Population Structure Analysis of Old Germplasms of Chinese Bayberry Based on WGS
Based on whole genome sequencing(WGS)technology,SNPs covering the whole genome of Chinese bayberry were excavated,and the distribution characteristics of SNPs were clarified.A population structure analysis of 36 old germplasm was conducted.A total of 36 germplasm resources obtained high-quality sequencing data of 398.26 Gb,with a sequencing depth of 37.34x,an average GC content of 38.57％,and a Q30 of 97.56％.A total of 5 362 434 SNP loci were detected,and SNP numbers ranging from 655 299 to 897 575 for Chr.1 to Chr.8.A total of 16 regions with low SNP variation frequency with a total length of 9.45 Mb.Population evolution analysis were divided into three groups,with six germplasm from Tengchong,Yunnan clustered into group Ⅰ,which has the farthest genetic relationship with other germplasm.Four germplasms from Jingzhou,Hunan were clustered into Group Ⅱ.The the other 26 germplasms are clustered into Group Ⅲ,the closest genetic relationship exists between Huangyan and Xianju germplasm in Zhejiang Province,with'Dongkui'being the main cultivar.The analysis of population linkage imbalance found that the linkage disequilibrium(LD)decay rate of the Tengchong,Yunnan population was the fastest,followed by the Huangyan,Zhejiang population,and the Cixi,Zhejiang population was the slowest.A Fst analysis was conducted on the populations of Huangyan('Dongkui')and Cixi('Biqizhong')in Zhejiang Province.The genes with significant differences between these two populations were mainly related to stress resistance,secondary metabolites,and plant morphogenesis,resulting in phenotypic differences between these two varieties.Population structure analysis found that the genetic backgrounds of Fujian,Jingzhou,Hunan and Laifeng,Hubei included the genetic backgrounds of more than three populations,including Xianju,Zhejiang.Additionally,hybridization signals were also found in the Jingzhou,Hunan population,indicating that the quality of Xianju,Zhejiang bayberry had a significant impact on the formation of cultivated cultivars in Fujian,Hunan and Hubei over the past century.
Chinese bayberrywhole genomeSNPresourcepopulation evolutionpopulation structure
万方数据
维普
