您好，欢迎访问江苏省农业科学院 机构知识库！
江苏省农业科学院机构知识库

全部

  • 全部
  • 标题
  • 学者
  • 机构
  • 关键词

Characterization of the global transcriptome using Illumina sequencing and novel microsatellite marker information in seashore paspalum

文献类型： 外文期刊

作者： Jia, Xinping 1 ; Deng, Yanming 1 ; Sun, Xiaobo 1 ; Liang, Lijian 1 ; Ye, Xiaoqing 1 ;

作者机构： 1.Jiangsu Acad Agr Sci, Jiangsu Key Lab Bioresources Saline Soils, Prov Key Lab Agrobiol, Nanjing 210014, Jiangsu, Peoples R China

关键词： Seashore paspalum;Transcriptome;Illumina paired-end sequencing;Molecular markers;EST-SSR

期刊名称：GENES & GENOMICS （ 影响因子：1.839； 五年影响因子：1.329 ）

ISSN：

年卷期：

页码：

收录情况： SCI

摘要： Seashore paspalum (Paspalum vaginatum O. Swartz) is a halophytic warm-season perennial grass, which plays an important role in protection of environment. However, very limited transcriptomic and genomic information are currently available for seashore paspalum. In this study, the seashore paspalum transcriptome were sequenced using Illumina paired-end sequencing technology. In total, 32,603 unigenes with an average length of 970 bp were obtained by de novo assembly. Of the unigenes, 25,411 unigenes (77.94 %) had significant similarity with known proteins in the NCBI non-redundant protein and Swiss-Prot databases. Of these annotated unigenes, 20,962 and 10,620 unigenes were assigned to gene ontology categories and clusters of orthologous groups, respectively. A total of 4,699 unigenes were mapped into 118 Kyoto Encyclopedia of Genes and Genomes pathways. In addition, 3,010 potential simple sequence repeats (SSRs) were predicted for microsatellite analyse. Tri-nucleotide was the dominant repeat (1,583, 52.58 %), followed by dinucleotide (975, 32.39 %) and tetra-nucleotide (217, 7.21 %). Fifty SSR sites were randomly selected for validation and development of EST-SSR markers. This study provided the global sequence data for seashore paspalum and demonstrated that the Illumina paired-end sequencing is a fast and cost-effective approach to gene discovery and molecular marker development.

  • 相关文献

[1]High-throughput development of simple sequence repeat markers for genetic diversity research in Crambe abyssinica. Qi, Weicong,Lin, Feng,Zhao, Han,Liu, Yuhe,Huang, Bangquan,Cheng, Jihua,Zhang, Wei. 2016

[2]De novo assembly of the transcriptome of Neottopteris nidus using Illumina paired-end sequencing and development of EST-SSR markers. Jia, Xinping,Deng, Yanming,Sun, Xiaobo,Liang, Lijian,Su, Jiale.

[3]藜麦EST-SSR的开发及通用性分析. 张体付,戚维聪,顾闽峰,张晓林,李坦,赵涵. 2016

[4]基于苹果EST-SSR的梨种质资源遗传多样性分析. 路娟,吴俊,张绍铃,吴华清,张妤艳. 2010

[5]基于RNA-seq的两种柳树转录组微卫星特征比较分析. 郑纪伟,周洁,王保松,何旭东. 2019

[6]藜科6种耐盐植物遗传多样性的EST-SSR分析. 徐照龙,易金鑫,余桂红,张大勇,何晓兰,王秀娥,马鸿翔. 2011

[7]海滨雀稗EST资源的SSR信息分析及EST-SSR标记开发. 李华勇,王显生,王艳平,吴燕,沈奇,贾新平. 2016

[8]草莓EST-SSR标记的开发与应用. 王静,赵密珍,于红梅,王壮伟. 2011

[9]鸟巢蕨EST-SSR标记的开发与应用. 贾新平,邓衍明,孙晓波,梁丽建. 2015

[10]基于海甘蓝RNA-Seq序列开发EST-SSR分子标记. 戚维聪,程计华,黄邦全,李坦,林峰. 2014

[11]辣椒EST-SSRs分布特征及其应用. 支莉,王述彬,刁卫平,刘金兵,潘宝贵,戈伟,于彩云. 2010

[12]辣椒EST-SSR标记的开发. 李晶晶,王述彬,刘金兵,潘宝贵,陈劲枫. 2008

[13]Development of a novel and efficient strategy for practical identification of Pyrus spp (Rosaceae) cultivars using RAPD fingerprints. Lin, J.,Chang, Y. H.,Wang, X. C.,Fang, J. G.,Wang, X. C.,Fang, J. G.. 2011

[14]Efficient identification of ornamental peach cultivars using RAPD markers with a manual cultivar identification diagram strategy. Han, J.,Wang, W. Y.,Leng, X. P.,Jiang, W. B.,Guo, L.,Yu, M. L.,Ma, R. J.. 2014

[15]An improved strategy based on RAPD markers efficiently identified 95 peach cultivars. Yu, M. L.,Ma, R. J.,Shen, Z. J.,Wang, W. Y.,Fang, G.,Wang, W. Y.,Fang, G.. 2012

[16]Verification and evaluation of grain QTLs using RILs from TD70 x Kasalath in rice. Zhang, Y. D.,Liang, Y. L.,Wang, C. L.,Zhang, Y. D.,Zheng, J.,Wang, C. L.,Liang, Z. K.,Peng, Z. H.. 2015

[17]Molecular markers linked to specific characteristics of Prunus persica (L.) batsch. Yu Mingliang,Ma Ruijuan,Shen Zhijun,Zhang Zhen. 2007

[18]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.

[19]Effect of individual Sumai 3 chromosomes on resistance to scab spread within spikes and deoxynivalenol accumulation within kernels in wheat. Zhou, WC,Kolb, FL,Bai, GH,Domier, LL,Yao, JB.

[20]Inheritance and Mechanism of Resistance to Rice Stripe Disease in cv. Zhendao 88, a Chinese Rice Cultivar. Zhou, Tong,Wang, Lei,Fan, Yongjian,Cheng, Zhaobang,Zhou, Yijun,Nelson, Scot C.,Hu, John S..

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：江苏省农业科学院

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