Genome-Wide SNP Variation Characteristics and Development and Application of SNP-Panel in Eggplant

doi:10.16420/j.issn.0513-353x.2025-0631

Acta Horticulturae Sinica ›› 2026, Vol. 53 ›› Issue (9): 2609-2620.doi: 10.16420/j.issn.0513-353x.2025-0631

• Genetic & Breeding · Germplasm Resources · Molecular Biology • Previous Articles Next Articles

Genome-Wide SNP Variation Characteristics and Development and Application of SNP-Panel in Eggplant

WANG Benqi, HUANG Shuping, CHEN Xia, TAN Jie, ZHANG Hongyuan, WANG Junliang, CHEN Rong, ZHANG Min^*()

Vegetable Research Institute， Wuhan Academy of Agricultural Sciences， Wuhan 430065， China

Received:2025-11-13 Revised:2026-06-02 Online:2026-09-25 Published:2026-09-20
Contact: ZHANG Min

Abstract

Abstract:

To clarify the genomic variation characteristics of eggplant，develop practical molecular markers，and facilitate cultivar identification and molecular breeding，this study used 122 advanced-generation eggplant inbred lines as materials. Target-seq targeted sequencing technology was applied to analyze the genome-wide SNP variation characteristics of eggplant and develop SNP markers for application exploration. A total of 1 476 variant loci were identified，including 1 433 SNPs and 43 InDels. Transition-type SNP accounted for 71.34% with a transition/transversion ratio of 2.50，and the SNP density varied significantly among different chromosomes. On this basis，a SNP-Panel containing 1 100 loci was developed，which was evenly distributed across the genome. This panel can be used for genetic diversity analysis and genetic differentiation discrimination of varieties，construct DNA fingerprints to assist variety identification and protection，and efficiently conduct seed purity identification.

Key words: eggplant, whole-genome, SNP marker, SNP-Panel, fingerprint map, cultivar identification, targeted sequencing

CLC Number:

S641.1

WANG Benqi, HUANG Shuping, CHEN Xia, TAN Jie, ZHANG Hongyuan, WANG Junliang, CHEN Rong, ZHANG Min. Genome-Wide SNP Variation Characteristics and Development and Application of SNP-Panel in Eggplant[J]. Acta Horticulturae Sinica, 2026, 53(9): 2609-2620.

Figures/Tables 7

References 29

[1]	Bi Junge, Zeng Zhankui, Li Qiong, Hong Zhuangzhuang, Yan Qunxiang, Zhao Yue, Wang Chunping. 2024. QTL mapping of wheat grain quality-related traits and development of KASP markers in two RIL populations. Acta Agronomica Sinica, 50 (7):1669-1683. (in Chinese) doi: 10.3724/SP.J.1006.2024.31073 URL
	毕俊鸽, 曾占奎, 李琼, 洪壮壮, 颜群翔, 赵越, 王春平. 2024. 两个RIL群体中小麦籽粒品质相关性状QTL定位及KASP标记开发. 作物学报, 50 (7):1669-1683. doi: 10.3724/SP.J.1006.2024.31073
[2]	Campbell N, Harmon S, Narum S R. 2016. Genotyping in thousands by sequencing(GT-seq):a low cost,high-throughput,targeted SNP genotyping method. Journal of Animal Science, 94:16. doi: 10.2134/jas2016.94supplement416a
[3]	Carmona M J, Calonje M, Martínez-Zapater J M. 2007. The FT/TFL1 gene family in grapevine. Plant Molecular Biology, 63:637-650. doi: 10.1007/s11103-006-9113-z pmid: 17160562
[4]	Ding M, Wang K, Wang W, Chen M, Wu D, Xu C, Chen K. 2017. Development of high quality EST-SSR markers without stutter bands in peach and their application in cultivar discrimination and hybrid authentication. HortScience, 52:24-30. doi: 10.21273/HORTSCI11314-16 URL
[5]	Hayden M J, Nguyen T M, Waterman A, Chalmers K J. 2008. Multiplex-Ready PCR:a new method for multiplexed SSR and SNP genotyping. BMC Genomics, 9 (1):80-90. doi: 10.1186/1471-2164-9-80 URL
[6]	Hu W, Li F, Li H, Zhang L, Cai R P, Lin Q Y, Li Y, Qin X Y, Wang J B. 2025. QTL mapping for branch- and leaf-related traits with a high-density SNP genetic map in litchi(Litchi chinensis Sonn.). Horticultural Plant Journal, 11 (4):1541-1550. doi: 10.1016/j.hpj.2024.04.005 URL
[7]	Jiang Yaolan, Chen Guanlong, Li Tao, Sun Baojuan, Li Zhiliang, You Qian. 2024. Phenotypic genetic diversity analysis and comprehensive evaluation of eggplant germplasm resources. Molecular Plant Breeding, 22 (5):1543-1558. (in Chinese)
	江姚兰, 陈冠龙, 李涛, 孙保娟, 李植良, 游倩. 2024. 茄子种质资源表型遗传多样性分析及综合评价. 分子植物育种, 22 (5):1543-1558.
[8]	Koleva D T, Bengochea A W, Mellor S B, Ochoa-Fernandez R, Nelson D R, Møller B L, Gillam E M J, Sørensen M. 2024. Sequence diversity in the monooxygenases involved in oxime production in plant defense and signaling:a conservative revision in the nomenclature of the highly complex CYP79 family. The Plant Journal, 120:1236-1256. doi: 10.1111/tpj.v120.3 URL
[9]	Leng Yifeng, Luo Fan, Chen Congshun, Ding Xin, Cai Guangze. 2024. Genome-wide SNPs based on GBS sequencing reveal genetic relationship and differentiation of maize landraces in Daliang Mountain. Acta Agriculturae Zhejiangensis, 36 (1):32-47. (in Chinese)
	冷益丰, 罗樊, 陈从顺, 丁鑫, 蔡光泽. 2024. 基于GBS测序的全基因组SNP揭示大凉山玉米地方品种资源的亲缘关系与遗传分化. 浙江农业学报, 36 (1):32-47. doi: 10.3969/j.issn.1004-1524.20230012
[10]	Leuenberger J, Sharma S K, McLean K, Pelle R, Berard A, Lesage M L, Porhel D, Dantec M A, Chauvin J E, Bryan G J. 2024. A genomic dataset integrating genotyping-by-sequencing,SolCAP array and PCR marker data on tetraploid potato advanced breeding lines. Frontiers in Plant Science, 15:1384401-1384413. doi: 10.3389/fpls.2024.1384401 URL
[11]	Liu Jingwei, Zhang Ruiping, Shi Dakun, Zheng Qiudao, Li Fangjie, Wei Feng, Wei Xiaoyi, Ma Junfeng, Wang Jiamu, Ma Yi. 2024. Genetic diversity analysis and heterotic grouping of 43 maize inbred lines. Seed, 43 (6):100-104. (in Chinese)
	刘经纬, 张瑞平, 史大坤, 郑秋道, 李方杰, 魏锋, 卫晓轶, 马俊峰, 王稼苜, 马毅. 2024. 43个玉米自交系遗传多样性分析及其杂种优势群划分. 种子, 43 (6):100-104.
[12]	Navarro M A, Navarro C, Hernández L E, Garnica M, Franco-Zorrilla J M, Burko Y, González-Serrano S, García-Mina J M, Pruneda-Paz J, Chory J, Leyva A. 2024. GLABRA 2 transcription factor integrates arsenic tolerance with epidermal cell fate determination. New Phytologist, 244:1882-1900. doi: 10.1111/nph.v244.5 URL
[13]	Solberg S, Van Zonneveld M A, Rakha M, Taher D, Prohens J, Jarret R, Dooijeweert W, Giovannini P. 2022. Global strategy for the conservation and use of eggplants. Biodiversity and Conservation, 31(Suppl 1):1-28.
[14]	Torkamaneh D, Boyle B, Belzile F. 2018. Efficient genome-wide genotyping strategies and data integration in crop plants. Theoretical and Applied Genetics, 131 (3):499-511. doi: 10.1007/s00122-018-3056-z pmid: 29352324
[15]	Van der Vossen E A G, Gros J, Sikkema A, Muskens M, Wouters D, Wolters P, Pereira A, Allefs S. 2005. The Rpi-blb2 gene from Solanum bulbocastanum is an Mi-1 gene homolog conferring broad-spectrum late blight resistance in potato. The Plant Journal, 44:208-222. doi: 10.1111/tpj.2005.44.issue-2 URL
[16]	Wang D H, Lin W Q, Wei Q Z, Li Q, Wu S H, Chen T X, Nie H, Bao C L, Yang J G, Xiao X O. 2026. An efficient Eggplant1.6K liquid SNP chip for genetic analysis and marker-assisted selection in eggplant. Horticultural Plant Journal, 12 (2):489-492. doi: 10.1016/j.hpj.2025.10.005 URL
[17]	Wang Ruiyun, Wang Jiping, Li Runzhi. 2010. SNP and its application in molecular plant breeding. Journal of Shanxi Agricultural University(Natural Science Edition), 30 (2):5-10. (in Chinese)
	王瑞云, 王计平, 李润植. 2010. SNP及其在分子植物育种中的应用. 山西农业大学学报(自然科学版), 30 (2):5-10.
[18]	Wang Y, Clevenger J P, Illa-Berenguer E, Meulia T, van der Knaap E, Sun L. 2019. A comparison of sun,ovate,fs8.1 and auxin application on tomato fruit shape and gene expression. Plant and Cell Physiology, 60:1067-1081. doi: 10.1093/pcp/pcz024 URL
[19]	Wang Yan, Han Yingpeng, Li Wenbin. 2015. New progress in soybean molecular marker research. Soybean Science, 34 (1):8-12. (in Chinese)
	王艳, 韩英鹏, 李文滨. 2015. 大豆分子标记研究新进展. 大豆科学, 34 (1):8-12.
[20]	Xiao Xi’ou, Nie Heng, Lin Wenqiu, Wu Caiyu. 2025. Development of genome-wide SNP markers in eggplant. Acta Horticulturae Sinica, 52 (1):88-100. (in Chinese) doi: 10.16420/j.issn.0513-353x.2023-0586
	肖熙鸥, 聂珩, 林文秋, 吴彩玉. 2025. 茄子全基因组SNP标记的开发. 园艺学报, 52 (1):88-100. doi: 10.16420/j.issn.0513-353x.2023-0586
[21]	Xu Jinqing, Bian Haiyan, Wang Handong, Wang Lei, Zhang Bo, You En, Li Xiaolan, Chen Wenjie, Shen Yuhu. 2022. Efficient identification of oat germplasm resources based on genome-wide SNPs. Journal of Triticeae Crops, 42 (6):1042-1050. (in Chinese)
	徐金青, 边海燕, 王寒冬, 王蕾, 张波, 尤恩, 李晓兰, 陈文杰, 沈裕虎. 2022. 基于全基因组SNP高效鉴定燕麦种质资源. 麦类作物学报, 42 (6):1042-1050.
[22]	Xue Xiaojie, Du Xiaoyun, Gai Yi, Tang Yan, Sun Yanxia, Song Laiqing, Jiang Zhongwu. 2020. Application progress of SNP development based on GBS sequencing in plants. Jiangsu Agricultural Sciences, 48 (13):7-13. (in Chinese)
	薛晓杰, 杜晓云, 盖艺, 唐岩, 孙燕霞, 宋来庆, 姜中武. 2020. 基于GBS测序开发SNP在植物上的应用进展. 江苏农业科学, 48 (13):7-13.
[23]	You Yuanyuan, Wang Shuai, Fang Yingying, Qi Cheng, Li Shupei, Zhang Ying, Chen Yuhui, Liu Wei, Liu Fuzhong, Shu Jinshuai. 2024. Genome-wide InDel variation characteristics and molecular marker development and application in eggplant. Acta Horticulturae Sinica, 51 (3):520-532. (in Chinese)
	尤园园, 王帅, 方莹莹, 齐诚, 李淑培, 张映, 陈钰辉, 刘伟, 刘富中, 舒金帅. 2024. 茄子全基因组InDel变异特征及分子标记开发和应用. 园艺学报, 51 (3):520-532.
[24]	Yu Cannan, Guo Anfang, Lu Chun, Miao Hongjun, Hou Xiaoyu, Yuan Tianyi, Liu Guoyuan, Wei Hui, Zhang Jian, Yu Chunmei. 2025. Identification and development of SNP markers for Lagerstroemia indica leaf color based on transcriptome and genome analysis. Acta Horticulturae Sinica, 52 (7):1803-1816. (in Chinese) doi: 10.16420/j.issn.0513-353x.2024-0650
	喻灿楠, 郭安芳, 陆春, 缪红军, 侯小玉, 袁天逸, 刘国元, 魏辉, 张健, 余春梅. 2025. 基于转录组和基因组开发紫薇叶色相关的SNP分子标记. 园艺学报, 52 (7):1803-1816. doi: 10.16420/j.issn.0513-353x.2024-0650
[25]	Yu Q, Li S, Su X F, Chen X X, Dong Y H, Yao Z W, Jiang N Y, Chai S, Zhang Z H, Xu K P. 2025. Melon2K array:A versatile 2K liquid SNP chip for melon genetics and breeding. Horticultural Plant Journal, 11 (1):314-322. doi: 10.1016/j.hpj.2023.12.011 URL
[26]	Yuan Na, Xu Qinyuan, Xu Zhaolong, Zhou Ling, Liu Xiaoqing, Chen Xin, Du Jianchang. 2024. The development and verification of SNP lquid chips for common bean based on targeted sequencing technology. Acta Horticulturae Sinica, 51 (5):1017-1032. (in Chinese) doi: 10.16420/j.issn.0513-353x.2023-0301
	袁娜, 徐勤圆, 徐照龙, 周玲, 刘晓庆, 陈新, 杜建厂. 2024. 基于靶向测序技术的菜豆SNP 液相芯片开发及验证. 园艺学报, 51 (5):1017-1032.
[27]	Zhang Hongyuan, Zhang Min, Tan Jie, Chen Xia, Huang Shuping, Tan Taiming. 2021. A primer SmemboI-2 for purity identification of eggplant cultivar Zilong No.3 based on SNP marker and its application[Chinese Patent]. Application No.:CN202110876543.2. (in Chinese)
	张洪源, 张敏, 谈杰, 陈霞, 黄树苹, 谈太明. 2021. 一种基于SNP标记的紫龙三号茄子纯度鉴定的引物SmemboI-2及应用[中国专利]. 申请号:CN202110876543.2.
[28]	Zhang Tao. 2023. Genetic diversity analysis of some domestic pepper cultivars based on KASP markers[M. D. Dissertation]. Urumqi: Xinjiang Agricultural University. (in Chinese)
	张涛. 2023. 基于KASP标记的国内部分辣椒品种的遗传多样性分析[硕士论文]. 乌鲁木齐: 新疆农业大学.
[29]	Zheng Jieming. 2023. Genetic analysis and preliminary mapping of major genes for bacterial wilt resistance in eggplant[M. D. Dissertation]. Nanning: Guangxi University. (in Chinese)
	郑洁明. 2023. 茄子青枯病抗性遗传分析与主效基因初定位[硕士论文]. 南宁: 广西大学.

序号 No.	茄子类型 Eggplant type	序号 No.	茄子类型 Eggplant type	序号 No.	茄子类型 Eggplant type
WH1	黑棒 Black stick eggplant	WH42	绿萼棒茄 Green calyx stick eggplant	WH83	绿萼棒茄 Green calyx stick eggplant
WH2	黑线 Black slender eggplant	WH43	绿萼棒茄 Green calyx stick eggplant	WH84	绿萼棒茄 Green calyx stick eggplant
WH3	黑线 Black slender eggplant	WH44	绿萼棒茄 Green calyx stick eggplant	WH85	绿萼棒茄 Green calyx stick eggplant
WH4	黑棒 Black stick eggplant	WH45	绿萼棒茄 Green calyx stick eggplant	WH86	绿萼棒茄 Green calyx stick eggplant
WH5	黑线 Black slender eggplant	WH46	绿萼棒茄 Green calyx stick eggplant	WH87	绿萼棒茄 Green calyx stick eggplant
WH6	黑棒 Black stick eggplant	WH47	绿萼棒茄 Green calyx stick eggplant	WH88	黑棒 Black stick eggplant
WH7	黑线 Black slender eggplant	WH48	绿萼棒茄 Green calyx stick eggplant	WH89	黑棒 Black stick eggplant
WH8	黑线 Black slender eggplant	WH49	绿萼棒茄 Green calyx stick eggplant	WH90	黑棒 Black stick eggplant
WH9	黑线 Black slender eggplant	WH50	绿萼棒茄 Green calyx stick eggplant	WH91	黑棒 Black stick eggplant
WH10	黑线 Black slender eggplant	WH51	绿萼棒茄 Green calyx stick eggplant	WH92	黑棒 Black stick eggplant
WH11	黑线 Black slender eggplant	WH52	绿萼棒茄 Green calyx stick eggplant	WH93	黑棒 Black stick eggplant
WH12	黑线 Black slender eggplant	WH53	绿萼棒茄 Green calyx stick eggplant	WH94	黑棒 Black stick eggplant
WH13	黑线 black slender eggplant	WH54	绿萼棒茄 Green calyx stick eggplantt	WH95	黑棒 Black stick eggplant
WH14	黑线 Black slender eggplant	WH55	绿萼棒茄 Green calyx stick eggplant	WH96	黑棒 Black stick eggplant
WH15	黑线 Black slender eggplant	WH56	绿萼棒茄 Green calyx stick eggplant	WH97	黑棒 Black stick eggplant
WH16	黑线 Black slender eggplant	WH57	绿萼棒茄 Green calyx stick eggplant	WH98	黑棒 Black stick eggplant
WH17	绿萼棒茄 Green calyx stick eggplant	WH58	绿萼棒茄 Green calyx stick eggplant	WH99	绿萼棒茄 Green calyx stick eggplant
WH18	绿萼棒茄 Green calyx stick eggplant	WH59	绿萼棒茄 Green calyx stick eggplant	WH100	黑棒 Black stick eggplant
WH19	黑线 Black slender eggplant	WH60	绿萼棒茄 Green calyx stick eggplant	WH101	黑棒 Black stick eggplant
WH20	黑线 Black slender eggplant	WH61	绿萼棒茄 Green calyx stick eggplant	WH102	黑棒 Black stick eggplant
WH21	绿茄 Green eggplant	WH62	绿萼棒茄 Green calyx Stick Eggplant	WH103	黑棒 Black stick eggplant
WH22	白茄 White eggplant	WH63	绿萼棒茄 Green calyx stick eggplant	WH104	黑棒 Black stick eggplant
WH23	花茄 Striped eggplant	WH64	绿萼棒茄 Green calyx stick eggplant	WH105	黑棒 Black stick eggplant
WH24	黑棒 Black stick eggplant	WH65	绿萼棒茄 Green calyx stick eggplant	WH106	绿萼棒茄 Green calyx stick eggplant
WH25	黑棒 Black stick eggplant	WH66	绿萼棒茄 Green calyx stick eggplant	WH107	绿萼棒茄 Green calyx stick eggplant
WH26	花茄 Striped eggplant	WH67	绿萼棒茄 Green calyx stick eggplant	WH108	黑棒 Black stick eggplant
WH27	花茄 Striped eggplant	WH68	绿萼棒茄 Green calyx stick eggplant	WH109	黑棒 Black stick eggplant
WH28	圆茄 Globe eggplant	WH69	绿萼棒茄 Green calyx stick eggplant	WH110	红线 Red slender eggplant
WH29	白茄 White eggplant	WH70	黑棒 Black stick eggplant	WH111	红线 Red slender eggplant
WH30	黑棒 Black stick eggplant	WH71	黑线 Black slender eggplant	WH112	红线 Red slender eggplant
WH31	黑棒 Black stick eggplant	WH72	黑线 Black slender eggplant	WH113	红线 Red slender eggplant
WH32	绿萼棒茄 Green calyx stick eggplant	WH73	黑棒 Black stick eggplant	WH114	红线 Red slender eggplant
WH33	绿萼棒茄 Green calyx stick eggplant	WH74	绿萼棒茄 Green calyx stick eggplant	WH115	红线 Red slender eggplant
WH34	绿萼棒茄 Green calyx stick eggplant	WH75	绿萼棒茄 Green calyx stick eggplant	WH116	红线 Red slender eggplant
WH35	绿萼棒茄 Green calyx stick eggplant	WH76	绿萼棒茄 Green calyx stick eggplant	WH117	红线 Red slender eggplant
WH36	绿萼棒茄 Green calyx stick eggplant	WH77	红茄 Red eggplant	WH118	绿萼棒茄 Green calyx stick eggplant
WH37	绿萼棒茄 Green calyx stick eggplant	WH78	绿萼棒茄 Green calyx stick eggplant	WH119	红线 Red slender eggplant
WH38	绿萼棒茄 Green calyx stick eggplant	WH79	竹丝茄 Zhusi eggplant	WH120	红线 Red slender eggplant
WH39	绿萼棒茄 Green calyx stick eggplant	WH80	绿萼棒茄 Green calyx stick eggplant	WH121	红线 Red slender eggplant
WH40	绿萼棒茄 Green calyx stick eggplant	wh81	绿萼棒茄 Green calyx stick eggplant	WH122	红线 Red slender eggplant
WH41	绿萼棒茄 Green calyx stick eggplant	WH82	绿萼棒茄 Green calyx stick eggplant

序号 No.	茄子类型 Eggplant type	序号 No.	茄子类型 Eggplant type	序号 No.	茄子类型 Eggplant type
WH1	黑棒 Black stick eggplant	WH42	绿萼棒茄 Green calyx stick eggplant	WH83	绿萼棒茄 Green calyx stick eggplant
WH2	黑线 Black slender eggplant	WH43	绿萼棒茄 Green calyx stick eggplant	WH84	绿萼棒茄 Green calyx stick eggplant
WH3	黑线 Black slender eggplant	WH44	绿萼棒茄 Green calyx stick eggplant	WH85	绿萼棒茄 Green calyx stick eggplant
WH4	黑棒 Black stick eggplant	WH45	绿萼棒茄 Green calyx stick eggplant	WH86	绿萼棒茄 Green calyx stick eggplant
WH5	黑线 Black slender eggplant	WH46	绿萼棒茄 Green calyx stick eggplant	WH87	绿萼棒茄 Green calyx stick eggplant
WH6	黑棒 Black stick eggplant	WH47	绿萼棒茄 Green calyx stick eggplant	WH88	黑棒 Black stick eggplant
WH7	黑线 Black slender eggplant	WH48	绿萼棒茄 Green calyx stick eggplant	WH89	黑棒 Black stick eggplant
WH8	黑线 Black slender eggplant	WH49	绿萼棒茄 Green calyx stick eggplant	WH90	黑棒 Black stick eggplant
WH9	黑线 Black slender eggplant	WH50	绿萼棒茄 Green calyx stick eggplant	WH91	黑棒 Black stick eggplant
WH10	黑线 Black slender eggplant	WH51	绿萼棒茄 Green calyx stick eggplant	WH92	黑棒 Black stick eggplant
WH11	黑线 Black slender eggplant	WH52	绿萼棒茄 Green calyx stick eggplant	WH93	黑棒 Black stick eggplant
WH12	黑线 Black slender eggplant	WH53	绿萼棒茄 Green calyx stick eggplant	WH94	黑棒 Black stick eggplant
WH13	黑线 black slender eggplant	WH54	绿萼棒茄 Green calyx stick eggplantt	WH95	黑棒 Black stick eggplant
WH14	黑线 Black slender eggplant	WH55	绿萼棒茄 Green calyx stick eggplant	WH96	黑棒 Black stick eggplant
WH15	黑线 Black slender eggplant	WH56	绿萼棒茄 Green calyx stick eggplant	WH97	黑棒 Black stick eggplant
WH16	黑线 Black slender eggplant	WH57	绿萼棒茄 Green calyx stick eggplant	WH98	黑棒 Black stick eggplant
WH17	绿萼棒茄 Green calyx stick eggplant	WH58	绿萼棒茄 Green calyx stick eggplant	WH99	绿萼棒茄 Green calyx stick eggplant
WH18	绿萼棒茄 Green calyx stick eggplant	WH59	绿萼棒茄 Green calyx stick eggplant	WH100	黑棒 Black stick eggplant
WH19	黑线 Black slender eggplant	WH60	绿萼棒茄 Green calyx stick eggplant	WH101	黑棒 Black stick eggplant
WH20	黑线 Black slender eggplant	WH61	绿萼棒茄 Green calyx stick eggplant	WH102	黑棒 Black stick eggplant
WH21	绿茄 Green eggplant	WH62	绿萼棒茄 Green calyx Stick Eggplant	WH103	黑棒 Black stick eggplant
WH22	白茄 White eggplant	WH63	绿萼棒茄 Green calyx stick eggplant	WH104	黑棒 Black stick eggplant
WH23	花茄 Striped eggplant	WH64	绿萼棒茄 Green calyx stick eggplant	WH105	黑棒 Black stick eggplant
WH24	黑棒 Black stick eggplant	WH65	绿萼棒茄 Green calyx stick eggplant	WH106	绿萼棒茄 Green calyx stick eggplant
WH25	黑棒 Black stick eggplant	WH66	绿萼棒茄 Green calyx stick eggplant	WH107	绿萼棒茄 Green calyx stick eggplant
WH26	花茄 Striped eggplant	WH67	绿萼棒茄 Green calyx stick eggplant	WH108	黑棒 Black stick eggplant
WH27	花茄 Striped eggplant	WH68	绿萼棒茄 Green calyx stick eggplant	WH109	黑棒 Black stick eggplant
WH28	圆茄 Globe eggplant	WH69	绿萼棒茄 Green calyx stick eggplant	WH110	红线 Red slender eggplant
WH29	白茄 White eggplant	WH70	黑棒 Black stick eggplant	WH111	红线 Red slender eggplant
WH30	黑棒 Black stick eggplant	WH71	黑线 Black slender eggplant	WH112	红线 Red slender eggplant
WH31	黑棒 Black stick eggplant	WH72	黑线 Black slender eggplant	WH113	红线 Red slender eggplant
WH32	绿萼棒茄 Green calyx stick eggplant	WH73	黑棒 Black stick eggplant	WH114	红线 Red slender eggplant
WH33	绿萼棒茄 Green calyx stick eggplant	WH74	绿萼棒茄 Green calyx stick eggplant	WH115	红线 Red slender eggplant
WH34	绿萼棒茄 Green calyx stick eggplant	WH75	绿萼棒茄 Green calyx stick eggplant	WH116	红线 Red slender eggplant
WH35	绿萼棒茄 Green calyx stick eggplant	WH76	绿萼棒茄 Green calyx stick eggplant	WH117	红线 Red slender eggplant
WH36	绿萼棒茄 Green calyx stick eggplant	WH77	红茄 Red eggplant	WH118	绿萼棒茄 Green calyx stick eggplant
WH37	绿萼棒茄 Green calyx stick eggplant	WH78	绿萼棒茄 Green calyx stick eggplant	WH119	红线 Red slender eggplant
WH38	绿萼棒茄 Green calyx stick eggplant	WH79	竹丝茄 Zhusi eggplant	WH120	红线 Red slender eggplant
WH39	绿萼棒茄 Green calyx stick eggplant	WH80	绿萼棒茄 Green calyx stick eggplant	WH121	红线 Red slender eggplant
WH40	绿萼棒茄 Green calyx stick eggplant	wh81	绿萼棒茄 Green calyx stick eggplant	WH122	红线 Red slender eggplant
WH41	绿萼棒茄 Green calyx stick eggplant	WH82	绿萼棒茄 Green calyx stick eggplant

编号 Number	染色体位置 Chromosomal location	正向引物（5'-3'） Forward primer	反向引物（3'-5'） Reverse primer	基因型 Genotype
1	1-75596174	ACCTCCAAATGACCTAAACTCGAT	GAAAGCGACCAAGAATCAAATCCA	G/A
2	2-53408663	TATAGTCCTACACGCGTAATCCAC	TTGAACTCTGCTTGAACTGTTGAC	T/A
3	3-75945665	CTGCGGAAGAGATGAAAGCTAAAT	GGATATCAAGGCACGAATAGACCT	A/G
4	5-14882164	GGCAACACCTTTGATCTTATAGGC	TCTTGAATGTTAAGCTTTGCCAGG	G/A
5	6-26929244	TGGAGTTATGCTATGATTGGGCTC	GAGGTACTTATAAGAAGCAGCGGA	C/A
6	7-50204837	ATCTCTAATCTAAGGGCACGAACC	TGGCCTTGATTATGGGAAAAAGTG	C/T
7	8-29769817	AGTAGCTAAATCCACAACAAGGGT	GGTTGATTAGCCAAGAACACAACA	C/T
8	9-32528946	GTGGAATGATGAAGTTCAAGGCAA	GAGCCTATATAACTCTTGTCCCCG	A/G
9	10-37059820	ATCGAAGTGTCTTCTAGTCCTTGG	CTTAAGGGAGGTGTAATAGTGGGG	T/C

编号 Number	染色体位置 Chromosomal location	正向引物（5'-3'） Forward primer	反向引物（3'-5'） Reverse primer	基因型 Genotype
1	1-75596174	ACCTCCAAATGACCTAAACTCGAT	GAAAGCGACCAAGAATCAAATCCA	G/A
2	2-53408663	TATAGTCCTACACGCGTAATCCAC	TTGAACTCTGCTTGAACTGTTGAC	T/A
3	3-75945665	CTGCGGAAGAGATGAAAGCTAAAT	GGATATCAAGGCACGAATAGACCT	A/G
4	5-14882164	GGCAACACCTTTGATCTTATAGGC	TCTTGAATGTTAAGCTTTGCCAGG	G/A
5	6-26929244	TGGAGTTATGCTATGATTGGGCTC	GAGGTACTTATAAGAAGCAGCGGA	C/A
6	7-50204837	ATCTCTAATCTAAGGGCACGAACC	TGGCCTTGATTATGGGAAAAAGTG	C/T
7	8-29769817	AGTAGCTAAATCCACAACAAGGGT	GGTTGATTAGCCAAGAACACAACA	C/T
8	9-32528946	GTGGAATGATGAAGTTCAAGGCAA	GAGCCTATATAACTCTTGTCCCCG	A/G
9	10-37059820	ATCGAAGTGTCTTCTAGTCCTTGG	CTTAAGGGAGGTGTAATAGTGGGG	T/C

F₁群体 F₁group	正常株数 Normal plants number	疑似杂株数 Number of suspected hybrid plants	纯度/% Purity
1	95	0	100.00
2	87	2	97.77
3	79	0	100.00
4	75	0	100.00
5	54	28	65.85
6	14	38	26.92

Genome-Wide SNP Variation Characteristics and Development and Application of SNP-Panel in Eggplant

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