基于辣椒种间杂交F2群体的遗传连锁图谱构建及主要果实性状QTL定位

doi:10.6048/j.issn.1001-4330.2023.05.014

新疆农业科学 ›› 2023, Vol. 60 ›› Issue (5): 1150-1161.DOI: 10.6048/j.issn.1001-4330.2023.05.014

• 园艺特产·贮藏保鲜加工·植物保护 • 上一篇下一篇

基于辣椒种间杂交F₂群体的遗传连锁图谱构建及主要果实性状QTL定位

袁雷¹^,²(), 唐亚萍², 张国儒², 吉雪花¹(), 杨生保²()

1.石河子大学农学院/特色果蔬栽培生理与种质资源利用兵团重点实验室,新疆石河子 832003
2.新疆农业科学院园艺作物研究所, 乌鲁木齐 830091

收稿日期:2022-09-03 出版日期:2023-05-20 发布日期:2023-05-22
通信作者: 吉雪花(1977 -),女,新疆石河子人,教授,研究方向为蔬菜栽培与育种,(E-mail)lilysnowjxh@163.com;
杨生保(1980 -),男,新疆米泉人,研究员,研究方向为蔬菜遗传育种,(E-mail ) ysb.jack@163.com
作者简介:袁雷(1998 -),男,四川平昌人,硕士研究生,研究方向为蔬菜育种,(E-mail ) 2273747884@qq.com
基金资助:
国家自然科学基金项目(32060676);国家自然科学基金项目(31860548);国家自然科学基金项目(32060680);国家现代农业产业技术体系建设专项资金项目(CARS-24-G-29)

Construction of genetic linkage map and QTL localization of fruit major traits based on interspecific hybrid F₂ population of pepper

YUAN Lei¹^,²(), TANG Yaping², ZHANG Guoru², JI Xuehua¹(), YANG Shengbao²()

1. College of Agriculture, Shihezi University/Xinjiang Production and Construction Corps Key Laboratory of Special Fruits and Vegetables Cultivation Physiology and Germplasm Resources Utilization,Shihezi Xinjiang 832003,China
2. Institute of Horticulture, Xinjiang Academy of Agricultural Sciences, Urumqi 830091,China

Received:2022-09-03 Published:2023-05-20 Online:2023-05-22
Supported by:
National Natural Science Foundation of China(32060676);National Natural Science Foundation of China(31860548);National Natural Science Foundation of China(32060680);China Agriculture Research System(CARS-24-G-29)

摘要/Abstract

摘要：

【目的】研究辣椒果实主要性状关键基因,为挖掘辣椒果实功能基因和新品种选育提供参考。【方法】以ZL-280(C.chinense)和GB-35(C.annuum)杂交获得的F₂代群体为材料,构建辣椒种间遗传图谱,采用复合区间作图法(CIM)果实主要性状进行QTL分析。【结果】构建了一张包含12个连锁群,总图距为1 233.87 cM,标记间平均遗传距离为0.59 cM的辣椒高密度种间遗传图谱。共计检测到与色价关联的3个QTL位点,分别为位于第2、4和5条染色体上的cv.2.1、cv.4.1和cv.5.1,贡献率分别为8.58%,10.66%,12.44%;检测到与辣椒红素关联的2个QTL位点,分别为位于第2、5号染色体上的c.2.1和c.5.1,贡献率分别为7.14%和11.40%;检测到与辣椒素关联的3个QTL位点,分别位于第1、2和8号染色体上的cap.1.1、cap.2.1、和cap.8.1,贡献率为13.00%,、18.95%、13.29%;与果实纵径关联的QTL位点有3个,分别为位于第2、4号染色体上的fl.2.1、fl.2.2和fl.4.1,贡献率为6.18%、4.71%和4.01%;与果实横径关联的QTL位点1个,位于第6号染色体上的fd.6.1,贡献率为10.07%;检测到与胎座大小关联的QTL位点2个,分别为位于第2号和第7号染色体上的ps.2.1和ps.7.1,贡献率为4.55%和5.35%;1个与果肉厚关联的QTL位点,为位于第11号染色体上的pt.11.1,贡献率为1.64%;检测到与单果重关联的QTL位点1个,位于第7号染色体上sfw.7.1,贡献率为4.33%。【结论】构建了一张高密度辣椒种间遗传图谱,检测到16个与辣椒果实主要性状关联的QTLs位点,贡献率范围为1.64%~18.95%。

关键词: 辣椒; 果实性状; 遗传连锁图谱; QTL定位

Abstract:

【Objective】 The mining of key genes for the main traits of pepper fruit is of great significance for promoting the innovation of pepper germplasm and the selection and breeding of new varieties.【Methods】 In this study, the F₂generation population obtained by the hybridization of ZL-280 (C.chinense) and GB-35(C.annuum) was used as the material to construct the interspecific genetic map of pepper, and the main traits of the fruit were analyzed by composite interval mapping (CIM).【Results】 A high-density interspecific genetic map of pepper containing 12 linkage groups with a total distance of 1,233.87 cM and an average genetic distance between markers of 0.59 cM was constructed.Through joint data analysis, a total of three QTL sites associated with color valence were detected, namely cv.2.1, cv.4.1 and cv.5.1 located on chromosomes 2nd, 4th and 5th, with contribution rates of 8.58%, 10.66% and 12.44%, respectively.Two QTL sites associated with capsaicin were detected, c.2.1 and c.5.1 on chromosomes 2 and 5, with contribution rates of 7.14% and 11.40%, respectively.Three QTL sites associated with capsaicin were detected, cap.1.1, cap.2.1 and cap.8.1 located on chromosomes 1, 2 and 8, respectively, with a contribution rate of 13.00%, 18.95% and 13.29%.There were three QTL sites associated with the longitudinal diameter of the fruit, namely fl.2.1, fl.2.2 and fl.4.1 on chromosomes 2 and 4, with a contribution rate between 6.18%, 4.71% and 4.01%.There was 1 QTL site associated with the transverse diameter of the fruit, located on fd.6.1 on chromosome 6, with a contribution rate of 10.07%; Two QTL sites associated with placenta size were detected, respectively, ps.2.1 and ps.7.1 located on chromosomes 2 and 7, with contribution rates of 4.55% and 5.35%; One QTL site associated with thick pulp was pt.11.1 located on chromosome 11, with a contribution rate of 1.64%; One QTL site associated with single fruit reassociation was detected, sfw.7.1 located on chromosome 7, with a contribution rate of 4.33%.【Conclusion】 In this study, an interspecific genetic map of high-density pepper was constructed, and 16 QTLs sites associated with the main traits of pepper fruit were detected, and the contribution rate ranged from 1.64%~18.95%.

Key words: pepper; fruit traits; genetic linkage map; QTL localization

中图分类号:

S641.3

袁雷, 唐亚萍, 张国儒, 吉雪花, 杨生保. 基于辣椒种间杂交F₂群体的遗传连锁图谱构建及主要果实性状QTL定位[J]. 新疆农业科学, 2023, 60(5): 1150-1161.

YUAN Lei, TANG Yaping, ZHANG Guoru, JI Xuehua, YANG Shengbao. Construction of genetic linkage map and QTL localization of fruit major traits based on interspecific hybrid F₂ population of pepper[J]. Xinjiang Agricultural Sciences, 2023, 60(5): 1150-1161.

图/表 10

参考文献 34

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材料编号 Material number	种名 Species Type	色价 Color value	辣椒红素含量 Capsanthin (mg/g)	辣椒素 Capsaicin (mg/g)	果实纵径 Fruit length (cm)	果实横径 Fruit diameter (cm)	胎座大小 Placenta size (cm)	果肉厚 Pulp thickness (mm)	单果重 Single fruit weight (g)
GB-35	一年生栽培种	13.63	3.88	1.28	16.975	1.461	3.220	0.160	27.38
ZL-280	中国种辣椒	4.6	1.60	37.26	4.670	2.590	2.610	0.210	6.3

材料编号 Material number	种名 Species Type	色价 Color value	辣椒红素含量 Capsanthin (mg/g)	辣椒素 Capsaicin (mg/g)	果实纵径 Fruit length (cm)	果实横径 Fruit diameter (cm)	胎座大小 Placenta size (cm)	果肉厚 Pulp thickness (mm)	单果重 Single fruit weight (g)
GB-35	一年生栽培种	13.63	3.88	1.28	16.975	1.461	3.220	0.160	27.38
ZL-280	中国种辣椒	4.6	1.60	37.26	4.670	2.590	2.610	0.210	6.3

指标 Index	最大值 Max.	最小值 Min.	均值 Mean	标准差 SD	变异幅度 Variation range	变异系数 CV(%)
色价Color value	25.94	5.08	12.40	3.53	20.86	28.45
辣椒红素Capsanthin(mg/g)	4.71	1.49	3.20	1.21	4.28	12.35
辣椒素Capsaicin(mg/g)	18.21	0.47	5.29	3.05	17.74	57.66
果实纵径Fruit length(cm)	24.94	2.35	11.11	3.27	22.59	29.39
果实横径Fruit diameter(cm)	2.99	1.08	1.68	0.35	1.91	20.58
胎座大小Placenta size(cm)	1.68	0.15	0.60	0.19	1.53	31.53
果肉厚Pulp thickness(cm)	0.52	0.10	0.18	0.05	0.42	26.94
单果重Single fruit weight(g)	23.95	2.52	9.36	3.44	21.43	36.74

指标 Index	最大值 Max.	最小值 Min.	均值 Mean	标准差 SD	变异幅度 Variation range	变异系数 CV(%)
色价Color value	25.94	5.08	12.40	3.53	20.86	28.45
辣椒红素Capsanthin(mg/g)	4.71	1.49	3.20	1.21	4.28	12.35
辣椒素Capsaicin(mg/g)	18.21	0.47	5.29	3.05	17.74	57.66
果实纵径Fruit length(cm)	24.94	2.35	11.11	3.27	22.59	29.39
果实横径Fruit diameter(cm)	2.99	1.08	1.68	0.35	1.91	20.58
胎座大小Placenta size(cm)	1.68	0.15	0.60	0.19	1.53	31.53
果肉厚Pulp thickness(cm)	0.52	0.10	0.18	0.05	0.42	26.94
单果重Single fruit weight(g)	23.95	2.52	9.36	3.44	21.43	36.74

样本名称 Sample ID	序列数 Reads	碱基数 Base	Q30 (%)	GC (%)
GB-35	16 303 373	3 253 979 334	96.43	39.51
ZL-280	16 067 790	3 206 054 408	96.39	40.11
F₂代	6 969 044	1 392 101 632	96.10	39.08
总量 Total	1 593 436 940	318 290 799 252	96.11	39.43
对照 Control	5 483 107	1 094 703 458	95.71	45.30

基于辣椒种间杂交F₂群体的遗传连锁图谱构建及主要果实性状QTL定位

Construction of genetic linkage map and QTL localization of fruit major traits based on interspecific hybrid F₂ population of pepper

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Metrics

样本名称 Sample ID	SLAF 标签数量 SLAF Number	总测序 Reads total sequencing reads	平均测序深度(X) Average Depth(X)
GB-35	400 845	8 644 580	21.57
ZL-280	611 934	11 403 236	18.63
F₂代	366 973	4 495 732	12.25
平均 Average	459 917	8 181 183	17.48

连锁群 LG	标记数 Number of markers	Gaps≤5 (%)	秩相关系数 Spearman	最大Gap Max Gap	图谱长度 Total distance (cM)	平均间距 Average distance (cM)	双交换的位点比例 Singleton percent (100%)
1	222	100	0.996	2.32	100.16	0.45	0.02
2	164	100	0.999	2.59	101.31	0.62	0.02
3	265	100	0.998	1.83	100.96	0.38	0.00
4	199	100	0.998	2.96	103.52	0.52	0.00
5	156	100	0.997	2.53	116.01	0.75	0.01
6	164	100	0.999	3.06	104.47	0.64	0.00
7	113	100	0.993	3.71	121.26	1.08	0.00
8	94	98.92	0.996	5.24	103.87	1.12	0.02
9	149	100	0.987	2.64	94.19	0.64	0.00
10	125	100	0.995	3.55	85.13	0.69	0.01
11	266	100	0.998	3.26	102.91	0.39	0.01
12	169	100	0.999	3.36	100.08	0.60	0.02
共计Total	2 086	99.91	0.996	3.09	1 233.87	0.59	0.01

指标 Index	QTL位点 QTL position	LOD阈值 LOD threshold	连锁群 LG	起始位点 Start (cM)	基因组位置 Position	结束位点 End (cM)	基因组位置 Position	峰值 Max LOD	加性效应 ADD	显性效应 DOM	贡献率 PVE (%)
色价 Color value	cv.2.1	3.0	2	Marker 9 652 902 (82.581)	195 194 879	Marker 2 589 832 (83.251)	213 996 356	5.06	1.352	-0.875	8.58
	cv.4.1	3.0	4	Marker 2 873 477 (46.535)	65 631 429	Marker 2 589 832 (46.758)	69 589 432	5.09	-1.599	-0.209	10.66
	cv.5.1	3.0	5	Marker 3 537 264 (31.600)	66 285 587	Marker 3 232 947 (32.947)	72 301 706	4.10	-1.412	-1.355	12.44
辣椒红素 Capsanthin	c.2.1	3.0	2	Marker 10 061 436 (11.484)	32 103 356	Marker 9 844 177 (12.198)	48 592 505	4.185	-3.561	2.233	11.40
辣椒红素 Capsanthin	c.5.1	3.0	4	Marker 3 194 756 (35.728)	72 364 437	Marker 3 103 989 (37.838)	94 768 342	3.451	-2.795	-1.380	7.14
辣椒素 Capsaicin	cap.1.1	3.0	1	Marker 399 630 (46.456)	50 542 715	Marker 609 519 (46.953)	53 887 436	3.180	7.07	1.98	13.00
	cap.2.1	3.0	2	Marker 9 879 715 (95.401)	196 431 135	Marker 9 757 022 (96.562)	215 833 374	9.095	1.73	-5.12	18.95
	cap.8.1	3.0	8	Marker 1 914 310 (62.236)	95 346 742	Marker 2 064 050 (66.653)	109 634 672	5.861	-1..52	-0.43	13.29
果实纵径 Fruit length	fl.2.1	3.0	2	Marker 9 857 612 (0.000)	3 298 310	Marker 10 129 245 (2.545)	11 043 459	3.448	-0.320	-1.497	6.18
	fl.2.2	3.0	2	Marker 9 820 290 (5.537)	16 846 366	Marker 9 926 410 (101.305)	163 421 125	5.097	0.214	-1.372	4.71
	fl.4.1	3.0	4	Marker 2 298 759 (0.000)	2 303 297	Marker 2 497 697 (103.517)	214 194 288	4.169	-0.474	-1.048	4.01
果实横径 Fruit diameter	fd.6.1	7.879	6	Marker 5 677 357 (1.078)	20 106 539	Marker 5 780 574 (1.078)	20 160 568	8.508	0.128	-0.118	10.07
胎座大小 Placenta size	ps.2.1	3.0	2	Marker 10 002 907 (85.496)	216 432 137	Marker 9 874 093 (87.148)	265 463 374	4.165	0.055	-0.020	4.55
胎座大小 Placenta size	ps.7.1	3.0	7	Marker 4 635 519 (29.078)	159 363 433	Marker 4 833 869 (29.391)	159 487 524	4.903	-0.060	-0.011	5.35
果肉厚 Pulp thickness	pt.11.1	3.0	11	Marker 8 413 604 (10.153)	15 070 036	Marker 8 138 146 (10.822)	17 555 138	9.341	-0.008	-0.006	1.64
单果重 Single fruit weight	sfw.7.1	2.50	7	Marker 4 867 431 (115.364)	214 736 276	Marker 4 689 183 (115.587)	214 880 551	2.683	0.985	-0.584	4.33

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