Characterization of SNPs in strawberry cultivars in China

文献类型： 外文期刊

第一作者： Ge, A. J.

作者： Ge, A. J.;Dong, Q. H.;Han, J.;Liu, H.;Fang, J. G.;Li, X. D.;Zhao, M. Z.

作者机构：

关键词： SNPs;Strawberry;EST;Genetic diversity

期刊名称：GENETICS AND MOLECULAR RESEARCH （ 影响因子：0.764； 五年影响因子：0.912 ）

ISSN： 1676-5680

年卷期： 2013 年 12 卷 1 期

页码：

收录情况： SCI

摘要： Single nucleotide polymorphisms (SNPs) occur at high frequencies in both plant and animal genomes and can provide broad genome coverage and reliable estimates of genetic relationships. The availability of expressed sequence tag (EST) data has made it feasible to discover SNPs. DNA analysis is crucial in genetic studies not only for strawberry breeding programs but also for characterization of hybrids and species. We cloned 96 EST sequences, and 116 SNPs were discovered by comparing 16 strawberry cultivars grown in the region of Nanjing, China. Sequence alignment of 6 group sequences derived from 16 sample cultivars yielded 116 SNPs, within a total genomic sequence length of 1755 bp. The SNPs were discovered with a mean frequency of one SNP per 15 bp. These SNPs were comprised of 57% transitions, 32.7% transversions, 8.6% InDels, and 1.7% others, based on which a phylogenetic tree was constructed. Among the 116 SNPs, 75% were located within the open reading frame (ORF), while 25% were located outside the ORF. All 16 cultivars scattered well in the dendrogram derived from the SNP data, demonstrating that SNPs can be a powerful tool for cultivar identification and genetic diversity analysis in strawberries.

分类号：

  • 相关文献

[1]Genetic Diversity, Population Structure, and Linkage Disequilibrium of an Association-Mapping Panel Revealed by Genome-Wide SNP Markers in Sesame. Cui, Chengqi,Mei, Hongxian,Liu, Yanyang,Zhang, Haiyang,Zheng, Yongzhan,Mei, Hongxian,Liu, Yanyang,Zhang, Haiyang,Zheng, Yongzhan,Mei, Hongxian,Liu, Yanyang,Zhang, Haiyang,Zheng, Yongzhan. 2017

[2]Genetic diversity and population structure of core watermelon (Citrullus lanatus) genotypes using DArTseq-based SNPs. Yang, Xingping,Ren, Runsheng,Xu, Jinhua,Li, Pingfang,Zhang, Man,Liu, Guang,Yao, Xiefeng,Yang, Xingping,Ren, Runsheng,Xu, Jinhua,Li, Pingfang,Zhang, Man,Liu, Guang,Yao, Xiefeng,Ren, Runsheng,Ray, Rumiana,Kilian, Andrzej.

[3]Characterization of 40 single nucleotide polymorphism (SNP) via T (m)-shift assay in the mud crab (Scylla paramamosain). Feng, Nana,Ma, Hongyu,Ma, Chunyan,Xu, Zhen,Li, Shujuan,Jiang, Wei,Liu, Yuexing,Ma, Lingbo,Feng, Nana,Xu, Zhen,Li, Shujuan,Jiang, Wei,Liu, Yuexing.

[4]Identification of SSR markers using soybean (Glycine max) ESTs from globular stage embryos. Li, Ai Qin,Zhao, Chuan Zhi,Wang, Xing Jun,Liu, Zhan Ji,Song, Guo Qi,Yin, Juan,Li, Chang Sheng,Xia, Han,Bi, Yu Ping,Zhang, Li Feng. 2010

[5]IDENTIFICATION OF EXPRESSED RESISTANCE GENE ANALOGS (RGA) AND DEVELOPMENT OF RGA-SSR MARKERS IN TOBACCO. Yuan, Qinghua,Xie, Ruihong,Zhang, Zhenchen,Ma, Zhuwen,Li, Jiqin,Li, Shuling,Chen, Junbiao,Lu, Yonghua. 2015

[6]Phylogenetic Analysis and Expression Patterns of the MAPK Gene Family in Wheat (Triticum aestivum L.). Lian Wei-wei,Tang Yi-miao,Gao Shi-qing,Zhang Zhao,Zhao Xin,Zhao Chang-ping,Lian Wei-wei. 2012

[7]Discovering conserved insect microRNAs from expressed sequence tags. Yu, Lun,Li, Fei,Lin, Kejian,Liang, Jingdong. 2010

[8]Homologous analysis of SSR-ESTs and transferability of wheat SSR-EST markers across barley, rice and maize. Tang, Jifeng,Gao, Lifeng,Cao, Yongsheng,Jia, Jizeng. 2006

[9]Progress in Functional Genomics of Plant. Zhang, Shengli,Li, Dongfang,Zhou, Yan,Xu, Guifang,He, Jie,Lu, Hongwei. 2011

[10]Association Analysis between Erythrocyte Membrane Surface Structure and Genes in Cyprinus carpio with Different Vitality at Lower Temperature. Liang, Liqun,Lei, Qingquan,Liang, Liqun,Chang, Yumei. 2009

[11]Gene Expression Profiling and Identification of Resistance Genes to Aspergillus flavus Infection in Peanut through EST and Microarray Strategies. Bhatnagar, Deepak,Yu, Jiujiang,Guo, Baozhu,Fedorova, Natalie D.,Wan, Chun-Hua,Wang, Wei,Nierman, William C.,Chen, Xiaoping,Chen, Xiaoping,Nierman, William C.. 2011

[12]Molecular identification of the gene encoding porcine tristetraprolin (TTP). Guan, Zheng-Bing,Lu, Jian,Shui, Yan. 2010

[13]EST-SSR markers derived from and its Laminaria digitata transferable application in Saccharina japonica. Liu, Fuli,Wang, Feijiu,Liu, Fuli,Duan, Delin. 2012

[14]Construction of cDNA Library and Analysis of SSRs in ESTs of Litchi (Litchi chinensis Sonn.). Xiang, X.,Sun, Q. M.,Ou, L. X.,Zhao, J. S.,Chen, J. Z.,Cai, C. H.. 2012

[15]Constructing and random sequencing analysis of normalized cDNA library of testis tissue from oriental river prawn (Macrobrachium nipponense). Qiao, Hui,Fu, Hongtuo,Jin, Shubo,Wu, Yan,Jiang, Sufei,Gong, Yongsheng,Xiong, Yiwei.

[16]Construction of a cDNA library and preliminary analysis of expressed sequence tags in Piper hainanense. Fan, R.,Ling, P.,Hao, C. Y.,Li, F. P.,Huang, L. F.,Wu, B. D.,Wu, H. S.,Fan, R.,Huang, L. F.,Wu, H. S.,Hao, C. Y.,Li, F. P.,Wu, B. D.,Ling, P.. 2015

[17]Analysis of 2,297 expressed sequence tags (ESTs) from a cDNA library of flax (Linum ustitatissimum L.) bark tissue. Li, Xiang,Chen, Xin-Bo,Long, Song-Hua,Deng, Xin,Wang, Yu-Fu,Qiao, Rui-Qing,Qiu, Cai-Sheng,Guo, Yuan,Hao, Dong-Mei,Jia, Wan-Qi.

[18]Gene Expression Profiles of Response to Water Stress at the Jointing Stage in Wheat. Shi Jun-feng,Mao Xin-guo,Jing Rui-lian,Pang Xiao-bin,Chang Xiao-ping,Shi Jun-feng,Shi Jun-feng,Wang Yu-guo. 2010

[19]Construction of a Full-Length cDNA Library of Gossypium hirsutum L. and Identification of Two MADS-Box Genes. Wang Li-na,Wu Dong,Yu Shu-xun,Fan Shu-li,Song Mei-zhen,Pang Chao-you,Liu Jun-jie. 2011

[20]Construction of suppression subtractive hybridization library from Cirsium setosum (Willd.) MB under glyphosate stress. Wei, Shou-hui,Huang, Hong-juan,Liu, Yan,Liu, Hua-zhao,Liu, Yan,Zhang, Chao-xian,Wei, Shou-hui,Huang, Hong-juan,Liu, Tong. 2012

作者其他论文 更多>>

微信小程序