title: Development of 107 SSR markers from whole genome shotgun sequences of Chinese bayberry (Myrica rubra) and their application in seedling identification.
abstract: Chinese bayberry (Myrica rubra Sieb. et Zucc.) is one of the important subtropical fruit crops native to the South of China and Asian countries. In this study, 107 novel simple sequence repeat (SSR) molecular markers, a powerful tool for genetic diversity studies, cultivar identification, and linkage map construction, were developed and characterized from whole genome shotgun sequences. M13 tailing for forward primers was applied as a simple method in different situations. In total, 828 alleles across 45 accessions were detected, with an average of 8 alleles per locus. The number of effective alleles ranged from 1.22 to 10.41 with an average of 4.08. The polymorphic information content (PIC) varied from 0.13 to 0.89, with an average of 0.63. Moreover, these markers could also be amplified in their related species Myrica cerifera (syn. Morella cerifera) and Myrica adenophora. Seventy-eight SSR markers can be used to produce a genetic map of a cross between 'Biqi' and 'Dongkui'. A neighbor-joining (NJ) tree was constructed to assess the genetic relationships among accessions, and the elite accessions 'Y2010-70', 'Y2012-140', and 'Y2012-145', were characterized as potential new genotypes for cultivation.
authors.affiliation: Department of Horticulture, Zhejiang University, Hangzhou 310058, China; Fruit Research Institute, Yuyao 315400, China; Institute of Horticulture, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China; Yuyao Agricultural and Forestry Bureau, Yuyao 315400, China; Bio-Macromolecules Analysis Lab, Analysis Center of Agrobiology and Environmental Sciences, Zhejiang University, Hangzhou 310058, China.
authors.forename: Hui-min
authors.initials: HM
authors.lastname: Jia
authors.forename: Yu-tong
authors.initials: YT
authors.lastname: Shen
authors.forename: Yun
authors.initials: Y
authors.lastname: Jiao
authors.forename: Guo-yun
authors.initials: GY
authors.lastname: Wang
authors.forename: Xiao
authors.initials: X
authors.lastname: Dong
authors.forename: Hui-juan
authors.initials: HJ
authors.lastname: Jia
authors.forename: Fang
authors.initials: F
authors.lastname: Du
authors.forename: Sen-miao
authors.initials: SM
authors.lastname: Liang
authors.forename: Chao-chao
authors.initials: CC
authors.lastname: Zhou
authors.forename: Wei-hua
authors.initials: WH
authors.lastname: Mao
authors.forename: Zhong-shan
authors.initials: ZS
authors.lastname: Gao
mesh_terms: D001483:Base Sequence; D002874:Chromosome Mapping / Q000379:methods; D014644:Genetic Variation / Q000235:genetics*; D018745:Genome, Plant / Q000235:genetics*; D018895:Microsatellite Repeats / Q000235:genetics; D008969:Molecular Sequence Data; D031641:Myrica / Q000145:classification* / Q000235:genetics*; D036226:Seedlings / Q000145:classification* / Q000235:genetics*; D017422:Sequence Analysis, DNA / Q000379:methods
keywords: Chinese bayberry; Genetic diversity; Simple sequence repeat (SSR)