCATCGATCCGTATGG

分子标记 Marker	正向引物(5′-3′) Forward sequence(5'-3')	反向引物(5′-3′) Reverse sequence(5'-3')
D11-44	CCGGCCCATCTGGCGTAT	TTACAGCACGTTGGTTGGTGG
D11-63	AGAGCTCGTCGCAATGAAGAC	TACTGAGGTCGTGGAAGCATA
DM-32	TTGGTTAGGCTTGGCTGAGTT	TGTCCAGCGTGGTAAGTCAA
DM-23	ACACAAACACACACGCACAC	GCCCTCGTTCCTGTCTGAAT
DM-19	GAGAATTCCTGTTCAGCCGC	ATAGACGCAAACCTGTCGAA
DM-22	ATGGCATCAATTGTCTTACCAGA	GTTTGCGCATAAATCAATGGCT
DM-47	GGAACTGGACAGGGCACTAA	AAAAGCTCCCCAACCAGTCTA
D11-86	TTAGCTGGGGCTTCATGGTG	TTATTTCGCGAAGTGAGCGT
D11-111	GATCACTCGAACACACCCCA	TCTAGCTTCTGGTCAACTGGA
D11-241	GTTTGCTGCACGTTTGGAAATTGTA	TGGACGCAACCAAGATTGAGATTAG
DM-49	AAGAAGGGGTTGGGAGGACAGGA	TTTTAGGATGGATGGAGGGAGTAGTT
DM-21	CAGGGTCGTCTGTTGACTTGA	AAAGGTGGACTTCACTACTTCAG
RM206	CCCATGCGTTTAACTATTCT	CGTTCCATCGATCCGTATGG

染色体 Chromosome	InDel数量统计 Number of InDels			SNP数量统计 Number of SNPs
染色体 Chromosome	W6023	IR24	数量差异 Number difference	W6023	IR24	数量差异 Number difference
1	19253	18884	369	99700	95077	4623
2	20470	17668	2802	106847	94020	12827
3	19996	18814	1182	120824	112238	8586
4	20572	19919	653	127633	121200	6433
5	16295	15899	396	91499	86317	5182
6	17177	16194	983	109677	102539	7138
7	13396	13166	230	80035	75642	4393
8	20350	19650	700	97587	91635	5952
9	12132	11995	137	75786	72198	3588
10	10979	10485	494	69212	64740	4472
11	32866	21628	11238	196259	119864	76395
12	18950	17922	1028	113225	104302	8923
线粒体ChrM	9	9	0	30	27	3
叶绿体ChrC	27	27	0	45	48	−3

染色体 Chromosome	InDel数量统计 Number of InDels			SNP数量统计 Number of SNPs
染色体 Chromosome	W6023	IR24	数量差异 Number difference	W6023	IR24	数量差异 Number difference
1	19253	18884	369	99700	95077	4623
2	20470	17668	2802	106847	94020	12827
3	19996	18814	1182	120824	112238	8586
4	20572	19919	653	127633	121200	6433
5	16295	15899	396	91499	86317	5182
6	17177	16194	983	109677	102539	7138
7	13396	13166	230	80035	75642	4393
8	20350	19650	700	97587	91635	5952
9	12132	11995	137	75786	72198	3588
10	10979	10485	494	69212	64740	4472
11	32866	21628	11238	196259	119864	76395
12	18950	17922	1028	113225	104302	8923
线粒体ChrM	9	9	0	30	27	3
叶绿体ChrC	27	27	0	45	48	−3

重组单株 Recombinant individuals	分子标记 Marker
重组单株 Recombinant individuals	D11-44	D11-63	DM-32	DM-23	DM-19	DM-22	DM-47	D11-86	D11-111	D11-241	DM-49	DM-21	DM-9
18-4	H	S	S	S	S	S	S	S	S	S	S	S	S
29-10	H	H	H	H	H	S	S	S	S	S	S	S	S
42-2	H	H	H	H	H	H	H	H	H	S	S	S	S
46-10	H	H	H	H	H	H	H	H	H	S	S	S	S
48-2	H	H	H	H	H	H	H	H	H	S	S	S	S
51-6	H	H	H	H	H	H	H	H	H	S	S	S	S
55-6	H	H	H	H	H	H	H	H	H	S	S	S	S
45-9	H	H	H	H	H	H	H	H	H	S	S	S	S
18-2	H	H	H	H	H	H	H	H	H	S	S	S	S
7-4	S	S	S	S	S	S	S	S	S	H	H	H	H
15-4	S	S	S	S	S	S	S	S	S	H	H	H	H
31-7	S	S	S	S	S	S	S	S	S	H	H	H	H
34-7	S	S	S	S	S	S	S	S	S	H	H	H	H
39-5	S	S	S	S	S	S	S	S	S	H	H	H	H
54-3	S	S	S	S	S	S	S	S	S	H	H	H	H
47-8	S	S	S	S	S	S	S	S	S	H	H	H	H
53-3	S	S	S	S	S	S	S	S	S	H	H	H	H
52-1	S	S	S	S	S	S	S	S	S	H	H	H	H
53-5	S	S	S	S	S	S	S	S	S	S	H	H	H
重组单株数Number	9	8	8	8	8	7	7	7	7	9	10	10	10