基于SLAF-seq的茶组子房室数不稳定居群种质亲缘关系分析

doi:10.16420/j.issn.0513-353x.2021-0876

园艺学报 ›› 2022, Vol. 49 ›› Issue (11): 2455-2470.doi: 10.16420/j.issn.0513-353x.2021-0876

基于SLAF-seq的茶组子房室数不稳定居群种质亲缘关系分析

吴致君¹^,⁵, 李伟², 王兴华³, 张成², 蒋勋⁴, 黎盛¹, 罗理勇¹^,⁵, 孙康¹^,⁵^,^*(), 曾亮¹^,⁵^,^*()

¹西南大学食品科学学院，重庆 400715
²重庆市南川区农业特色产业发展中心，重庆 408400
³云南农业大学茶学院，昆明 650201
⁴云南普洱市茶叶科学研究所，云南普洱 665000
⁵西南大学茶叶研究所，重庆 400715

收稿日期:2021-12-02 修回日期:2022-06-13 出版日期:2022-11-25 发布日期:2022-11-25
通讯作者: 孙康,曾亮 E-mail:sunkang@swu.edu.cn;zengliangbaby@126.com
基金资助:
重庆市技术创新与应用发展专项面上项目(cstc2020jscx-msxmX0032);重庆市技术创新与应用发展专项重点项目(cstc2021jscx- gksbX0016);重庆市技术创新与应用发展专项重点项目(cstc2020jscx-tpyzxX0009);国家自然科学基金项目(31800586);西南大学种质创制专项研究项目资助;北碚区基础研究与前沿探索项目(2020-25)

Genetic Relationship Analysis of the Population Germplasms of Section Thea with Unstable Ovary Locule Number Based on SLAF-seq

WU Zhijun¹^,⁵, LI Wei², WANG Xinghua³, ZHANG Cheng², JIANG Xun⁴, LI Sheng¹, LUO Liyong¹^,⁵, SUN Kang¹^,⁵^,^*(), ZENG Liang¹^,⁵^,^*()

¹College of Food Science，Southwest University，Chongqing 400715，China
²Nanchuan District’s Agricultural Characteristic Industry Development Center of Chongqing Municipality，Chongqing 408400，China
³Tea College，Yunnan Agricultural University，Kunming 650201，China
⁴Tea Science Research Institute of Pu-erh City of Yunnan Province，Pu’er，Yunnan 665000，China
⁵Tea Research Institute，Southwest University，Chongqing 400715，China

Received:2021-12-02 Revised:2022-06-13 Online:2022-11-25 Published:2022-11-25
Contact: SUN Kang,ZENG Liang E-mail:sunkang@swu.edu.cn;zengliangbaby@126.com

摘要/Abstract

摘要：

为了进一步探究子房室数不稳定（子房无毛、3 ~ 5室、花柱3 ~ 5裂）茶组（section Thea）居群种质（UONG）的亲缘关系，明确居群内个体的变异是否引起了种间变异，以重庆、云南及其他部分省份87个山茶属茶组和非茶组植物（外类群对照）种质为材料，利用SLAF-seq技术进行简化基因组测序和分子标记分析。测序共获得2 804 071个SALF标签，平均测序深度为11.73×。通过SALF标签比对参考基因组，共获得25 069 219个群体SNP分子标记。基于高一致性SNP数据，系统发育树、遗传结构和PCA分析等方法均将调查种质分为3种类型，即云南等的茶组和非茶组种质（Ⅰ类）、重庆大茶树居群种质（Ⅱ类）和多个省份来源的茶系（常见栽培种和‘川小种’）种质（Ⅲ类）。Ⅰ类种质中茶组植物，包含了五室茶系、五柱茶系、秃房茶系和茶系种质。Ⅱ类种质由UONG和茶系种质（形态特征介于UONG与常见茶系种质之间）组成。此外，遗传分化系数F_ST表明，Ⅱ类种质与其他几类种质遗传分化程度最高（> 0.3），Ⅰ类与Ⅲ类种质之间也存在较高的遗传分化（> 0.2）。简化基因组测序分类结果和F_ST值表明，调查的UONG为一类相对独立种质，居群内个体的变异并未引起种间变异。因此，将该类种质归入到一个种下的处理较为合理。此外，在重庆地区存在一类与UONG遗传结构交叉的茶系种质，可能为自然远缘杂交后代。

关键词: 茶组, 子房室数, 亲缘关系, SLAF-seq, SNP

Abstract:

In order to further explore the genetic relationship of the population germplasms of section Thea with unstable ovary locule number（ovary glabrous，3-5 loculed，style 3-5 lobed）（UONG），and to clarify whether the variation of individuals in the population caused interspecific variation，the simplified genome sequencing and molecular marker analysis of 87 germplasms of section Thea and other sections（outgroup comparison）of genus Camellia from Chongqing，Yunnan，and other provinces of China were carried out by SLAF-seq technology. A total of 2 804 071 SLAF labels were obtained by sequencing，and the average sequencing depth was 11.73×. A total of 25 069 219 SNP molecular markers were obtained by comparing the reference genome with SALF labels. Based on high consistency SNP data，using the methods of phylogenetic tree，genetic structure，and PCA analysis，the investigated germplasms were basically divided into three types，namely，the germplasms of section Thea and other sections of genus Camellia from Yunnan and other provinces（ClassⅠ），the population germplasms of big tea tree in Chongqing（ClassⅡ），and the Ser. Sinenses germplasms（common cultivated varieties and‘Chuanxiaozhong’）from multiple provinces（Class Ⅲ）. The section Thea germplasms of ClassⅠwere composed of Ser. Guinquelocularis，Ser. Pentastyla，Ser. Gymnogynae，and Ser. Sinenses. ClassⅡ included UONG and Ser. Sinenses（morphological characteristics are between UONG and common Ser. Sinenses）. Moreover，the F_ST values of genetic differentiation coefficient showed that the degree of genetic differentiation between ClassⅡgermplasms and other types of germplasms was the highest（> 0.3），and there was also high genetic differentiation between ClassⅠand Class Ⅲgermplasms（> 0.2）. The classification results and F_ST values of simplified genome sequencing showed that the investigated UONG are relatively independent and the variation of individuals within the population did not cause interspecific variation. Therefore，it is reasonable to classify these germplasms into one species. Moreover，there is a type of Ser. Sinenses germplasms with cross genetic structure of UONG in Chongqing，which may be the offspring of natural distant hybridization.

Key words: section Thea, ovary locule number, genetic relationship, SLAF-seq, SNP

中图分类号:

S571.1

吴致君, 李伟, 王兴华, 张成, 蒋勋, 黎盛, 罗理勇, 孙康, 曾亮. 基于SLAF-seq的茶组子房室数不稳定居群种质亲缘关系分析[J]. 园艺学报, 2022, 49(11): 2455-2470.

WU Zhijun, LI Wei, WANG Xinghua, ZHANG Cheng, JIANG Xun, LI Sheng, LUO Liyong, SUN Kang, ZENG Liang. Genetic Relationship Analysis of the Population Germplasms of Section Thea with Unstable Ovary Locule Number Based on SLAF-seq[J]. Acta Horticulturae Sinica, 2022, 49(11): 2455-2470.

图/表 9

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来源地 Source	种质名称 Germplasm name	张宏达分类系统 Classification of Zhang Hongda	闵天禄分类系统 Classification of Min Tianlu	子房室数 Locule number	花柱柱头数 Stigma number	有无毛 Hairy or not	样本号 S ample ID	测序号 BMK ID
重庆北碚区 Beibei，Chongqing	川小种 Chuanxiaozhong	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	BBCX1	aj
	云南大叶种 Yunnan Large Leaf	茶系 Ser. Sinenses	茶 C. sinenses	3 ~ 4	3 ~ 4	有Yes	BBYNDY1	ai
	七心白 Qixinbai	红山茶组 Sect. Camellia	山茶组 Sect. Camellia	-	-	-	CH	ab
	茶梅 C. sasanqua	油茶组 Sect. Oleifera	油茶组 Sect. Paracamellia	-	-	-	CM	ac
来源地 Source	种质名称 Germplasm name	张宏达分类系统 Classification of Zhang Hongda	闵天禄分类系统 Classification of Min Tianlu	子房室数 Locule number	花柱柱头数 Stigma number	有无毛 Hairy or not	样本号 Sample ID	测序号 BMK ID
	油茶 C. oleifera	油茶组 Sect. Oleifera	油茶组 Sect. Paracamellia	-	-	-	YC	bt
重庆江津区 Jiangjin，Chongqing	江津大茶树 Big tea tree of Jiangjin	秃房茶系 Ser. Gymnogynae	疑似疏齿大厂茶 Suspected C. tachangensis var. remotiserrata	3 ~ 4	3 ~ 4	无No	JJDS1	df
							JJDS2	dg
							JJDS3	dh
							JJDS4	di
							JJDS5	dj
							JJDS6	dk
重庆南川区 Nanchuan，Chongqing	南川大茶树 Big tea tree of Nanchuan	秃房茶系 Ser. Gymnogynae	疏齿大厂茶 C. tachangensis var. remotiserrata	3	3	无No	NCDS26	ax
				3	3	无No	NCDS94	bg
				3 ~ 4	3 ~ 4	无No	NCDS8	bb
							NCDS13	ap
							NCDS14	aq
							NCDS15	ar
							NCDS24	aw
							NCDS89	bd
							NCDS93	bf
							NCDS108	bl
							NCDS109	bm
							NCDS113	an
		五室茶系 Ser. Guinquelocularis	疏齿大厂茶 C. tachangensis var. remotiserrata	3 ~ 5	3 ~ 5	无No	NCDS18	at
							NCDS19	au
							NCDS20	av
							NCDS50	ay
							NCDS52	az
							NCDS88	bc
							NCDS97	bh
							NCDS111	am
		疑似秃房茶/五室茶系 Suspected Ser. Gymnogynae/Ser. Guinquelocularis	疑似疏齿大厂茶 Suspected C. tachangensis var. remotiserrata	-	-	-	NCDS107	bk
			疑似疏齿大厂茶 Suspected C. tachangensis var. remotiserrata	-	-	-	NCDS110	ao
		茶系（疑似秃房茶系与茶系杂交个体） Ser. Sinenses（suspected hybrid individuals of Ser. Gymnogynae and Ser. Sinense）	茶（疑似疏齿大厂茶与茶杂交个体） C. sinenses（suspected hybrid individuals of C. tachangensis var. remotiserrata and C. sinenses）	3 ~ 4	3 ~ 4	有Yes	NCDS17	as
							NCDS53	ba
							NCDS90	be
							NCDS105	bi
				-	-	-	NCDS106	bj
	川小种 Chuanxiaozhong	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	NCCX8	br
							NCCX18	bp
							NCCX24	bq
				3 ~ 4	3 ~ 4	有Yes	NCCX10	bn
				3 ~ 4	3 ~ 4	有Yes	NCCX12	bo
重庆綦江区 Qijiang，Chongqing	綦江大茶树 Big tea tree of Qijiang	秃房茶系 Ser. Gymnogynae	疏齿大厂茶 C. tachangensis var. remotiserrata	3 ~ 4	3 ~ 4	无No	QJDS3	de
		茶系（疑似秃房茶系与茶系杂交个体） Ser. Sinenses（suspected hybrid individuals of Ser. Gymnogynae and Ser. Sinense）	茶（疑似疏齿大厂茶与茶杂交个体） C. sinenses（suspected hybrid individuals of C. tachangensis var. remotiserrata and C. sinenses）	3 ~ 4	3 ~ 4	有Yes	QJDS1	dc
				3 ~ 4	3 ~ 4	有Yes	QJDS2	dd
重庆酉阳县 Youyang，Chongqing	酉阳黄叶 Youyang Huangye	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	YYHY	dl
福建安溪县 Anxi，Fujian	黄旦 Huangdan	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	HD	ae
福建福安市 Fu'an，Fujian	金冠茶 Jinguancha	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	JGC	ag
福建福安市 Fu'an，Fujian	金牡丹 Jinmudan	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	JMD	ah
来源地 Source	种质名称 Germplasm name	张宏达分类系统 Classification of Zhang Hongda	闵天禄分类系统 Classification of Min Tianlu	子房室数 Locule number	花柱柱头数 Stigma number	有无毛 Hairy or not	样本号 Sample ID	测序号 BMK ID
	茗冠 Mingguan	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	MG	al
福建福鼎市 Fuding，Fujian	福鼎大白茶 Fuding Dabaicha	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	FDDB	ad
广西昭平县 Zhaoping，Guangxi	突肋茶 C. costata	秃房茶系 Ser. Gymnogynae	秃房茶 C. gymnogyna	3	3	无No	GXTLC	db
湖南汝城县 Rucheng，Hunan	汝城毛叶茶 C. pubescens	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	RCMYC	da
云南昌宁县 Changning，Yunnan	昌宁秃房茶 C. gymnogyna	秃房茶系 Ser. Gymnogynae	秃房茶 C. gymnogyna	3	3	无No	CN1	dm
云南江城县 Jiangcheng，Yunnan	白毛茶 C. pubilimba	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	JC06-003	cs
云南景东县 Jingdong，Yunnan	茶 C. sinensis	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	JD06-009	cw
云南景谷县 Jinggu，Yunnan	大苞茶 C. grandibracteata	五室茶系 Ser. Guinquelocularis	大苞茶 C. grandibracteata	5	5	无No	JG06-041	cp
	茶C. sinensis	茶系Ser. Sinenses	茶C. sinenses	3	3	有Yes	JG06-049	cy
				3	3	有Yes	JG06-048	cx
				3 ~ 4	3 ~ 4	有Yes	JG06-035	cz
云南澜沧县 Lancang，Yunnan	普洱茶 C. assamica	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	LC06-003	cq
云南澜沧县 Lancang，Yunnan	普洱茶 C. assamica	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	LC06-027	ck
云南勐海县 Menghai，Yunnan	紫鹃 Zijuan	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	ZJ	bx
云南墨江县 Mojiang，Yunnan	普洱茶 C. assamica	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	MJ06-009	ch
云南墨江县 Mojiang，Yunnan	普洱茶 C. assamica	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	MJ06-018	ci
云南宁洱县 Ning'er，Yunnan	白毛茶 C. pubilimba	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	PR06-002	ct
云南思茅区 Simao，Yunnan	普洱茶 C. assamica	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	CY06-008	cj
	白毛茶 C. pubilimba	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	CY06-025	cr
	茶 C. sinensis	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	CY06-010	cv
云南西盟县 Ximeng，Yunnan	大理茶 C. taliensis	五柱茶系 Ser. Pentastyla	大理茶 C. taliensis	5	5	有Yes	XM06-011	by
							XM06-010	bz
							XM06-015	cb
	普洱茶 C. assamica	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	XM06-013	ca
云南镇远县 Zhenyuan，Yunnan	大理茶 C. taliensis	五柱茶系 Ser. Pentastyla	大理茶 C. taliensis	5	5	有Yes	ZY06-001	cc
	大理茶 C. taliensis	五柱茶系 Ser. Pentastyla	大理茶 C. taliensis	5	5	有Yes	ZY06-003	cd
	普洱茶 C. assamica	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	ZY06-033	cf
				3 ~ 4	3 ~ 4	有Yes	ZY06-019	ce
				3 ~ 4	3 ~ 4	有Yes	ZY06-037	cg
	茶 C. sinensis	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	ZY06-023	cu
浙江嵊州市 Shengzhou，Zhejiang	越黄1号/龙井早黄 Yuehuang 1/ Longjing Zaohuang	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	YH1	bu
浙江嵊州市 Shengzhou，Zhejiang	越黄1号/龙井早黄 Yuehuang 1/ Longjing Zaohuang	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	LJZH	ak
浙江安吉县 Anji，Zhejiang	白叶1号 Baiye 1	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	BY	aa
浙江余姚市 Yuyao，Zhejiang	黄金芽 Huangjinya	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	HJY	af
浙江永嘉县 Yongjia，Zhejiang	乌牛早 Wuniuzao	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	WNZ	bs
浙江宁波市 Ningbo，Zhejiang	郁金香 Yujinxiang	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	YJX	bv
浙江缙云县 Jinyun，Zhejiang	中黄2号 Zhonghuang 2	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	ZH2	bw

来源地 Source	种质名称 Germplasm name	张宏达分类系统 Classification of Zhang Hongda	闵天禄分类系统 Classification of Min Tianlu	子房室数 Locule number	花柱柱头数 Stigma number	有无毛 Hairy or not	样本号 S ample ID	测序号 BMK ID
重庆北碚区 Beibei，Chongqing	川小种 Chuanxiaozhong	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	BBCX1	aj
	云南大叶种 Yunnan Large Leaf	茶系 Ser. Sinenses	茶 C. sinenses	3 ~ 4	3 ~ 4	有Yes	BBYNDY1	ai
	七心白 Qixinbai	红山茶组 Sect. Camellia	山茶组 Sect. Camellia	-	-	-	CH	ab
	茶梅 C. sasanqua	油茶组 Sect. Oleifera	油茶组 Sect. Paracamellia	-	-	-	CM	ac
来源地 Source	种质名称 Germplasm name	张宏达分类系统 Classification of Zhang Hongda	闵天禄分类系统 Classification of Min Tianlu	子房室数 Locule number	花柱柱头数 Stigma number	有无毛 Hairy or not	样本号 Sample ID	测序号 BMK ID
	油茶 C. oleifera	油茶组 Sect. Oleifera	油茶组 Sect. Paracamellia	-	-	-	YC	bt
重庆江津区 Jiangjin，Chongqing	江津大茶树 Big tea tree of Jiangjin	秃房茶系 Ser. Gymnogynae	疑似疏齿大厂茶 Suspected C. tachangensis var. remotiserrata	3 ~ 4	3 ~ 4	无No	JJDS1	df
							JJDS2	dg
							JJDS3	dh
							JJDS4	di
							JJDS5	dj
							JJDS6	dk
重庆南川区 Nanchuan，Chongqing	南川大茶树 Big tea tree of Nanchuan	秃房茶系 Ser. Gymnogynae	疏齿大厂茶 C. tachangensis var. remotiserrata	3	3	无No	NCDS26	ax
				3	3	无No	NCDS94	bg
				3 ~ 4	3 ~ 4	无No	NCDS8	bb
							NCDS13	ap
							NCDS14	aq
							NCDS15	ar
							NCDS24	aw
							NCDS89	bd
							NCDS93	bf
							NCDS108	bl
							NCDS109	bm
							NCDS113	an
		五室茶系 Ser. Guinquelocularis	疏齿大厂茶 C. tachangensis var. remotiserrata	3 ~ 5	3 ~ 5	无No	NCDS18	at
							NCDS19	au
							NCDS20	av
							NCDS50	ay
							NCDS52	az
							NCDS88	bc
							NCDS97	bh
							NCDS111	am
		疑似秃房茶/五室茶系 Suspected Ser. Gymnogynae/Ser. Guinquelocularis	疑似疏齿大厂茶 Suspected C. tachangensis var. remotiserrata	-	-	-	NCDS107	bk
			疑似疏齿大厂茶 Suspected C. tachangensis var. remotiserrata	-	-	-	NCDS110	ao
		茶系（疑似秃房茶系与茶系杂交个体） Ser. Sinenses（suspected hybrid individuals of Ser. Gymnogynae and Ser. Sinense）	茶（疑似疏齿大厂茶与茶杂交个体） C. sinenses（suspected hybrid individuals of C. tachangensis var. remotiserrata and C. sinenses）	3 ~ 4	3 ~ 4	有Yes	NCDS17	as
							NCDS53	ba
							NCDS90	be
							NCDS105	bi
				-	-	-	NCDS106	bj
	川小种 Chuanxiaozhong	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	NCCX8	br
							NCCX18	bp
							NCCX24	bq
				3 ~ 4	3 ~ 4	有Yes	NCCX10	bn
				3 ~ 4	3 ~ 4	有Yes	NCCX12	bo
重庆綦江区 Qijiang，Chongqing	綦江大茶树 Big tea tree of Qijiang	秃房茶系 Ser. Gymnogynae	疏齿大厂茶 C. tachangensis var. remotiserrata	3 ~ 4	3 ~ 4	无No	QJDS3	de
		茶系（疑似秃房茶系与茶系杂交个体） Ser. Sinenses（suspected hybrid individuals of Ser. Gymnogynae and Ser. Sinense）	茶（疑似疏齿大厂茶与茶杂交个体） C. sinenses（suspected hybrid individuals of C. tachangensis var. remotiserrata and C. sinenses）	3 ~ 4	3 ~ 4	有Yes	QJDS1	dc
				3 ~ 4	3 ~ 4	有Yes	QJDS2	dd
重庆酉阳县 Youyang，Chongqing	酉阳黄叶 Youyang Huangye	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	YYHY	dl
福建安溪县 Anxi，Fujian	黄旦 Huangdan	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	HD	ae
福建福安市 Fu'an，Fujian	金冠茶 Jinguancha	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	JGC	ag
福建福安市 Fu'an，Fujian	金牡丹 Jinmudan	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	JMD	ah
来源地 Source	种质名称 Germplasm name	张宏达分类系统 Classification of Zhang Hongda	闵天禄分类系统 Classification of Min Tianlu	子房室数 Locule number	花柱柱头数 Stigma number	有无毛 Hairy or not	样本号 Sample ID	测序号 BMK ID
	茗冠 Mingguan	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	MG	al
福建福鼎市 Fuding，Fujian	福鼎大白茶 Fuding Dabaicha	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	FDDB	ad
广西昭平县 Zhaoping，Guangxi	突肋茶 C. costata	秃房茶系 Ser. Gymnogynae	秃房茶 C. gymnogyna	3	3	无No	GXTLC	db
湖南汝城县 Rucheng，Hunan	汝城毛叶茶 C. pubescens	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	RCMYC	da
云南昌宁县 Changning，Yunnan	昌宁秃房茶 C. gymnogyna	秃房茶系 Ser. Gymnogynae	秃房茶 C. gymnogyna	3	3	无No	CN1	dm
云南江城县 Jiangcheng，Yunnan	白毛茶 C. pubilimba	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	JC06-003	cs
云南景东县 Jingdong，Yunnan	茶 C. sinensis	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	JD06-009	cw
云南景谷县 Jinggu，Yunnan	大苞茶 C. grandibracteata	五室茶系 Ser. Guinquelocularis	大苞茶 C. grandibracteata	5	5	无No	JG06-041	cp
	茶C. sinensis	茶系Ser. Sinenses	茶C. sinenses	3	3	有Yes	JG06-049	cy
				3	3	有Yes	JG06-048	cx
				3 ~ 4	3 ~ 4	有Yes	JG06-035	cz
云南澜沧县 Lancang，Yunnan	普洱茶 C. assamica	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	LC06-003	cq
云南澜沧县 Lancang，Yunnan	普洱茶 C. assamica	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	LC06-027	ck
云南勐海县 Menghai，Yunnan	紫鹃 Zijuan	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	ZJ	bx
云南墨江县 Mojiang，Yunnan	普洱茶 C. assamica	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	MJ06-009	ch
云南墨江县 Mojiang，Yunnan	普洱茶 C. assamica	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	MJ06-018	ci
云南宁洱县 Ning'er，Yunnan	白毛茶 C. pubilimba	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	PR06-002	ct
云南思茅区 Simao，Yunnan	普洱茶 C. assamica	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	CY06-008	cj
	白毛茶 C. pubilimba	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	CY06-025	cr
	茶 C. sinensis	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	CY06-010	cv
云南西盟县 Ximeng，Yunnan	大理茶 C. taliensis	五柱茶系 Ser. Pentastyla	大理茶 C. taliensis	5	5	有Yes	XM06-011	by
							XM06-010	bz
							XM06-015	cb
	普洱茶 C. assamica	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	XM06-013	ca
云南镇远县 Zhenyuan，Yunnan	大理茶 C. taliensis	五柱茶系 Ser. Pentastyla	大理茶 C. taliensis	5	5	有Yes	ZY06-001	cc
	大理茶 C. taliensis	五柱茶系 Ser. Pentastyla	大理茶 C. taliensis	5	5	有Yes	ZY06-003	cd
	普洱茶 C. assamica	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	ZY06-033	cf
				3 ~ 4	3 ~ 4	有Yes	ZY06-019	ce
				3 ~ 4	3 ~ 4	有Yes	ZY06-037	cg
	茶 C. sinensis	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	ZY06-023	cu
浙江嵊州市 Shengzhou，Zhejiang	越黄1号/龙井早黄 Yuehuang 1/ Longjing Zaohuang	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	YH1	bu
浙江嵊州市 Shengzhou，Zhejiang	越黄1号/龙井早黄 Yuehuang 1/ Longjing Zaohuang	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	LJZH	ak
浙江安吉县 Anji，Zhejiang	白叶1号 Baiye 1	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	BY	aa
浙江余姚市 Yuyao，Zhejiang	黄金芽 Huangjinya	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	HJY	af
浙江永嘉县 Yongjia，Zhejiang	乌牛早 Wuniuzao	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	WNZ	bs
浙江宁波市 Ningbo，Zhejiang	郁金香 Yujinxiang	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	YJX	bv
浙江缙云县 Jinyun，Zhejiang	中黄2号 Zhonghuang 2	茶系 Ser. Sinenses	茶 C. sinenses	3	3	有Yes	ZH2	bw

样本编号 Sample ID	SLAF 数量 SLAF number	平均深度/× Average depth	SNP 数量 SNP number	完整性/% Integrity	杂合率/% Heter ratio
BY1	414 220	5.55	6 454 305	25.75	3.34
CH	250 085	9.56	3 929 083	15.67	6.47
CM	332 076	8.02	4 926 261	19.65	10.57
FDDB	481 959	8.10	7 351 225	29.32	4.46
HD	506 591	8.91	7 763 226	30.97	4.14
HJY	486 495	8.03	7 480 906	29.84	3.99
JGC	459 171	8.25	7 190 058	28.68	4.13
JMD	449 894	7.43	7 142 843	28.49	3.96
BBYNDY1	428 896	7.95	7 029 547	28.04	4.55
BBCX1	461 256	10.3	7 211 715	28.77	3.92
LJZH	474 604	8.54	7 419 029	29.59	3.75
MG	461 136	7.34	7 384 539	29.46	4.10
NCDS111	291 238	8.10	5 453 610	21.75	3.38
NCDS113	320 219	10.52	5 890 530	23.50	3.61
NCDS110	324 279	9.68	5 970 167	23.81	3.53
NCDS13	339 038	11.17	6 099 118	24.33	3.71
NCDS14	308 380	12.69	5 565 239	22.20	3.63
NCDS15	323 666	11.57	5 833 824	23.27	3.75
NCDS17	448 147	8.76	7 351 167	29.32	4.48
NCDS18	326 089	9.15	5 961 543	23.78	3.37
NCDS19	260 316	9.02	4 803 209	19.16	2.83
NCDS20	282 640	9.73	5 134 816	20.48	3.17
NCDS24	293 598	10.38	5 272 901	21.03	3.32
NCDS26	328 771	10.99	5 940 411	23.70	3.48
NCDS50	368 320	13.21	6 541 063	26.09	3.87
NCDS52	347 655	11.97	6 253 213	24.94	3.65
NCDS53	444 298	8.03	7 375 079	29.42	4.49
NCDS8	292 326	9.71	5 303 949	21.16	3.22
NCDS88	309 393	9.74	5 542 995	22.11	3.42
NCDS89	320 760	9.42	5 790 379	23.10	3.53
NCDS90	575 792	11.92	8 983 398	35.83	5.31
NCDS93	338 289	10.75	5 949 992	23.73	3.69
NCDS94	344 422	10.80	6 151 755	24.54	3.74
NCDS97	270 397	7.26	4 931 892	19.67	3.07
NCDS105	596 526	15.27	9 113 088	36.35	5.41
NCDS106	448 437	13.71	7 229 172	28.84	4.44
NCDS107	483 678	21.66	7 990 956	31.88	4.66
NCDS108	400 903	16.93	6 815 528	27.19	4.16
NCDS109	451 745	18.89	7 560 007	30.16	4.49
NCCX10	446 271	9.38	6 912 577	27.57	3.81
NCCX12	386 912	7.78	6 075 948	24.24	3.46
NCCX18	368 217	7.18	5 805 146	23.16	3.63
NCCX24	329 609	6.76	5 123 490	20.44	2.94
NCCX8	758 583	18.24	10 167 608	40.56	5.50
WNZ	577 519	14.82	8 141 922	32.48	4.69
YC	251 323	7.35	3 804 367	15.18	9.00
YH1	539 877	6.78	7 841 706	31.28	3.70
YJX	500 139	6.98	7 392 604	29.49	3.58
ZH2	541 289	6.46	8 008 655	31.95	3.95
样本编号 Sample ID	SLAF 数量 SLAF number	平均深度/× Average depth	SNP 数量 SNP number	完整性/% Integrity	杂合率/% Heter ratio
ZJ	407 185	11.75	6 355 024	25.35	4.03
XM06-011	457 256	13.40	7 898 877	31.51	5.03
XM06-010	470 333	13.51	8 089 389	32.27	4.89
XM06-013	530 537	10.70	8 703 605	34.72	4.48
XM06-015	468 836	14.20	8 169 820	32.59	4.71
ZY06-001	661 570	13.65	10 768 142	42.95	6.52
ZY06-003	532 811	11.17	8 338 167	33.26	5.04
ZY06-019	527 067	12.63	8 289 233	33.07	4.64
ZY06-033	426 746	12.22	6 319 921	25.21	3.51
ZY06-037	602 969	15.19	9 522 082	37.98	4.68
MJ06-009	520 429	13.97	8 348 878	33.30	4.56
MJ06-018	530 471	9.67	8 246 077	32.89	4.20
CY06-008	441 645	11.65	7 146 514	28.51	3.79
LC06-027	399 991	11.92	6 634 614	26.47	3.29
JG06-041	544 734	11.78	8 940 958	35.67	5.49
LC06-003	471 185	15.77	7 558 053	30.15	3.58
CY06-025	515 104	12.35	8 162 424	32.56	4.39
JC06-003	679 013	23.88	10 828 450	43.19	6.45
PR06-002	604 820	18.15	9 397 217	37.49	4.81
ZY06-023	666 653	12.28	11 356 933	45.30	7.35
CY06-010	363 660	10.96	5 800 945	23.14	3.10
JD06-009	449 962	7.96	7 124 788	28.42	4.17
JG06-048	509 334	11.65	8 091 180	32.28	4.21
JG06-049	457 856	11.21	7 283 365	29.05	3.74
JG06-035	740 212	9.88	12 615 010	50.32	10.11
RCMYC	492 005	9.00	7 729 188	30.83	3.88
GXTLC	407 528	8.47	7 115 287	28.38	4.21
QJDS1	515 390	11.03	8 268 692	32.98	4.96
QJDS2	476 054	10.06	7 687 007	30.66	4.69
QJDS3	513 155	20.96	8 747 664	34.89	5.14
JJDS1	507 692	20.69	8 569 999	34.19	5.07
JJDS2	512 383	26.77	8 532 684	34.04	5.00
JJDS3	571 736	10.75	8 347 775	33.30	5.36
JJDS4	609 961	18.93	9 615 444	38.36	5.68
JJDS5	484 151	17.86	8 182 597	32.64	4.89
JJDS6	423 805	15.78	7 195 866	28.70	4.15
YYHY	586 477	14.33	8 926 982	35.61	4.22
CN1	460 655	13.79	7 382 921	29.45	3.63

样本编号 Sample ID	SLAF 数量 SLAF number	平均深度/× Average depth	SNP 数量 SNP number	完整性/% Integrity	杂合率/% Heter ratio
BY1	414 220	5.55	6 454 305	25.75	3.34
CH	250 085	9.56	3 929 083	15.67	6.47
CM	332 076	8.02	4 926 261	19.65	10.57
FDDB	481 959	8.10	7 351 225	29.32	4.46
HD	506 591	8.91	7 763 226	30.97	4.14
HJY	486 495	8.03	7 480 906	29.84	3.99
JGC	459 171	8.25	7 190 058	28.68	4.13
JMD	449 894	7.43	7 142 843	28.49	3.96
BBYNDY1	428 896	7.95	7 029 547	28.04	4.55
BBCX1	461 256	10.3	7 211 715	28.77	3.92
LJZH	474 604	8.54	7 419 029	29.59	3.75
MG	461 136	7.34	7 384 539	29.46	4.10
NCDS111	291 238	8.10	5 453 610	21.75	3.38
NCDS113	320 219	10.52	5 890 530	23.50	3.61
NCDS110	324 279	9.68	5 970 167	23.81	3.53
NCDS13	339 038	11.17	6 099 118	24.33	3.71
NCDS14	308 380	12.69	5 565 239	22.20	3.63
NCDS15	323 666	11.57	5 833 824	23.27	3.75
NCDS17	448 147	8.76	7 351 167	29.32	4.48
NCDS18	326 089	9.15	5 961 543	23.78	3.37
NCDS19	260 316	9.02	4 803 209	19.16	2.83
NCDS20	282 640	9.73	5 134 816	20.48	3.17
NCDS24	293 598	10.38	5 272 901	21.03	3.32
NCDS26	328 771	10.99	5 940 411	23.70	3.48
NCDS50	368 320	13.21	6 541 063	26.09	3.87
NCDS52	347 655	11.97	6 253 213	24.94	3.65
NCDS53	444 298	8.03	7 375 079	29.42	4.49
NCDS8	292 326	9.71	5 303 949	21.16	3.22
NCDS88	309 393	9.74	5 542 995	22.11	3.42
NCDS89	320 760	9.42	5 790 379	23.10	3.53
NCDS90	575 792	11.92	8 983 398	35.83	5.31
NCDS93	338 289	10.75	5 949 992	23.73	3.69
NCDS94	344 422	10.80	6 151 755	24.54	3.74
NCDS97	270 397	7.26	4 931 892	19.67	3.07
NCDS105	596 526	15.27	9 113 088	36.35	5.41
NCDS106	448 437	13.71	7 229 172	28.84	4.44
NCDS107	483 678	21.66	7 990 956	31.88	4.66
NCDS108	400 903	16.93	6 815 528	27.19	4.16
NCDS109	451 745	18.89	7 560 007	30.16	4.49
NCCX10	446 271	9.38	6 912 577	27.57	3.81
NCCX12	386 912	7.78	6 075 948	24.24	3.46
NCCX18	368 217	7.18	5 805 146	23.16	3.63
NCCX24	329 609	6.76	5 123 490	20.44	2.94
NCCX8	758 583	18.24	10 167 608	40.56	5.50
WNZ	577 519	14.82	8 141 922	32.48	4.69
YC	251 323	7.35	3 804 367	15.18	9.00
YH1	539 877	6.78	7 841 706	31.28	3.70
YJX	500 139	6.98	7 392 604	29.49	3.58
ZH2	541 289	6.46	8 008 655	31.95	3.95
样本编号 Sample ID	SLAF 数量 SLAF number	平均深度/× Average depth	SNP 数量 SNP number	完整性/% Integrity	杂合率/% Heter ratio
ZJ	407 185	11.75	6 355 024	25.35	4.03
XM06-011	457 256	13.40	7 898 877	31.51	5.03
XM06-010	470 333	13.51	8 089 389	32.27	4.89
XM06-013	530 537	10.70	8 703 605	34.72	4.48
XM06-015	468 836	14.20	8 169 820	32.59	4.71
ZY06-001	661 570	13.65	10 768 142	42.95	6.52
ZY06-003	532 811	11.17	8 338 167	33.26	5.04
ZY06-019	527 067	12.63	8 289 233	33.07	4.64
ZY06-033	426 746	12.22	6 319 921	25.21	3.51
ZY06-037	602 969	15.19	9 522 082	37.98	4.68
MJ06-009	520 429	13.97	8 348 878	33.30	4.56
MJ06-018	530 471	9.67	8 246 077	32.89	4.20
CY06-008	441 645	11.65	7 146 514	28.51	3.79
LC06-027	399 991	11.92	6 634 614	26.47	3.29
JG06-041	544 734	11.78	8 940 958	35.67	5.49
LC06-003	471 185	15.77	7 558 053	30.15	3.58
CY06-025	515 104	12.35	8 162 424	32.56	4.39
JC06-003	679 013	23.88	10 828 450	43.19	6.45
PR06-002	604 820	18.15	9 397 217	37.49	4.81
ZY06-023	666 653	12.28	11 356 933	45.30	7.35
CY06-010	363 660	10.96	5 800 945	23.14	3.10
JD06-009	449 962	7.96	7 124 788	28.42	4.17
JG06-048	509 334	11.65	8 091 180	32.28	4.21
JG06-049	457 856	11.21	7 283 365	29.05	3.74
JG06-035	740 212	9.88	12 615 010	50.32	10.11
RCMYC	492 005	9.00	7 729 188	30.83	3.88
GXTLC	407 528	8.47	7 115 287	28.38	4.21
QJDS1	515 390	11.03	8 268 692	32.98	4.96
QJDS2	476 054	10.06	7 687 007	30.66	4.69
QJDS3	513 155	20.96	8 747 664	34.89	5.14
JJDS1	507 692	20.69	8 569 999	34.19	5.07
JJDS2	512 383	26.77	8 532 684	34.04	5.00
JJDS3	571 736	10.75	8 347 775	33.30	5.36
JJDS4	609 961	18.93	9 615 444	38.36	5.68
JJDS5	484 151	17.86	8 182 597	32.64	4.89
JJDS6	423 805	15.78	7 195 866	28.70	4.15
YYHY	586 477	14.33	8 926 982	35.61	4.22
CN1	460 655	13.79	7 382 921	29.45	3.63

样本群Sample group	A1	A2	B	C
A1
A2	0.396658
B	0.311787	0.218657
C	0.401042	0.084062	0.219729
D	0.379444	0.416460	0.272662	0.396544

基于SLAF-seq的茶组子房室数不稳定居群种质亲缘关系分析

Genetic Relationship Analysis of the Population Germplasms of Section Thea with Unstable Ovary Locule Number Based on SLAF-seq

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基于SLAF-seq的茶组子房室数不稳定居群种质亲缘关系分析

Genetic Relationship Analysis of the Population Germplasms of Section Thea with Unstable Ovary Locule Number Based on SLAF-seq

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摘要/Abstract

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图/表 9

参考文献 44

相关文章 15

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