Ahmed S, Griffin T S, Kraner D, Schäffner M K, Sharma D, Hazel M, Leitch A R, Orians C M, Han W Y, Stepp J R, Robbat A, Matyas C, Long C L, Xue D Y, Houser R F, Cash S B. 2019. Environmental factors variably impact tea secondary metabolites in the context of climate change. Frontiers in Plant Science, 10, 939.

Ban Q Y, Pan Y T, Pan C, Hu X, Li Y Y, Jiang C J. 2021. EST-SSR analysis of genetic diversity in tea germplasm resources in Shaanxi Province. Journal of Northwest A&F University, 49, 69–78. (in Chinese)

Beukelaer H D, Davenport G F, Fack V. 2018. Core Hunter 3: Flexible core subset selection. BMC Bioinformatics, 19, 203.

Bolger A, Lohse M, Usadel B. 2014. Trimmomatic: A flexible trimmer for Illumina sequence data. Bioinformatics, 30, 2114–2120.

Bradbury P J, Zhang Z W, Kroon D E, Casstevens T M, Ramdoss Y, Buckler E S. 2007. TASSEL: Software for association mapping of complex traits in diverse samples. Bioinformatics, 23, 2633–2635.

Brown A H D. 1989. Core collections: A practical approach to genetic resources management. Genome, 31, 818–824.

Chen J H, Qu K L, Zhang Y C, Sun Y Q, Li B, Kang Y, Dong S J. 2024.. Construction of Ziziphus jujuba var. spinosa core collection based on phenotypic traits. Journal of Shenyang Agricultural University, 55, 176–186. (in Chinese)

Clarke J D. 2009. Cetyltrimethyl ammonium bromide (CTAB) DNA miniprep for plant DNA isolation. Cold Spring Harbor Protocols, 3, 5177.

Danecek P, Auton A, Abecasis G R, Albers C A, Banks E, DePristo M A, Handsaker R E, Lunter G, Marth G, Sherry S T, McVean G, Durbin R. 2011. The variant call format and VCFtools. Bioinformatics, 27, 2156–2158.

Eungwanichayapant P D, Popluechai S. 2009. Accumulation of catechins in tea in relation to accumulation of mRNA from genes involved in catechin biosynthesis. Plant Physiology and Biochemistry, 47, 94–97.

Frankel O H, Brown A H D. 1984. Current plant genetic resources-a critical appraisal. In: Genetics: New Frontiers. vol. 4. Oxford & IBH Publishing, New Delhi. pp. 1–11.

Fumagalli M. 2013. Assessing the effect of sequencing depth and sample size in population genetics inferences. PLoS ONE, 8, 79667.

GB/T 8313–2018. 2018. Method for the Determination of Catechins Content in Tea by HPLC. Standards Press of China, Beijing. (in Chinese)

Gulati A, Rajkumar S, Karthigeyan S, Sud R K, Vijayan D, Thomas J, Rajkumar R, Das S C, Tamuly P, Hazarika M, Ahuja P S. 2009. Catechin and catechin fractions as biochemical markers to study the diversity of Indian tea (Camellia sinensis (L.) O. Kuntze) germplasm. Chemistry and Biodiversity, 6, 1042–1052.

Van Hintum T J L, Brown A H D, Spillane C, Hodgkin T. 2000. Core Collections of Plant Genetic Resources. Bioversity International, Rome, Italy. pp. 24–30.

Hu X. 2012. Research progress on tea germplasm resources in Shaanxi. Journal of Anhui Agricultural Sciences, 40, 51–52. (in Chinese)

Huang F Y, Duan J H, Lei Y, Liu Z, Kang Y K, Luo Y, Chen Y Y, Li Y Y, Liu S Q, Li S J, Liu Z H. 2022. Genetic diversity, population structure and core collection analysis of Hunan tea plant germplasm through genotyping-by-sequencing. Beverage Plant Research, 2, 1–7.

IBM Corp. 2016. IBM SPSS Statistics for Windows. version 24.0. IBM Corp, Armonk, NY.

Jin J Q, Ma J Q, Ma C L, Yao M Z, Chen L. 2014. Determination of catechin content in representative Chinese tea germplasms. Journal of Agricultural and Food Chemistry, 62, 9436–9441.

Jing X Y, Qian D D, Jiang X H, Wang P, Bao H H, Li D J, Zhu Y H, Zhu G T, Zhang C Z. 2025. Genetic diversity of the self-incompatibility locus in diploid potato. Journal of Integrative Agriculture, 24, 1448–1460.

Kaur V, Gomashe S S, Aravind J, Yadav S K, Sheela, Singh D, Chauhan S S, Kumar V, Jat B, Tayade N R, Saroha A, Kaushik N, Langyan S, Singh M, Wankhede D P, Singh K, Kumar A, Singh G P. 2023. Multi-environment phenotyping of linseed (Linum usitatissimum L.) germplasm for morphological and seed quality traits to assemble a core collection. Industrial Crops and Products, 206, 117657.

Koorevaar T, Willemsen J H, Visser R G F, Arens P, Maliepaard C. 2023. Construction of a strawberry breeding core collection to capture and exploit genetic variation. BMC Genomics, 24, 740.

Korte A, Vilhjálmsson B J, Segura V, Platt A, Long Q, Nordborg M. 2012. A mixed-model approach for genome-wide association studies of correlated traits in structured populations. Nature Genetics, 44, 1066–1071.

Kumar A, Kumar S, Singh K B, Prasad M, Thakur J K. 2020. Designing a mini-core collection effectively representing 3004 diverse rice accessions. Plant Communications, 1, 100049.

Li H, Durbin R. 2009. Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics, 25, 1754–1760.

Li S, Ji F F, Hou F F, Shi Q Q, Xing G M, Chen H, Weng Y Q, Kang X P. 2021. Morphological, palynological and molecular assessment of Hemerocallis core collection. Scientia Horticulturae, 285, 110181.

Li X B, Yan W G, Agrama H, Hu B L, Jia L, Jia M, Jackson A, Moldenhauer K, McClung A, Wu D X. 2010. Genotypic and phenotypic characterization of genetic differentiation and diversity in the USDA rice mini-core collection. Genetica, 138, 1221–1230.

Lassois L, Denancé C, Ravon E, Guyader A, Guisnel R, Hibrand-Saint-Oyant L, Poncet C, Lasserre-Zuber P, Feugey L, Durel C. 2016. Genetic diversity, population structure, parentage analysis, and construction of core collections in the French apple germplasm based on SSR markers. Plant Molecular Biology Reporter, 34, 827–844.

Le L L, Yang X M, Xie X Y, Zhang W T, Wang G B, Cao F L. 2024. Construction of the core germplasm of yellowhorn (Xanthoceras sorbifolium Bunge) using physiological traits and SSR markers. Scientia Horticulturae, 323, 112556.

Leydon A R, Weinreb C, Venable E, Reinders A, Ward J M, Johnson M A. 2017. The molecular dialog between flowering plant reproductive partners defined by SNP-Informed RNA-Sequencing. The Plant Cell, 29, 984–1006.

Liao Y Y, Zhou X C, Zeng L T. 2021. How does tea (Camellia sinensis) produce specialized metabolites which determine its unique quality and function: A review. Critical Reviews in Food Science and Nutrition, 62, 11–17.

Lin Z C, Eaves D J, Sánchez-Morán E, Franklin F H, Franklin-Tong V E. 2015. The Papaver rhoeas S determinants confer self-incompatibility to Arabidopsis thaliana in planta. Science, 350, 684–687.

Linde C C, Selmes H. 2012. Genetic diversity and mating type distribution of Tuber melanosporum and their significance to truffle cultivation in artificially planted truffiéres in Australia. Applied and Environmental Microbiology, 78, 6534–6539.

Liu M, Hu X, Wang X, Zhang J J, Peng X B, Hu Z G, Liu Y F. 2020. Constructing a core collection of the medicinal plant Angelica biserrata using genetic and metabolic data. Frontiers in Plant Science, 11, 600249.

Magoma G, Wachira F, Obanda M, Imbuga M, Agong S. 2000. The use of catechins as biochemical markers in diversity studies of tea (Camellia sinensis). Genetic Resources and Crop Evolution, 47, 107–114.

McKenna A, Hanna M, Banks E, Sivachenko A, Cibulskis K, Kernytsky A, Garimella K, Altshuler D, Gabriel S, Daly M, DePristo M A. 2010. The genome analysis toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data. Genome Research, 20, 1297–1303.

Mahmoodi R, Dadpour M R, Hassani D, Zeinalabedini M, Vendramin E, Micali S, Nahandi F Z. 2019. Development of a core collection in Iranian walnut (Juglans regia L.) germplasm using the phenotypic diversity. Scientia Horticulturae, 249, 439–448.

McLaughlin J F, Winker K. 2020. An empirical examination of sample size effects on population demographic estimates in birds using single nucleotide polymorphism (SNP) data. PeerJ, 8, 9939.

Nie X H, Wang Z H, Liu N W, Song L, Yan B B, Xing Y, Zhang Q, Fang K F, Zhao Y L, Chen X, Wang G P, Qin L, Cao Q Q. 2021. Fingerprinting 146 Chinese chestnut (Castanea mollissima Blume) accessions and selecting a core collection using SSR markers. Journal of Integrative Agriculture, 20, 1277–1286.

Niu S Z, Koiwa H, Song Q F, Qiao D H, Chen J, Zhao D G, Chen Z W, Wang Y, Zhang T Y. 2020. Development of core-collections for Guizhou tea genetic resources and GWAS of leaf size using SNP developed by genotyping-by-sequencing. PeerJ, 8, 8572.

Purcell S, Neale B M, Todd-Brown K, Thomas L, Ferreira M, Bender D, Maller J, Sklar P, Bakker P I W, Daly M J, Sham P C. 2007. Plink: A tool set for whole-genome association and population-based linkage analyses. The American Journal of Human Genetics, 81, 559–575.

Rodríguez-Nevado C, Lam T T, Holmes E C, Pagán I. 2018. The impact of host genetic diversity on virus evolution and emergence. Ecology Letters, 21, 253–263.

Roohanitaziani R, Maagd R A, Lammers M, Molthoff J, Meijer-Dekens F, Kaauwen M, Richard Finkers R, Tikunov Y, Visser R G F, Bovy A. 2020. Exploration of a resequenced tomato core collection for phenotypic and genotypic variation in plant growth and fruit quality traits. Genes, 11, 1278.

Sa K J, Kim D M, Oh J S, Park H, Hyun D Y, Lee S, Rhee J H, Lee J K. 2021. Construction of a core collection of native Perilla germplasm collected from South Korea based on SSR markers and morphological characteristics. Scientific Reports, 11, 23891.

Saravanan M, John K M M, Kumar R R, Pius P K, Sasikumar R. 2005. Genetic diversity of UPASI tea clones (Camellia sinensis (L.) O. Kuntze) on the basis of total catechins and their fractions. Phytochemistry, 66, 561–565.

Sun W H, Chen C L, Xu L L, Tao L L, Tong X Y, Tian Y P, Jiang H B, Chen L B, Wen H L, Liu S R, Wei C L, Zhu J Y. 2024. Genetic diversity analysis and core collection construction of tea plant from the Yunnan Province of China using ddRAD sequencing. BMC Plant Biology, 24, 1163.

Tanaka N, Shenton M, Kawahara Y, Kumagai M, Sakai H, Kanamori H, Yonemaru J, Fukuoka S I, Sugimoto K, Ishimoto M, Wu J Z, Ebana K. 2020. Investigation of the genetic diversity of a rice core collection of Japanese landraces using whole-genome sequencing. Plant and Cell Physiology, 61, 2087–2096.

Taniguchi F, Kimura K, Saba T, Ogino A, Yamaguchi S, Tanaka J. 2014. Worldwide core collections of tea (Camellia sinensis) based on SSR markers. Tree Genetics & Genomes, 10, 1555–1565.

Tao L L, Yang T, Chen H R, Wen H , Xie H, Luo L J, Huang K L, Zhu J Y, Liu S R, Wei C L. 2023. Core collection construction of tea plant germplasm in Anhui Province based on genetic diversity analysis using simple sequence repeat markers. Journal of Integrative Agriculture, 22, 2719–2728.

Upadhyaya H D, Wang Y H, Gowda C L L, Sharma S. 2014. Erratum to: Association mapping of maturity and plant height using SNP markers with the sorghum mini core collection. Theoretical and Applied Genetics, 127, 1461.

Wang M, Yang J, Li J L, Zhou X C,Yao Xiao Y, Liao Y Y, Tang J C, Dong F, Zeng L T. 2022. Effects of temperature and light on quality-related metabolites in tea [Camellia sinensis (L.) Kuntze] leaves. Food Research International, 161, 111882.

Wang R X, Zhong Y H, Hong W J, Luo H W, Li D L, Zhao L, Zhang H Y, Wang J. 2023. Genetic diversity evaluation and core collection construction of pomegranate (Punica granatum L.) using genomic SSR markers. Scientia Horticulturae, 319, 112192.

Wang X, Bao K, Reddy U K, Bai Y, Hammar S A, Iiao C, Wehner T C, Ramírez-Madera A O , Weng Y Q, Grumet R, Fei Z J. 2018. The USDA cucumber (Cucumis sativus L.) collection: Genetic diversity, population structure, genome-wide association studies, and core collection development. Horticulture Research, 5, 1–13.

Wang X C, Chen L, Yang Y J. 2011. Establishment of core collection for Chinese tea germplasm based on cultivated region grouping and phenotypic data. Frontiers of Agriculture in China, 5, 344–350.

Wang X L, Cao Z M, Gao C J, Li K. 2021. Strategy for the construction of a core collection for Pinus yunnanensis Franch. to optimize timber based on combined phenotype and molecular marker data. Genetic Resources and Crop Evolution, 68, 3219–3240.

Xu Y Q, Zhang Y N, Chen J X, Fang W, Du Q Z, Yin J F. 2018. Quantitative analyses of the bitterness and astringency of catechins from green tea. Food Chemistry, 258, 16–24.

Yao L, Caffin N, D’Arcy B, Jiang Y M, Shi J, Singanusong R, Liu X, Datta N, Kakùda Y, Xu Y. 2005. Seasonal variations of phenolic compounds in Australia-grown tea (Camellia sinensis). Journal of Agricultural and Food Chemistry, 53, 6477–6483.

Yuan Q J, Zhang Z Y, Hu J, Guo L, Shao A J, Huang L. 2010. Impacts of recent cultivation on genetic diversity pattern of a medicinal plant, Scutellaria baicalensis (Lamiaceae). BMC Genetics, 11, 29.

Zhang D Y, Li Y Y, Zhao X W, Zhang C L, Liu D K, Lan S,Yin W L, Zhong J L. 2023. Molecular insights into self-incompatibility systems: From evolution to breeding. Plant Communications, 5, 100719.

Zhang H X, Bai R, Wu F,Guo W Q, Zhang Y, Qi Y, Zhang Y F, Ma J X, Zhang J Y. 2019. Genetic diversity, phylogenetic structure and development of core collections in Melilotus accessions from a Chinese gene bank. Scientific Reports, 9, 13017.

Zhang W Y, Zhang Y J, Qiu H J, Guo Y F, Wan H, Zhang X L, Scossa F, Alseekh S, Zhang Q, Wang P, Xu L, Schmidt M, Jia X X, Li D L, Zhu A T, Guo F, Chen W, Ni D J, Usadel B, Fernie A R, Wen W W. 2020. Genome assembly of wild tea tree DASZ reveals pedigree and selection history of tea varieties. Nature Communications, 11, 3719.

Zhang X T, Chen S, Shi L Q, Gong D P, Zhang S C, Zhao Q, Zhan D L, Vasseur L, Wang Y B, Yu J X, Liao Z Y, Xu X D, Qi R, Wang W L, Ma Y R, Wang P J, Ye N X, Ma D N, Shi Y, Wang H F, et al. 2021. Haplotype-resolved genome assembly provides insights into evolutionary history of the tea plant Camellia sinensis. Nature Genetics, 53, 1250–1259.

Zhao M Z, Song J Y, Wu A T, Hu T, Li J Q. 2018. Mining beneficial genes for aluminum tolerance within a core collection of rice tandraces through genome-wide association mapping with high density SNPs from specific-locus amplified fragment sequencing. Frontiers in Plant Science, 9, 1838.

Zhao Y X, Zhao Z, Chen C G, Yu Y, Jeyaraj A, Zhuang J, Arkorful E, Thangaraj K, Periakaruppan R, Kou X B, Chen X, Li X H. 2022. Characterization of self-incompatibility and expression profiles of CsMCU2 related to pollination in different varieties of tea plants. Scientia Horticulturae, 293, 110693.

Zhou X J, Guo J B, Pandey M K, Varshney P K, Huang L, Luo H Y, Liu N, Chen W G, Lei Y, Liao B S, Jiang H F. 2021. Dissection of the genetic basis of yield-related traits in the Chinese peanut mini-Core collection through genome-wide association studies. Frontiers in Plant Science, 12, 637284.

Zhu X L, Zhou R, Qin H Z, Chai S F, Tang J L, Li Y Y, Xiao W. 2023. Genome-wide diversity evaluation and core germplasm extraction in ex situ conservation: A case of golden Camellia tunghinensis. Evolutionary Applications, 16, 1519–1530.

Zhang C Y, Li H L, Mei P, Ye Y Y, Liu D D, Gong Y, Liu H R, Yao M Z, Ma C L. 2025. QTL detection and candidate gene analysis of the anthracnose resistance locus in tea plant (Camellia sinensis). Journal of Integrative Agriculture, 24, 2240–2250.