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CLC number: S667.6

On-line Access: 2014-11-04

Received: 2014-02-21

Revision Accepted: 2014-07-15

Crosschecked: 2014-10-15

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Journal of Zhejiang University SCIENCE B 2014 Vol.15 No.11 P.997-1005

http://doi.org/10.1631/jzus.B1400051


Development of 107 SSR markers from whole genome shotgun sequences of Chinese bayberry (Myrica rubra) and their application in seedling identification* #


Author(s):  Hui-min Jia1, Yu-tong Shen1, Yun Jiao1, Guo-yun Wang2, Xiao Dong1, Hui-juan Jia1, Fang Du1, Sen-miao Liang3, Chao-chao Zhou4, Wei-hua Mao5, Zhong-shan Gao1

Affiliation(s):  1. Department of Horticulture, Zhejiang University, Hangzhou 310058, China; more

Corresponding email(s):   gaozhongshan@zju.edu.cn

Key Words:  Chinese bayberry, Simple sequence repeat (SSR), Genetic diversity


Hui-min Jia, Yu-tong Shen, Yun Jiao, Guo-yun Wang, Xiao Dong, Hui-juan Jia, Fang Du, Sen-miao Liang, Chao-chao Zhou, Wei-hua Mao, Zhong-shan Gao. Development of 107 SSR markers from whole genome shotgun sequences of Chinese bayberry (Myrica rubra) and their application in seedling identification[J]. Journal of Zhejiang University Science B, 2014, 15(11): 997-1005.

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author="Hui-min Jia, Yu-tong Shen, Yun Jiao, Guo-yun Wang, Xiao Dong, Hui-juan Jia, Fang Du, Sen-miao Liang, Chao-chao Zhou, Wei-hua Mao, Zhong-shan Gao",
journal="Journal of Zhejiang University Science B",
volume="15",
number="11",
pages="997-1005",
year="2014",
publisher="Zhejiang University Press & Springer",
doi="10.1631/jzus.B1400051"
}

%0 Journal Article
%T Development of 107 SSR markers from whole genome shotgun sequences of Chinese bayberry (Myrica rubra) and their application in seedling identification
%A Hui-min Jia
%A Yu-tong Shen
%A Yun Jiao
%A Guo-yun Wang
%A Xiao Dong
%A Hui-juan Jia
%A Fang Du
%A Sen-miao Liang
%A Chao-chao Zhou
%A Wei-hua Mao
%A Zhong-shan Gao
%J Journal of Zhejiang University SCIENCE B
%V 15
%N 11
%P 997-1005
%@ 1673-1581
%D 2014
%I Zhejiang University Press & Springer
%DOI 10.1631/jzus.B1400051

TY - JOUR
T1 - Development of 107 SSR markers from whole genome shotgun sequences of Chinese bayberry (Myrica rubra) and their application in seedling identification
A1 - Hui-min Jia
A1 - Yu-tong Shen
A1 - Yun Jiao
A1 - Guo-yun Wang
A1 - Xiao Dong
A1 - Hui-juan Jia
A1 - Fang Du
A1 - Sen-miao Liang
A1 - Chao-chao Zhou
A1 - Wei-hua Mao
A1 - Zhong-shan Gao
J0 - Journal of Zhejiang University Science B
VL - 15
IS - 11
SP - 997
EP - 1005
%@ 1673-1581
Y1 - 2014
PB - Zhejiang University Press & Springer
ER -
DOI - 10.1631/jzus.B1400051


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.

基于杨梅基因组鸟枪法测序开发的107个SSR标记及其在品系鉴定中应用

开发多态性高的基因组简单重复序列(SSR)标记,为杨梅遗传多样性、遗传图谱构建及品种鉴定相关研究奠定基础。 从杨梅全基因组鸟枪法测序数据中新开发了107个SSR标记,并应用于品种间遗传多样性分析及品系鉴定。 应用生物信息学软件从基因组测序数据中搜索SSR位点并设计相应引物,添加通用的M13尾巴和荧光标识筛选多态性高的SSR标记。 开发的107个基因组SSR标记可以广泛应用于杨梅种质资源和遗传育种研究,鉴定出三个杨梅新品系。
杨梅;简单序列重复(SSR)标记;遗传多样性

Darkslateblue:Affiliate; Royal Blue:Author; Turquoise:Article

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