您好，欢迎访问浙江省农业科学院 机构知识库！
浙江省农业科学院机构知识库

全部

  • 全部
  • 标题
  • 学者
  • 机构
  • 关键词

Development of Cymbidium ensifolium genic-SSR markers and their utility in genetic diversity and population structure analysis in cymbidiums

文献类型： 外文期刊

作者： Li, Xiaobai 1 ; Jin, Feng 2 ; Jin, Liang 1 ; Jackson, Aaron 3 ; Huang, Cheng 4 ; Li, Kehu 5 ; Shu, Xiaoli 6 ;

作者机构： 1.Zhejiang Acad Agr Sci, Hangzhou 310021, Zhejiang, Peoples R China

2.Hubei Univ, Coll Life Sci, Wuhan 430062, Peoples R China

3.ARS, USDA, Dale Bumpers Natl Rice Res Ctr, Stuttgart, AR 72160 USA

4.Shaoxing Cty Agr Bur, Agr Technol Extens Stn, Shaoxing 312000, Peoples R China

5.Univ Hong Kong, Sch Biol Sci, Hong Kong, Hong Kong, Peoples R China

6.Zhejiang Univ, State Key Lab Rice Biol, Int Atom Energy Agcy Collaborating Ctr, Hangzhou 310029, Peoples R China

关键词： Cymbidium ensifolium;Genic-SSR;Genetic diversity;Population structure

期刊名称：BMC GENETICS （ 影响因子：2.797； 五年影响因子：3.263 ）

ISSN： 1471-2156

年卷期： 2014 年 15 卷

页码：

收录情况： SCI

摘要： Background: Cymbidium is a genus of 68 species in the orchid family, with extremely high ornamental value. Marker-assisted selection has proven to be an effective strategy in accelerating plant breeding for many plant species. Analysis of cymbidiums genetic background by molecular markers can be of great value in assisting parental selection and breeding strategy design, however, in plants such as cymbidiums limited genomic resources exist. In order to obtain efficient markers, we deep sequenced the C. ensifolium transcriptome to identify simple sequence repeats derived from gene regions (genic-SSR). Result: The 7,936 genic-SSR markers were identified. A total of 80 genic-SSRs were selected, and primers were designed according to their flanking sequences. Of the 80 genic-SSR primer sets, 62 were amplified in C. ensifolium successfully, and 55 showed polymorphism when cross-tested among 9 Cymbidium species comprising 59 accessions. Unigenes containing the 62 genic-SSRs were searched against Non-redundant (Nr), Gene Ontology database (GO), eukaryotic orthologous groups (KOGs) and Kyoto Encyclopedia of Genes and Genomes (KEGG) database. The search resulted in 53 matching Nr sequences, of which 39 had GO terms, 18 were assigned to KOGs, and 15 were annotated with KEGG. Genetic diversity and population structure were analyzed based on 55 polymorphic genic-SSR data among 59 accessions. The genetic distance averaged 0.3911, ranging from 0.016 to 0.618. The polymorphic index content (PIC) of 55 polymorphic markers averaged 0.407, ranging from 0.033 to 0.863. A model-based clustering analysis revealed that five genetic groups existed in the collection. Accessions from the same species were typically grouped together; however, C. goeringii accessions did not always form a separate cluster, suggesting that C. goeringii accessions were polyphyletic. Conclusion: The genic-SSR identified in this study constitute a set of markers that can be applied across multiple Cymbidium species and used for the evaluation of genetic relationships as well as qualitative and quantitative trait mapping studies. Genic-SSRs coupled with the functional annotations provided by the unigenes will aid in mapping candidate genes of specific function.

  • 相关文献

[1]Genetic diversity and population structure of cultivated bromeliad accessions assessed by SRAP markers. Zhang, Fei,Ge, Yaying,Wang, Weiyong,Shen, Xiaolan,Liu, Xiaojing,Liu, Jianxin,Tian, Danqing,Yu, Xinying. 2012

[2]Evaluation of the genetic diversity and population structure of five indigenous and one introduced Chinese goose breeds using microsatellite markers. Li, Jinjun,Yuan, Qingyuan,Shen, Junda,Tao, Zhengrong,Li, Guoqing,Tian, Yong,Wang, Deqian,Chen, Li,Lui, Lizhi. 2012

[3]Genetic diversity, population structure, pollen morphology and cross-compatibility among Chinese Cymbidiums. Li, Xiaobai,Xiang, Lin,Wang, Yan,Luo, Jie,Wu, Chao,Sun, Chongbo,Xie, Ming. 2014

[4]Genetic diversity and population structure of vegetable soybean (Glycine max (L.) Merr.) in China as revealed by SSR markers. Dong, Dekun,Fu, Xujun,Yuan, Fengjie,Zhu, Shenlong,Li, Baiquan,Yang, Qinghua,Yu, Xiaomin,Zhu, Danhua,Chen, Pengyin. 2014

[5]Genetic diversity and population structure of common bean (Phaseolus vulgaris) landraces from China revealed by a new set of EST-SSR markers. Xu, Shengchun,Hu, Qizan,Liu, Na,Ye, Lingwei,Gong, Yaming,Wang, Guofu,Mao, Weihua.

[6]Genetic variations within a collection of anthuriums unraveled by morphological traits and AFLP markers. Ge, Yaying,Zhang, Fei,Shen, Xiaolan,Yu, Yongming,Pan, Xiaoyun,Liu, Xiaojing,Liu, Jianxin,Pan, Gangmin,Tian, Danqing.

[7]A study of genetic diversity of colored barley (Hordeum vulgare L.) using SSR markers. Hua, Wei,Zhu, Jinghuan,Shang, Yi,Wang, Junmei,Jia, Qiaojun,Yang, Jianming,Zhang, Xiaoqin,Li, Chengdao.

[8]基于genic-SSR标记的MCID法鉴定浙江白沙枇杷地方种质资源. 孙钧,李晓颖,徐红霞,张林,陈俊伟. 2018

[9]Comparative Proteomic Analysis of Labellum and Inner Lateral Petals in Cymbidium ensifolium Flowers. Li, Xiaobai,Xu, Weiwei,Chowdhury, Moytri Roy,Jin, Feng. 2014

[10]Genetic Structure and Eco-Geographical Differentiation of Cultivated Keng Rice (Oryza sativa L. subsp japonica) in China Revealed by Microsatellites. Zhang Dong-ling,Wang Mei-xing,Qi Yong-wen,Sun Jun-li,Wang Feng-mei,Li Jin-jie,Zhang Hong-liang,Li Zi-chao,Wang Mei-xing,Qi Yong-wen,Sun Jun-li. 2012

[11]Development of Genic Simple Sequence Repeat Panels for Population Classification of Chinese Cymbidium Species. Li, Xiaobai,Xie, Ming,Jin, Liang,Li, Xiaobai,Li, Weirui,Di, Chenlu,Wu, Dianxing,Huang, Cheng.

[12]Genome wide linkage disequilibrium in Chinese asparagus bean (Vigna. unguiculata ssp. sesquipedialis) germplasm: Implications for domestication history and genome wide association studies. Xu, P.,Wu, X.,Wang, B.,Liu, Y.,Lu, Z.,Wang, S.,Li, G.,Luo, J.,Ehlers, J. D.,Close, T. J.,Roberts, P. A..

[13]Structural characterization and applications of ITS2 from rice leaffolders Cnaphalocrocis medinalis and Marasmia patnalis (Lepidoptera: Pyralidae). Yang, Yajun,Wu, Zhihong,Xu, Hongxing,Zheng, Xusong,Lu, Zhongxian. 2017

[14]Genetic diversity and relationships among 47 loquat varieties revealed by EST-SSR markers. Li, Xiao-ying,Xu, Hong-xia,Chen, Jun-wei. 2013

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

[16]Genetic Diversity Analysis of Faba Bean (Vicia faba L.) Based on EST-SSR Markers. Gong Ya-ming,Xu Sheng-chun,Hu Qi-zan,Zhang Gu-wen,Ding Ju,Mao Wei-hua,Li Ze-yun. 2011

[17]Development of EST-SSR markers to study genetic diversity in hyacinth bean (Lablab purpureus L.). Zhang, Guwen,Xu, Shengchun,Gong, Yaming,Hu, Qizan,Mao, Weihua. 2013

[18]Genetic evidence of local adaption and long distance migration in Blumeria graminis f. sp hordei populations from China. Zhu, Jinghuan,Shang, Yi,Hua, Wei,Wang, Junmei,Jia, Qiaojun,Yang, Jianming,Zhou, Yijun,Liu, Mengdao.

[19]Isolation and characterization of putative functional long terminal repeat retrotransposons in the Pyrus genome. Jiang, Shuang,Sun, Yongwang,Teng, Yuanwen,Jiang, Shuang,Cai, Danying,Sun, Yongwang,Teng, Yuanwen,Sun, Yongwang,Teng, Yuanwen. 2016

[20]Assessment of genetic diversity by simple sequence repeat markers among forty elite varieties in the germplasm for malting barley breeding. Wang, Jun-mei,Yang, Jian-ming,Zhu, Jing-huan,Jia, Qiao-jun,Tao, Yue-zhi. 2010

作者其他论文 更多>>
置顶
购物车
反馈

© 京ICP备09089781号-29 主办单位：浙江省农业科学院

学术资源： 中国农业科学院 农业专业知识服务系统 农科联盟资源共建共享平台 中国农业科技文献与信息服务平台 中国农业期刊集成服务平台