Abstract
An accurate depiction of the genetic relationship, the development of core collection, and genome-wide association analysis (GWAS) are key for the effective exploitation and utilization of genetic resources. Here, genotyping-by-sequencing (GBS) was used to characterize 415 tea accessions mostly collected from the Guizhou region in China. A total of 30,282 high-quality SNPs was used to estimate the genetic relationships, develop core collections, and perform GWAS. We suggest 198 and 148 accessions to represent the core set and mini-core set, which consist of 47% and 37% of the whole collection, respectively, and contain 93–95% of the total SNPs. Furthermore, the frequencies of all alleles and genotypes in the whole set were very well retained in the core set and mini-core set. The 415 accessions were clustered into 14 groups and the core and the mini-core collections contain accessions from each group, species, cultivation status and growth habit. By analyzing the significant SNP markers associated with multiple traits, nine SNPs were found to be significantly associated with four leaf size traits, namely MLL, MLW, MLA and MLSI (P < 1.655E−06). This study characterized the genetic distance and relationship of tea collections, suggested the core collections, and established an efficient GWAS analysis of GBS result.
Highlights
Tea, coffee and cocoa are considered as the world’s three best-known beverages and are the most produced or consumed beverages worldwide (Wambulwa et al, 2016; Liu et al, 2017)
Based on the Neighbor Joining (NJ) cluster analysis on the genetic distance matrix, the 415 accessions could be clustered into fourteen groups (Fig. 2A; Table S1) based on cultivation status, growth habits, and species, and the here-derived core and mini-core collections of origin
Group one consisted of 71 accessions, most of which were cultivation type, ancient landraces, and C. sinensis
Summary
Coffee and cocoa are considered as the world’s three best-known beverages and are the most produced or consumed beverages worldwide (Wambulwa et al, 2016; Liu et al, 2017). Development of corecollections for Guizhou tea genetic resources and GWAS of leaf size using SNP developed by genotyping-by-sequencing. Tea is highly nutritious with medicinal properties, offering a wealth of health benefits. Tea consumption is beneficial for reducing the risks of various cancers, diseases related to obesity, and neurological and cardiovascular dysfunctions (Naghma & Hasan, 2013; Hayat et al, 2015). The rich flavors and multiple health-promoting functions of tea are conferred by 700 bioactive compounds such as catechins, caffeine, theanine, and volatiles (Xia et al, 2017)
Sign-in/Register to view highlights & summary Sign-in/Register to access full text options 
Talk to us
Join us for a 30 min session where you can share your feedback and ask us any queries you have
Schedule a callDisclaimer: All third-party content on this website/platform is and will remain the property of their respective owners and is provided on "as is" basis without any warranties, express or implied. Use of third-party content does not indicate any affiliation, sponsorship with or endorsement by them. Any references to third-party content is to identify the corresponding services and shall be considered fair use under The CopyrightLaw.
