Identification and Stability Analysis of QTL for Grain Quality Traits Under Multiple Environments in Rice

doi:10.16819/j.1001-7216.2020.9052

Abstract

Abstract:

【Objective】Our aim is to explore new QTLs controlling rice quality and to use molecular breeding technology to improve rice quality.【Method】Using fragrant restorer line Changhui 121 as the background parent and high-quality japonica rice Koshihikari as the donor parent, a set of chromosome segment substitution lines(CSSLs) was constructed for QTL detection and stability analysis of rice quality traits in four environments.【Result】 A total of 44 QTLs were detected in four environments, six of which could be detected in multiple environments. There were multiple QTL clusters on chromosome 2, 3, 5, 6 and 10, which have obvious regulatory effects on rice quality. Seven QTLs on chromosomes 1, 6 and 12 can be expressed stably in different environments. 【Conclusion】 The qPGWC1 of chromosome 1 (RM3143-RM1117) and the qPaT12 of chromosome 12 (RM3331-RM5479) are two new stable QTL.

Key words: rice, ecological environment, rice quality traits, stability analysis

摘要：

【目的】挖掘新的稻米品质性状QTL并利用分子育种技术改良稻米品质。【方法】利用构建的一套以籼稻香型恢复系昌恢121为背景亲本,以优质粳稻越光为供体亲本的染色体片段代换系（CSSLs）为材料,在4个环境下对稻米品质性状进行QTL检测及稳定性分析。【结果】在4个环境下共检测到44个QTL,其中6个QTL能在多个环境下被检测到;第2、3、5、6和10染色体上存在多效QTL簇,对稻米品质性状具有明显的调控作用;第1、6和12染色体上7个QTL能在不同环境下稳定表达。【结论】第1染色体RM3143-RM1117区间qPGWC1和第12染色体RM3331-RM5479区间qPaT12是两个新的稳定表达QTL。

关键词: 水稻, 生态环境, 品质性状, 稳定性分析

CLC Number:

Xiaolei WANG, Yang LIU, Xiaotang SUN, Linjuan OUYANG, Jinlong PAN, Xiaosong PENG, Xiaorong CHEN, Xiaopeng HE, Junru FU, Jianmin BIAN, Lifang HU, Jie XU, Haohua HE, Changlan ZHU. Identification and Stability Analysis of QTL for Grain Quality Traits Under Multiple Environments in Rice[J]. Chinese Journal OF Rice Science, 2020, 34(1): 17-27.

王小雷, 刘杨, 孙晓棠, 欧阳林娟, 潘锦龙, 彭小松, 陈小荣, 贺晓鹏, 傅军如, 边建民, 胡丽芳, 徐杰, 贺浩华, 朱昌兰. 不同环境下稻米品质性状QTL的检测及稳定性分析[J]. 中国水稻科学, 2020, 34(1): 17-27.

Figures/Tables 7

References 33

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性状 Trait	环境 E	亲本 Parent
性状 Trait	环境 E	昌恢121 Changhui 121	越光 Koshihikari	变异范围 Range		平均±标准差 Mean±SD		峰度 Kurtosis		偏度 Skewness
垩白粒率PGWC/%	E₁	4.5±0.5	5.0±0.0	4.0~42.0	14.9±9.6		1.4		1.4
	E₂	2.5±0.5	3.0±1.0	0.5~49.0	6.2±8.1		13.8		3.5
	E₃	3.5±1.5	33.0±2.0	2.0~56.0	16.0±9.8		3.4		1.3
	E₄	7.0±0.5	6.0±1.0	4.0~41.0	15.8±7.8		1.2		1.1
胶稠度 GC/mm	E₁	30.0±2.0	51.5±0.5	24.5~66.0	36.0±9.8		2.4		1.7
	E₂	30.5±0.5	56.5±0.5	30.5~92.5	43.5±15.9		2.4		1.7
	E₃	55.5±1.5	82.5±1.5	34.0~87.5	57.4±13.3		-0.7		0.3
	E₄	32.5±1.5	67.5±1.5	31.5~100.0	59.3±19.0		-0.6		0.4
蛋白质含量PC/%	E₁	8.6±0.2	8.11±0.1	5.9~10.6	7.7±0.8		1.6		0.8
	E₂	8.9±0.1	8.98±0.1	6.4~10.1	8.5±0.8		0.8		0.7
	E₃	10.2±0.0	9.04±0.0	70~11.3	8.6±1.0		0.1		0.6
	E₄	7.1±0.0	7.44±0.0	5.6~7.9	6.5±0.5		0.2		0.7
最高黏度PKV/cP	E₁	4936.0±91.0	5718.0±29.0	3850.5~5922.0	4962.1±434.3		0.6		-0.3
	E₂	4972.0±24.0	4557.5±77.0	3193.5~6027.0	4387.6±536.1		0.7		0.7
	E₃	3900.0±22.0	4448.0±73.0	2567.0~4949.5	4152.1±336.9		8.0		-1.6
	E₄	4878.0±82.0	4944.5±48.5	4015.0~5194.5	4462.5±228.8		0.7		0.6
热浆黏度HPV/cP	E₁	3412.5±100.5	2321.5±56.5	2163.5~4098.5	3298.6±456.0		0.3		-1.1
	E₂	4136.5±54.5	2965.5±50.5	2637.5~4645.0	3485.9±431.3		0.1		0.2
	E₃	2784.0±86.0	1948.0±52.0	1592.5~3709.5	2807.3±428.7		1.6		-1.2
	E₄	3404.5±48.5	2818.5±55.5	2029.0~3589.0	3097.8±340.4		2.2		-1.5
崩解值BDV/cP	E₁	1523.5±103.5	3396.5±98.5	1037.0~3713.5	1663.5±620.4		3.5		2.1
	E₂	835.5±30.5	1592.0±27.0	298.0~3000.0	901.7±490.8		5.5		2.2
	E₃	1116.0±60.7	2500.0±17.0	700.5~2556.0	1344.8±354.2		2.7		1.4
	E₄	1473.5±75.5	2126.0±81.0	903.0~3165.5	1364.8±436.2		6.2		2.4
冷浆黏度CPV/cP	E₁	6664.0±34.5	3723.5±18.5	3351.0~7426.0	6008.0±1028.7		1.4		-1.5
	E₂	7332.5±4.5	4775.5±40.5	3963.0~8000.0	6459.8±951.6		0.4		-1.0
	E₃	5643.5±47.5	2901.5±6.5	2790.5~7454.5	5350.3±870.2		2.7		-1.5
	E₄	6222.0±35.0	4224.5±37.5	3254.0~6477.5	5641.7±773.1		3.1		-2.0
消减值SBV/cP	E₁	1728.0±36.0	-1994.5±97.5	-2505.0~2160.5	1045.9±1177.2		3.1		-2.1
	E₂	2360.5±28.5	218.0±37.0	-1765.0~3005.5	2072.3±982.7		4.6		-2.3
	E₃	1743.5±31.5	-1546.5±12.5	-1434.5~2505.0	1198.3±760.4		3.9		-2.1
	E₄	1344.0±42.0	-720.0±31.0	-1940.5~2189.5	1179.2±865.0		4.6		-2.3
回复值CSV/cP	E₁	3251.5±125.5	1402.0±20.0	1187.5~3546.5	2709.4±602.8		1.9		-1.7
	E₂	3196.0±59.0	1810.0±10.0	1235.0~3757.5	2973.9±584.8		1.5		-1.5
	E₃	2859.5±27.5	953.5±5.5	1121.5~3745.0	2543.1±545.3		1.0		-1.1
	E₄	2817.5±55.5	1406.0±28.0	1138.5~3460.0	2544.0±520.0		1.2		-1.2
成糊温度PaT/℃	E₁	72.4±0.3	74.6±0.7	68.1~76.0	71.8±1.5		1.3		0.3
	E₂	78.4±0.8	80.7±0.1	74.1~87.0	81.1±3.3		-0.6		-0.6
	E₃	70.6±0.1	76.8±0.3	70.0~76.4	72.1±1.2		1.2		0.9
	E₄	72.1±0.1	73.7±0.3	70.9~74.8	72.1±1.5		1.6		1.1
成糊时间PeT/min	E₁	5.9±0.1	5.7±0.1	5.5~6.2	5.9±0.1		1.4		-1.0
	E₂	6.1±0.0	6.0±0.0	5.7~6.4	6.0±0.1		0.4		0.2
	E₃	6.0±0.1	5.7±0.3	5.7~6.7	6.0±0.2		0.3		0.6
	E₄	6.0±0.2	6.2±0.1	5.6~6.4	6.1±0.2		-0.2		-0.2

性状 Trait	环境 E	亲本 Parent
性状 Trait	环境 E	昌恢121 Changhui 121	越光 Koshihikari	变异范围 Range		平均±标准差 Mean±SD		峰度 Kurtosis		偏度 Skewness
垩白粒率PGWC/%	E₁	4.5±0.5	5.0±0.0	4.0~42.0	14.9±9.6		1.4		1.4
	E₂	2.5±0.5	3.0±1.0	0.5~49.0	6.2±8.1		13.8		3.5
	E₃	3.5±1.5	33.0±2.0	2.0~56.0	16.0±9.8		3.4		1.3
	E₄	7.0±0.5	6.0±1.0	4.0~41.0	15.8±7.8		1.2		1.1
胶稠度 GC/mm	E₁	30.0±2.0	51.5±0.5	24.5~66.0	36.0±9.8		2.4		1.7
	E₂	30.5±0.5	56.5±0.5	30.5~92.5	43.5±15.9		2.4		1.7
	E₃	55.5±1.5	82.5±1.5	34.0~87.5	57.4±13.3		-0.7		0.3
	E₄	32.5±1.5	67.5±1.5	31.5~100.0	59.3±19.0		-0.6		0.4
蛋白质含量PC/%	E₁	8.6±0.2	8.11±0.1	5.9~10.6	7.7±0.8		1.6		0.8
	E₂	8.9±0.1	8.98±0.1	6.4~10.1	8.5±0.8		0.8		0.7
	E₃	10.2±0.0	9.04±0.0	70~11.3	8.6±1.0		0.1		0.6
	E₄	7.1±0.0	7.44±0.0	5.6~7.9	6.5±0.5		0.2		0.7
最高黏度PKV/cP	E₁	4936.0±91.0	5718.0±29.0	3850.5~5922.0	4962.1±434.3		0.6		-0.3
	E₂	4972.0±24.0	4557.5±77.0	3193.5~6027.0	4387.6±536.1		0.7		0.7
	E₃	3900.0±22.0	4448.0±73.0	2567.0~4949.5	4152.1±336.9		8.0		-1.6
	E₄	4878.0±82.0	4944.5±48.5	4015.0~5194.5	4462.5±228.8		0.7		0.6
热浆黏度HPV/cP	E₁	3412.5±100.5	2321.5±56.5	2163.5~4098.5	3298.6±456.0		0.3		-1.1
	E₂	4136.5±54.5	2965.5±50.5	2637.5~4645.0	3485.9±431.3		0.1		0.2
	E₃	2784.0±86.0	1948.0±52.0	1592.5~3709.5	2807.3±428.7		1.6		-1.2
	E₄	3404.5±48.5	2818.5±55.5	2029.0~3589.0	3097.8±340.4		2.2		-1.5
崩解值BDV/cP	E₁	1523.5±103.5	3396.5±98.5	1037.0~3713.5	1663.5±620.4		3.5		2.1
	E₂	835.5±30.5	1592.0±27.0	298.0~3000.0	901.7±490.8		5.5		2.2
	E₃	1116.0±60.7	2500.0±17.0	700.5~2556.0	1344.8±354.2		2.7		1.4
	E₄	1473.5±75.5	2126.0±81.0	903.0~3165.5	1364.8±436.2		6.2		2.4
冷浆黏度CPV/cP	E₁	6664.0±34.5	3723.5±18.5	3351.0~7426.0	6008.0±1028.7		1.4		-1.5
	E₂	7332.5±4.5	4775.5±40.5	3963.0~8000.0	6459.8±951.6		0.4		-1.0
	E₃	5643.5±47.5	2901.5±6.5	2790.5~7454.5	5350.3±870.2		2.7		-1.5
	E₄	6222.0±35.0	4224.5±37.5	3254.0~6477.5	5641.7±773.1		3.1		-2.0
消减值SBV/cP	E₁	1728.0±36.0	-1994.5±97.5	-2505.0~2160.5	1045.9±1177.2		3.1		-2.1
	E₂	2360.5±28.5	218.0±37.0	-1765.0~3005.5	2072.3±982.7		4.6		-2.3
	E₃	1743.5±31.5	-1546.5±12.5	-1434.5~2505.0	1198.3±760.4		3.9		-2.1
	E₄	1344.0±42.0	-720.0±31.0	-1940.5~2189.5	1179.2±865.0		4.6		-2.3
回复值CSV/cP	E₁	3251.5±125.5	1402.0±20.0	1187.5~3546.5	2709.4±602.8		1.9		-1.7
	E₂	3196.0±59.0	1810.0±10.0	1235.0~3757.5	2973.9±584.8		1.5		-1.5
	E₃	2859.5±27.5	953.5±5.5	1121.5~3745.0	2543.1±545.3		1.0		-1.1
	E₄	2817.5±55.5	1406.0±28.0	1138.5~3460.0	2544.0±520.0		1.2		-1.2
成糊温度PaT/℃	E₁	72.4±0.3	74.6±0.7	68.1~76.0	71.8±1.5		1.3		0.3
	E₂	78.4±0.8	80.7±0.1	74.1~87.0	81.1±3.3		-0.6		-0.6
	E₃	70.6±0.1	76.8±0.3	70.0~76.4	72.1±1.2		1.2		0.9
	E₄	72.1±0.1	73.7±0.3	70.9~74.8	72.1±1.5		1.6		1.1
成糊时间PeT/min	E₁	5.9±0.1	5.7±0.1	5.5~6.2	5.9±0.1		1.4		-1.0
	E₂	6.1±0.0	6.0±0.0	5.7~6.4	6.0±0.1		0.4		0.2
	E₃	6.0±0.1	5.7±0.3	5.7~6.7	6.0±0.2		0.3		0.6
	E₄	6.0±0.2	6.2±0.1	5.6~6.4	6.1±0.2		-0.2		-0.2

性状Trait	环境E		性状Trait
性状Trait	环境E		PGWC	GC	PC	PKV	HPV	BDV	CPV	SBV	CSV	PaT
GC	E₁	0.08
	E₂	0.11
	E₃	0.05
	E₄	–0.14
PC	E₁	–0.08		–0.13
	E₂	–0.31*		–0.00
	E₃	–0.42**		–0.29*
	E₄	–0.18		–0.05
PKV	E₁	–0.18		0.27*	–0.21
	E₂	0.23		0.25	–0.76**
	E₃	0.02		0.19	–0.31*
	E₄	–0.07		0.37**	–0.03
HPV	E₁	–0.04		–0.48**	–0.08	0.03
	E₂	–0.23		–0.48**	–0.46**	0.50**
	E₃	0.25		–0.27*	–0.28*	0.55**
	E₄	0.16		–0.35**	–0.08	–0.14
BDV	E₁	–0.09		0.54**	–0.09	0.68**	–0.71**
	E₂	0.45**		0.70**	–0.43**	0.65**	–0.33*
	E₃	–0.27*		0.48**	0.04	0.26	–0.66**
	E₄	–0.16		0.47**	0.05	0.64**	–0.86**
CPV	E₁	–0.04		–0.50**	–0.05	–0.16	0.96**	–0.82**
	E₂	–0.34**		–0.62**	–0.33**	0.22	0.91**	–0.56**
	E₃	0.17		–0.41**	–0.15	0.44**	0.85**	–0.59**
	E₄	–0.03		–0.47**	–0.05	–0.28*	0.84**	–0.80**
SBV	E₁	0.03		–0.54**	0.03	–0.51**	0.83**	–0.96**	0.93**
	E₂	–0.45**		–0.74**	0.10	–0.33**	0.61**	–0.90**	0.85**
	E₃	0.19		–0.54**	–0.04	0.06	0.71**	–0.77**	0.92**
	E₄	–0.01		–0.51**	–0.04	–0.51**	0.79**	–0.89**	0.97**
CSV	E₁	–0.04		–0.49**	–0.03	–0.29*	0.89**	–0.85**	0.98**	0.96**
	E₂	–0.38**		–0.65**	–0.19	–0.01	0.75**	–0.67**	0.95**	0.93**
	E₃	0.08		–0.43**	–0.03	0.26	0.55**	–0.41**	0.91**	0.90**
	E₄	–0.15		–0.46**	–0.03	–0.32*	0.60**	–0.63**	0.94**	0.92**
PaT	E₁	–0.18		0.16	0.48**	0.16	–0.54**	0.51**	–0.57**	–0.55**	–0.56**
	E₂	–0.29*		–0.11	0.76**	–0.89**	–0.45**	–0.58**	–0.26*	0.23	–0.09
	E₃	–0.05		–0.18	0.27*	–0.42**	–0.40**	0.09	–0.43**	–0.30*	–0.36**
	E₄	–0.19		–0.01	0.44**	–0.14	–0.32**	0.18	–0.23	–0.17	–0.14
PeT	E₁	0.18		–0.37**	0.14	–0.38**	0.67**	–0.76**	0.66**	0.71**	0.61**	–0.30*
	E₂	–0.18		–0.51**	0.48**	–0.44**	0.21	–0.67**	0.24	0.47**	0.24	0.49**
	E₃	0.21		–0.10	–0.13	–0.06	0.55**	–0.69**	0.17	0.21	–0.17	0.05
	E₄	0.37**		–0.18	–0.04	–0.32*	0.64**	–0.67**	0.23	0.29*	–0.07	–0.05

性状Trait	环境E		性状Trait
性状Trait	环境E		PGWC	GC	PC	PKV	HPV	BDV	CPV	SBV	CSV	PaT
GC	E₁	0.08
	E₂	0.11
	E₃	0.05
	E₄	–0.14
PC	E₁	–0.08		–0.13
	E₂	–0.31*		–0.00
	E₃	–0.42**		–0.29*
	E₄	–0.18		–0.05
PKV	E₁	–0.18		0.27*	–0.21
	E₂	0.23		0.25	–0.76**
	E₃	0.02		0.19	–0.31*
	E₄	–0.07		0.37**	–0.03
HPV	E₁	–0.04		–0.48**	–0.08	0.03
	E₂	–0.23		–0.48**	–0.46**	0.50**
	E₃	0.25		–0.27*	–0.28*	0.55**
	E₄	0.16		–0.35**	–0.08	–0.14
BDV	E₁	–0.09		0.54**	–0.09	0.68**	–0.71**
	E₂	0.45**		0.70**	–0.43**	0.65**	–0.33*
	E₃	–0.27*		0.48**	0.04	0.26	–0.66**
	E₄	–0.16		0.47**	0.05	0.64**	–0.86**
CPV	E₁	–0.04		–0.50**	–0.05	–0.16	0.96**	–0.82**
	E₂	–0.34**		–0.62**	–0.33**	0.22	0.91**	–0.56**
	E₃	0.17		–0.41**	–0.15	0.44**	0.85**	–0.59**
	E₄	–0.03		–0.47**	–0.05	–0.28*	0.84**	–0.80**
SBV	E₁	0.03		–0.54**	0.03	–0.51**	0.83**	–0.96**	0.93**
	E₂	–0.45**		–0.74**	0.10	–0.33**	0.61**	–0.90**	0.85**
	E₃	0.19		–0.54**	–0.04	0.06	0.71**	–0.77**	0.92**
	E₄	–0.01		–0.51**	–0.04	–0.51**	0.79**	–0.89**	0.97**
CSV	E₁	–0.04		–0.49**	–0.03	–0.29*	0.89**	–0.85**	0.98**	0.96**
	E₂	–0.38**		–0.65**	–0.19	–0.01	0.75**	–0.67**	0.95**	0.93**
	E₃	0.08		–0.43**	–0.03	0.26	0.55**	–0.41**	0.91**	0.90**
	E₄	–0.15		–0.46**	–0.03	–0.32*	0.60**	–0.63**	0.94**	0.92**
PaT	E₁	–0.18		0.16	0.48**	0.16	–0.54**	0.51**	–0.57**	–0.55**	–0.56**
	E₂	–0.29*		–0.11	0.76**	–0.89**	–0.45**	–0.58**	–0.26*	0.23	–0.09
	E₃	–0.05		–0.18	0.27*	–0.42**	–0.40**	0.09	–0.43**	–0.30*	–0.36**
	E₄	–0.19		–0.01	0.44**	–0.14	–0.32**	0.18	–0.23	–0.17	–0.14
PeT	E₁	0.18		–0.37**	0.14	–0.38**	0.67**	–0.76**	0.66**	0.71**	0.61**	–0.30*
	E₂	–0.18		–0.51**	0.48**	–0.44**	0.21	–0.67**	0.24	0.47**	0.24	0.49**
	E₃	0.21		–0.10	–0.13	–0.06	0.55**	–0.69**	0.17	0.21	–0.17	0.05
	E₄	0.37**		–0.18	–0.04	–0.32*	0.64**	–0.67**	0.23	0.29*	–0.07	–0.05

位点 QTL	区间 Marker interval	LOD值LOD value				贡献率PVE/%				加性效应Additive effect
位点 QTL	区间 Marker interval	E₁	E₂	E₃	E₄	E₁	E₂	E₃	E₄	E₁	E₂	E₃	E₄
qPGWC1	RM3143-RM1117	5.02	10.45	4.40		29.34	57.67	30.84		18.40	13.34	20.36
qPGWC2	RM5529-RM7581				4.27				16.61				4.58
qPGWC5	RM3345-RM17954				2.93				10.99				8.89
qPGWC6	RM7088-RM7311	3.54				19.27				10.65
qGC5	RM3345-RM17954	6.54				34.67				15.72
qGC6.1	RM1369-RM510		6.76		5.64		41.02		25.07		15.78		13.60
qGC6.2	RM510-RM1163			2.99				22.48				10.86
qGC9	STS-P0692F07- STS-OJ1001_G09	3.48				16.05				6.97
qPC10.1	RM6737-RM25923		2.71				19.04				﹣0.59
qPC10.2	RM25923-RM271				2.76				13.15				0.28