大豆巢式关联作图(NAM)群体构建及花色和种皮色遗传分析

doi:10.3724/SP.J.1006.2024.34094

Acta Agronomica Sinica ›› 2024, Vol. 50 ›› Issue (3): 556-575.doi: 10.3724/SP.J.1006.2024.34094

• CROP GENETICS & BREEDINGZ·GERMPLASM RESOURCES·MOLECULAR GENETICS • Previous Articles Next Articles

Genetic analysis of seed coat and flower color based on a soybean nested association mapping population

SONG Jian¹^,⁶(), XIONG Ya-Jun¹^,⁶, CHEN Yi-Jie¹^,⁶, XU Rui-Xin², LIU Kang-Lin¹, GUO Qing-Yuan¹, HONG Hui-Long², GAO Hua-Wei², GU Yong-Zhe², ZHANG Li-Juan², GUO Yong², YAN Zhe², LIU Zhang-Xiong², GUAN Rong-Xia², LI Ying-Hui², WANG Xiao-Bo³, GUO Bing-Fu⁴, SUN Ru-Jian⁵, YAN Long⁷, WANG Hao-Rang⁸, JI Yue-Mei⁹, CHANG Ru-Zhen², WANG Jun¹^,⁶^,^*(), QIU Li-Juan²^,^*()

¹Yangtze University, Jingzhou 434025, Hubei, China
²National Key Facility for Gene Resources and Genetic Improvement / Beijing Key Laboratory of Soybean Biology, Ministry of Agriculture and Rural Affairs / Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China
³College of Agriculture, Anhui Agricultural University, Hefei 230036, Anhui, China
⁴Crops Research Institute, Jiangxi Academy of Agricultural Sciences, Nanchang 330200, Jiangxi, China
⁵Hulun Buir Institution of Agricultural Sciences, Hulun Buir 162650, Nei Mongol, China
⁶MARA Key Laboratory of Sustainable Crop Production in the Middle Reaches of the Yangtze River (Co-construction by Ministry and Province) / College of Agriculture, Yangtze University, Jingzhou 434025, Hubei, China
⁷Institute of Cereal and Oil Crops, Hebei Academy of Agricultural and Forestry Sciences, Shijiazhuang 050035, Hebei, China
⁸Jiangsu Xuhuai Regional Institute of Agricultural Sciences, Xuzhou 210031, Jiangsu, China
⁹Ningxia Academy of Agricultural and Forestry Sciences, Yinchuan 750021, Ningxia, China

Received:2023-06-07 Accepted:2023-09-13 Online:2024-03-12 Published:2023-10-07
Contact: *E-mail: qiulijuan@caas.cn; E-mail: wangjagri@yangtzeu.edu.cn
About author:
**Contributed equally to this work
Supported by:
Agricultural Science and Technology Innovation Program of Chinese Academy of Agricultural Sciences(ASTIP);Key Science and Technology Project of Yunnan(202202AE090014)

Abstract

Abstract:

Nested Association Mapping (NAM) population is widely applied in genetic study and breeding practice in many crops. A NAM panel was constructed by crossing of 35 parental lines with the common maternal lines (Zhongdou 41) based on previous evaluation of soybean germplasm. Principle component analysis and clustering analysis showed that clear genetic structure was observed between subpanel of RIL populations. Genetic analysis was performed on flower color and seed coat color in NAM subpanel with significant difference between paternal and maternal parents, and we found that qFC13-1 was significantly associated with flower color, which coincided with the W1 locus. Twelve loci identified were significantly correlated with seed coat color, among which nine loci were co-located by more than three methods, and the other three loci were co-located by two methods, including four reported loci and eight novel loci. In conclusion, NAM population was suitable for genetic analysis of soybean, which provided material basis for genetic interpretation and breeding practice for complex traits in soybean.

Key words: soybean, NAM population, flower color, seed coat color, genetic analysis

SONG Jian, XIONG Ya-Jun, CHEN Yi-Jie, XU Rui-Xin, LIU Kang-Lin, GUO Qing-Yuan, HONG Hui-Long, GAO Hua-Wei, GU Yong-Zhe, ZHANG Li-Juan, GUO Yong, YAN Zhe, LIU Zhang-Xiong, GUAN Rong-Xia, LI Ying-Hui, WANG Xiao-Bo, GUO Bing-Fu, SUN Ru-Jian, YAN Long, WANG Hao-Rang, JI Yue-Mei, CHANG Ru-Zhen, WANG Jun, QIU Li-Juan. Genetic analysis of seed coat and flower color based on a soybean nested association mapping population[J].Acta Agronomica Sinica, 2024, 50(3): 556-575.

Figures/Tables 11

Table 1

Basic information of NAM parents"

群体编号 Population number	亲本名称 Parental name	系统编号 Systematic code	亲本类型 Parent type	来源地 Geographic origination	种质类型 Germ type	生态类型 Ecological type	种皮色 SSC	花色 FC	百粒重 100-SW (g)	蛋白 PC (%)	脂肪 OC (%)	蛋白脂肪和 POC (%)	群体大小	鉴定株系
群体编号 Population number	亲本名称 Parental name	系统编号 Systematic code	亲本类型 Parent type	来源地 Geographic origination	种质类型 Germ type	生态类型 Ecological type	种皮色 SSC	花色 FC	百粒重 100-SW (g)	蛋白 PC (%)	脂肪 OC (%)	蛋白脂肪和 POC (%)	Population size	Genotyped Individuals
N001	羊眼豆 Yangyandou	ZDD17457	父本	云南	地方品种	南方夏	暗绿	白	14.1	43.6	16.1	59.6	524	72
N001	羊眼豆 Yangyandou	ZDD17457	Male parent	Yunnan	Landrace	SSu	Dark green	White	14.1	43.6	16.1	59.6	524	72
N002	夏黑豆	ZDD02400	父本	山西	地方品种	黄淮夏	黑	紫	10	43.5	19.2	62.7	171	72
N002	Xiaheidou	ZDD02400	Male parent	Shanxi	Landrace	HHSu	Black	Purple	10	43.5	19.2	62.7	171	72
N003	柘城小红豆 Zhechengxiaohongdou	ZDD03533	父本	河南	地方品种	黄淮夏	褐	紫	9.8	43.9	17.5	61.4	387	72
N003	柘城小红豆 Zhechengxiaohongdou	ZDD03533	Male parent	Henan	Landrace	HHSu	Brown	Purple	9.8	43.9	17.5	61.4	387	72
N004	邳县四粒糙 Pixiansilicao	ZDD03741	父本	江苏	地方品种	黄淮春	黄	紫	14.2	46	17.8	63.8	333	72
N004	邳县四粒糙 Pixiansilicao	ZDD03741	Male parent	Jiangsu	Landrace	HHSp	Yellow	Purple	14.2	46	17.8	63.8	333	72
N005	东农36号	ZDD06851	父本	黑龙江	选育品种	北方春	黄	紫	18.3	42	20.1	62.2	135	72
N005	Dongnong 36	ZDD06851	Male parent	Heilongjiang	Cultivar	NSp	Yellow	Purple	18.3	42	20.1	62.2	135	72
N006	莆豆451	ZDD14125	父本	福建	选育品种	南方夏	黄	白	16.6	41.9	18.8	60.7	216	72
N006	Pudou 451	ZDD14125	Male parent	Fujian	Cultivar	SSu	Yellow	White	16.6	41.9	18.8	60.7	216	72
N007	下台子磨石豆	ZDD18524	父本	河北	地方品种	黄淮夏	褐	紫	9.7	44.9	16.5	61.5	206	72
N007	Xiataizimoshidou	ZDD18524	Male parent	Hebei	Landrace	HHSu	Brown	Purple	9.7	44.9	16.5	61.5	206	72
N008	东山69	ZDD18870	父本	福建	选育品种	黄淮夏	黄	紫	13.3	42.1	21.4	63.5	336	72
N008	Dongshan 69	ZDD18870	Male parent	Fujian	Cultivar	HHSu	Yellow	Purple	13.3	42.1	21.4	63.5	336	72
N009	商951099	ZDD23269	父本	河南	选育品种Cultivar	黄淮夏	黄	紫	15.5	42.1	20.9	63.1	44	44
N009	Shang 951099	ZDD23269	Male parent	Henan	选育品种Cultivar	HHSu	Yellow	Purple	15.5	42.1	20.9	63.1	44	44
N010	郑92116	ZDD23277	父本	河南	选育品种	黄淮夏	黄	紫	19.2	45.2	18.7	63.9	132	72
N010	Zheng 92116	ZDD23277	Male parent	Henan	Cultivar	HHSu	Yellow	Purple	19.2	45.2	18.7	63.9	132	72
N011	中豆24	ZDD11581	父本	湖北	选育品种	南方夏	黄	白	14.3	48.2	16.4	64.6	170	72
N011	Zhongdou 24	ZDD11581	Male parent	Hubei	Cultivar	SSu	Yellow	White	14.3	48.2	16.4	64.6	170	72
N012	吉育202	ZDD30837	父本	吉林	选育品种	北方春	黄	白	17.2	38	21.9	59.9	87	64
N012	Jiyu 202	ZDD30837	Male parent	Jilin	Cultivar	NSp	Yellow	White	17.2	38	21.9	59.9	87	64
N013	牛毛黄	ZDD03603	父本	陕西	地方品种	黄淮夏	黄	紫	15.4	42.6	20.6	63.2	201	72
N013	Niumaohuang	ZDD03603	Male parent	Shaanxi	Landrace	HHSu	Yellow	Purple	15.4	42.6	20.6	63.2	201	72
N014	信阳羊眼豆	ZDD03570	父本	河南	地方品种	黄淮夏	虎斑	白	13.5	43.4	19.4	62.9	97	72
N014	Xinyangyangyandou	ZDD03570	Male parent	Henan	Landrace	HHSu	Bicolor	White	13.5	43.4	19.4	62.9	97	72
N015	淮阴春豆	ZDD03776	父本	江苏	选育品种Cultivar	黄淮春	黄	紫	17	46.6	16.1	62.7	356	72
N015	Huaiyinchundou	ZDD03776	Male parent	Jiangsu	选育品种Cultivar	HHSp	Yellow	Purple	17	46.6	16.1	62.7	356	72
N016	皂角豆	ZDD15624	父本	贵州	地方品种	南方夏	褐	白	18.6	42.1	21.2	63.3	198	72
N016	Zaojiaodou	ZDD15624	Male parent	Guizhou	Landrace	SSu	Brown	White	18.6	42.1	21.2	63.3	198	72
N017	科丰1号	ZDD18394	父本	北京	选育品种	黄淮夏	黑	白	9.3	45.3	17.3	62.6	91	72
N017	Kefeng 1	ZDD18394	Male parent	Beijing	Cultivar	HHSu	Black	White	9.3	45.3	17.3	62.6	91	72
N018	冀豆7	ZDD18632	父本	河北	选育品种	黄淮夏	黄	紫	19.5	43.2	19.3	62.5	91	72
N018	Jidou 7	ZDD18632	Male parent	Hebei	Cultivar	HHSu	Yellow	Purple	19.5	43.2	19.3	62.5	91	72
N019	高作选1号	ZDD19381	父本	山东	选育品种	黄淮夏	黄	紫	11.7	42.9	20.2	63.1	100	72
N019	Gaozuoxuan 1	ZDD19381	Male parent	Shandong	Cultivar	HHSu	Yellow	Purple	11.7	42.9	20.2	63.1	100	72
N020	豫豆18	ZDD19409	父本	河南	选育品种	黄淮夏	黄	紫	16.5	38.1	23.5	61.6	257	72
N020	Yudou 18	ZDD19409	Male parent	Henan	Cultivar	HHSu	Yellow	Purple	16.5	38.1	23.5	61.6	257	72
N021	铁丰31	ZDD23829	父本	辽宁	选育品种	北方春	黄	紫	18	42.8	21	63.8	476	72
N021	Tiefeng 31	ZDD23829	Male parent	Liaoning	Cultivar	NSp	Yellow	Purple	18	42.8	21	63.8	476	72
N022	中黄13	ZDD23876	父本	北京	选育品种	黄淮夏	黄	紫	24.1	43.2	20.4	63.6	72	72
N022	Zhonghuang 13	ZDD23876	Male parent	Beijing	Cultivar	HHSu	Yellow	Purple	24.1	43.2	20.4	63.6	72	72
N023	垦丰16	ZDD24344	父本	黑龙江	选育品种	北方春	黄	白	18	41	20.8	61.9	59	59
N023	Kenfeng 16	ZDD24344	Male parent	Heilongjiang	Cultivar	NSp	Yellow	White	18	41	20.8	61.9	59	59
N024	中黄30	ZDD24632	父本	北京	选育品种	黄淮夏	黄	紫	18.1	44.9	19.9	64.8	131	72
N024	Zhonghuang 30	ZDD24632	Male parent	Beijing	Cultivar	HHSu	Yellow	Purple	18.1	44.9	19.9	64.8	131	72
N025	荷豆18	ZDD24748	父本	山东	选育品种	黄淮夏	黄	紫	19.6	43.6	20.3	63.9	129	72
N025	Hedou 18	ZDD24748	Male parent	Shandong	Cultivar	HHSu	Yellow	Purple	19.6	43.6	20.3	63.9	129	72
N026	徐豆16	ZDD24783	父本	江苏	选育品种	黄淮夏	黄	紫	21.8	43.4	19.1	62.5	135	72
N026	Xudou 16	ZDD24783	Male parent	Jiangsu	Cultivar	HHSu	Yellow	Purple	21.8	43.4	19.1	62.5	135	72
N027	皖豆28	ZDD24832	父本	安徽	选育品种	黄淮夏	黄	紫	22.1	46.1	20.9	67	106	72
N027	Wandou 28	ZDD24832	Male parent	Anhui	Cultivar	HHSu	Yellow	Purple	22.1	46.1	20.9	67	106	72
N028	天隆一号	ZDD24847	父本	湖北	选育品种	南方春	黄	白	18.1	44.2	19.2	63.4	483	72
N028	Tianlongyihao	ZDD24847	Male parent	Hubei	Cultivar	SSp	Yellow	White	18.1	44.2	19.2	63.4	483	72
N029	川豆9号	ZDD24861	父本	四川	选育品种	南方夏	黄	白	20	47.6	18.9	66.5	44	44
N029	Chuandou 9	ZDD24861	Male parent	Sichuan	Cultivar	SSu	Yellow	White	20	47.6	18.9	66.5	44	44
N030	湘春豆26	ZDD25213	父本	湖南	选育品种	南方春	黄	白	19	41.7	18.9	60.7	131	72
N030	Xiangchundou 26	ZDD25213	Male parent	Hunan	Cultivar	SSp	Yellow	White	19	41.7	18.9	60.7	131	72
N031	华春2号	ZDD25258	父本	广东	选育品种	南方春	黄	白	18.9	42.5	19.8	62.4	576	72
N031	Huachun 2	ZDD25258	Male parent	Guangdong	Cultivar	SSp	Yellow	White	18.9	42.5	19.8	62.4	576	72
N032	晋品82号	ZDD23181	父本	山西	选育品种	黄淮夏	黑	紫	17.8	45.6	19	64.5	77	71
N032	Jinpin 82	ZDD23181	Male parent	Shanxi	Cultivar	HHSu	Black	Purple	17.8	45.6	19	64.5	77	71
N033	冀豆12	ZDD23040	父本	河北	选育品种	黄淮夏	黄	紫	24	43.7	20.7	64.4	343	72
N033	Jidou 12	ZDD23040	Male parent	Hebei	Cultivar	HHSu	Yellow	Purple	24	43.7	20.7	64.4	343	72
N034	五星1号	ZDD23915	父本	河北	选育品种	黄淮夏	黄	紫	19.8	30.9	25.2	56	64	64
N034	Wuxing 1	ZDD23915	Male parent	Hebei	Cultivar	HHSu	Yellow	Purple	19.8	30.9	25.2	56	64	64
N035	海门等西风甲	ZDD11320	父本	江苏	地方品种	南方夏	绿	紫	30.2	39.1	21.1	60.2	58	58
N035	Haimendengxifengjia	ZDD11320	Male parent	Jiangsu	Landrace	SSu	Green	Purple	30.2	39.1	21.1	60.2	58	58
NA	中豆41	ZDD31206	母本	湖北	选育品种	南方夏	黄	白	23.2	42.7	18.2	60.9
NA	Zhongdou 41	ZDD31206	Female parent	Hubei	Cultivar	SS	Yellow	White	23.2	42.7	18.2	60.9

Table 1

Table 2

Fig. 1

Fig. 2

Table 3

Table 4

Table 5

Fig. 3

Fig. 4

Table 6

Candidate genes within association region"

位点 Locus	区间 Range (kb)	基因数目 Number genes	候选基因 Candidate gene ID	基因名 Gene name	基因位置 Gene position	功能注释 Gene annotation
qSCC1-1	191.1	5	Glyma.01G075200		36147019..36148009	60S核糖体蛋白 60S ribosomal protein
qSCC5-1	115.3	20	Glyma.05G171700		36197575..36199801
			Glyma.05G172400		36241411..36245575	染色体凝聚调节因子(RCC1)家族蛋白 Regulator of chromosome condensation (RCC1) family protein
			Glyma.05G173300		36277504..36281700	糖基水解酶家族5 Glycosyl hydrolase family 5
			Glyma.05G153200	CHS	34687008..34693243	查尔酮合成酶 Naringenin-chalcone synthase
qSCC6-2	1201.5	44	Glyma.06G242200		40186035..40189770	WRKY家族转录因子家族蛋白 WRKY family transcription factor family protein
			Glyma.06G247200		41703993..41711389	转导素/WD40重复样超家族蛋白 Transducin/WD40 repeat-like superfamily protein
qSCC12-1	190.3	20	Glyma.12G060700		4406789..4408502	锌指(C3HC4型)家族蛋白 Zinc finger (C3HC4-type RING finger) family protein
			Glyma.12G061600		4499104..4499532	二磷酸核酮糖羧化酶 Ribulose-bisphosphate carboxylases
qSCC10-1	581.6	49	Glyma.10G204800	LAR2	43605676..43608465	无色花青素还原酶/无色花青素还原酶 Leucoanthocyanidin reductase/Leucocyanidin reductase
qSCC11-1	2791.8	446	Glyma.11G027700	ANS	1992155..1993544	无色花青素双加氧酶有关 Leucoanthocyanidin dioxygenase related
			Glyma.11G077200	CHI	5785880..5787797	查尔酮-黄酮异构酶家族蛋白 Chalcone-flavanone isomerase family protein
			Glyma.11G054600		4115043..4119025	碱性螺旋-环-螺旋(bHLH) DNA结合超家族蛋白 Basic helix-loop-helix (bHLH) DNA-binding superfamily protein
			Glyma.11G060200		4545030..4548660	细胞色素P450 Cytochrome P450
qSCC11-2	913	100	Glyma.11G212900	GST	30575282..30577501	谷胱甘肽S-转移酶F11相关 Glutathione S-Transferase F11-related
			Glyma.11G231300		32690044..32692317	碱性螺旋-环-螺旋(bHLH) DNA结合超家族蛋白 Basic helix-loop-helix (bHLH) DNA-binding superfamily protein
			Glyma.11G236300		33112560..33118486	bZIP转录因子家族蛋白bZIP Transcription factor family protein
qSCC13-1	1396.2	201	Glyma.13G256900		36204841..36216179	K-box和MADS-box转录因子家族蛋白 K-box region and MADS-box transcription factor family protein
qSCC1-2	244.9	27	Glyma.01G198500		53226420..53229986	CAAX蛋白酶自身免疫(Abi) CAAX protease self-immunity (Abi)
qSCC6-1	905.2	16	Glyma.06G202300	F3’H	18731104..18738025	类黄酮3’单氧酶 Flavonoid 3’-monooxygenase
qSCC8-1	2393	297	Glyma.08G109400	CHS	8391363..8394840	查尔酮合成酶 Naringenin-chalcone synthase
			Glyma.08G109200	CHS	8384741..8386542	查尔酮合成酶 Naringenin-chalcone synthase
			Glyma.08G109500	CHS	8397943..8399751	查尔酮合成酶 Naringenin-chalcone synthase
			Glyma.08G109300	CHS	8387508..8391327		查尔酮合成酶 Naringenin-chalcone synthase
			Glyma.08G110300	CHS	8475792..8477410		查尔酮合成酶 Naringenin-chalcone synthase
			Glyma.08G110500	CHS	8504478..8506020		查尔酮合成酶 Naringenin-chalcone synthase
			Glyma.08G110700	CHS	8513951..8515719		查尔酮合成酶 Naringenin-chalcone synthase
			Glyma.08G110900	CHS	8517798..8519303		查尔酮合成酶 Naringenin-chalcone synthase
qSCC9-1	516.5	67	Glyma.09G235100	MYB	45758761..45760773		转录因子MYB113类 Transcription MYB113-related
qFC13-1	210.04	10	Glyma.13G072100	F3’5’H	17312471..17317198		类黄酮3’,5’-羟化酶 Flavonoid 3’,5’-hydroxylase

Table 6

Fig. 5

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时间 Time	地点 Location	世代 Generation
2015年5-11月 May-November 2015	湖北荆州Jingzhou, Hubei (30.37°N, 112.06°E)	杂交, 收获F₁ Cross, harvest F₁
2016年5-11月 May-November 2016	湖北荆州Jingzhou, Hubei (30.37°N, 112.06°E)	种植F₁, 收获F₂ Plant F₁, harvest F₂
2017年5-11月 May-November 2017	湖北荆州Jingzhou, Hubei (30.37°N, 112.06°E)	种植F₂, 收获F₃ Plant F₂, harvest F₃
2017年11月-2018年3月 November 2017-March 2018	海南三亚Sanya, Hainan (18.25°N, 109.51°E)	种植F₃, 收获F₄ Plant F₃, harvest F₄
2018年5-11月 May-November 2018	湖北荆州Jingzhou, Hubei (30.37°N, 112.06°E)	种植F₄, 收获F₅ Plant F₄, harvest F₅
2018年11月-2019年3月 November 2018-March 2019	海南三亚Sanya, Hainan (18.25°N, 109.51°E)	种植F₅, 收获F₆ Plant F₅, harvest F₆
2019年5-11月 May-November 2019	湖北荆州Jingzhou, Hubei (30.37°N, 112.06°E)	种植F₆, 收获F₇ Plant F₆, harvest F₇
2019年11月-2020年3月 November 2019-March 2020	海南三亚Sanya, Hainan (18.25°N, 109.51°E)	种植F₇, 收获F₈ Plant F₇, harvest F₈
2020年5-11月 May-November 2020	湖北荆州Jingzhou, Hubei (30.37°N, 112.06°E)	种植F₈, 收获F₉ Plant F₈, harvest F₉
2020年11月-2021年3月 November 2020-March 2021	海南三亚Sanya, Hainan (18.25°N, 109.51°E)	种植F₉, 收获F₁₀ Plant F₉, harvest F₁₀
2021年5-11月 May-November 2021	河南商丘Shangqiu, Henan (34.41°N, 115.98°E)	种植F₁₀, 收获F₁₁ Plant F₁₀, harvest F₁₁
2022年5-11月 May-November 2022	安徽宿州Suzhou, Anhui (33.69°N, 117.10°E)	种植F₁₁, 收获F₁₂ Plant F₁₁, harvest F₁₂

性状 Trait	最小值Min.	最大值Max.	均值Mean	变异范围Range	变异系数CV	方差 Variance	标准差SD	偏度Skewness	峰度Kurtosis
红Red	56.74	224.83	157.11	168.09	0.22	1240.28	35.22	-1.25	0.40
绿Green	66.14	225.36	152.64	159.21	0.23	1192.48	34.53	-0.69	-0.99
蓝Blue	71.41	206.22	128.15	134.80	0.18	524.63	22.90	-0.14	-0.72
光度Luminosity	60.34	203.82	134.87	143.48	0.19	678.15	26.04	-0.73	-0.42
L值L-value	26.85	88.92	62.32	62.06	0.21	164.89	12.84	-0.81	-0.67
a值a-value	-17.16	16.28	-5.51	33.44	-1.23	45.76	6.76	1.36	1.12
b值b-value	-9.08	39.43	16.58	48.51	0.59	96.16	9.81	-0.84	0.23
色调Hue	26.88	242.16	116.67	215.28	0.35	1659.97	40.74	1.19	1.81
饱和度Chroma	2.47	42.64	19.71	40.17	0.40	60.80	7.80	-0.12	-0.36

性状	红	绿	蓝	光度	L值	a值	b值	色调	饱和度
Trait	Red	Green	Blue	Luminosity	L-value	a-value	b-value	Hue	Chroma
红Red	1
绿Green	0.912^***	1
蓝Blue	0.752^**	0.879^***	1
光度 Luminosity	0.960^***	0.964 ^***	0.905^***	1
L值 L-value	0.951^***	0.994^***	0.866^***	0.982^***	1
a值 a-value	-0.255	-0.615^*	-0.521^*	-0.404	-0.528^*	1
b值 b-value	0.835^***	0.742^**	0.353	0.695^**	0.773^**	-0.300	1
色调 Hue	-0.595^*	-0.256	-0.060	-0.399	-0.348	-0.462	-0.600^*	1
饱和度 Chroma	0.727^**	0.683^**	0.280	0.600^**	0.700^**	-0.369	0.950^***	-0.412	1

性状 Trait	位点 Locus	染色体 Chr.	起始 Start	终止 End	最显著SNP位点Most significant SNP	最显著SNP P值 P-value of tagSNP	重复关联性状 Correlated trait	关联方法 Method	经典位点Classic loci
种皮色 Seed coat color	qSCC1-1	1	16769772	16960836	Chr01_16862797	4.09E-09	a, Hue	Emmax, RTM, Tassel
	qSCC1-2	1	53062691	53307617	Chr01_53162691	1.81E-07	Chroma, a, b, Green, Blue	Emmax, RTM, 3VmrMLM	G
	qSCC5-1	5	36175387	36290717	Chr05_36193584	4.85E-13	a, b, L, Red, Green, Chroma, Luminosity, Hue	Emmax, RTM, Tassel
	qSCC6-1	6	18409621	19314852	Chr06_19275710	2.72E-13	a, b, L, Red, Green, Chroma, Luminosity, Hue	Emmax, RTM, Tassel, 3VmrMLM	T/F3’H
	qSCC6-2	6	40810608	42012070	Chr06_41686979	3.69E-08	b, Red, Hue, Green, Chroma	Emmax, RTM, 3VmrMLM
	qSCC8-1	8	7088758	9481774	Chr08_8400595	1.49E-54	a, b, L, Red, Green, Blue, Chroma, Luminosity, Hue	Emmax, RTM, Tassel, 3VmrMLM	I/CHS
	qSCC9-1	9	45305565	45822016	Chr09_48482371	8.96E-11	a, b, L, Red, Green, Blue, Chroma, Luminosity, Hue	Emmax, RTM, Tassel, 3VmrMLM	R/MYB
	qSCC12-1	12	4401461	4591803	Chr12_4496838	6.48E-08	a, b, L, Red, Green, Blue, Luminosity	Emmax, RTM, Tassel
	qSCC10-1	10	43550478	44132066	Chr10_44033177	1.72E-16	a, b, Red, Green, Hue, Chroma	Tassel, RTM, 3VmrMLM
	qSCC11-1	11	3209682	6768477	Chr11_3309682	4.47E-30	Chroma, Red, Luminosity	RTM, 3VmrMLM
	qSCC11-2	11	32477382	33390337	Chr11_32487220	0.0001984	a, L, Red, Green	RTM, 3VmrMLM
	qSCC13-1	13	34811493	36307740	Chr13_34911493	8.93E-18	Red, Green, Blue, L, a, b, Luminosity	RTM, 3VmrMLM
花色 Flower color	qFC13-1	13	17215500	17425536	Chr13_17315536	5.53E-211		Emmax, RTM, Tassel, 3VmrMLM	W1/F3’5’H

Genetic analysis of seed coat and flower color based on a soybean nested association mapping population

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