您好，欢迎访问广东省农业科学院 机构知识库！
广东省农业科学院机构知识库

全部

  • 全部
  • 标题
  • 学者
  • 机构
  • 关键词

Analysis of codon usage patterns in Taenia pisiformis through annotated transcriptome data

文献类型： 外文期刊

作者： Chen, Lin 1 ; Liu, Tianfei 2 ; Yang, Deying 1 ; Nong, Xiang 1 ; Xie, Yue 1 ; Fu, Yan 1 ; Wu, Xuhang 1 ; Huang, Xing 1 ; Gu, 1 ;

作者机构： 1.Sichuan Agr Univ, Coll Vet Med, Dept Parasitol, Yaan 625014, Peoples R China

2.Guangdong Acad Agr Sci, Inst Anim Sci, Guangzhou 510640, Guangdong, Peoples R China

3.Sichuan Agr Univ, Coll Life & Basic Sci, Yaan 625014, Peoples R China

关键词： Codon usage bias;Correspondence analysis;Optimal codon;Taenia pisiformis;Transcriptome

期刊名称：BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS （ 影响因子：3.575； 五年影响因子：3.381 ）

ISSN：

年卷期：

页码：

收录情况： SCI

摘要： Taenia pisiformis (Cestoidea; Cyclophyllidea; Taeniidae) tapeworms infect the small intestine of canids and felines, such as dogs and foxes. Synonymous codon usage in T. pisiformis was examined through 8118 reconstructed annotations of transcriptome sequences. The mean value of GC content for the reconstructed genes was 49.48%. Twenty-four codons were determined as " optimal codons" Approximately all translational optimal codons (except CGU) ended on G or C. The gene positions on the primary axis were strongly positively correlated with GC content at the third codon positions and GC content of individual genes. At the same time, the gene expression level assessed by the CAI, the hydrophobicity and aromaticity of encoded proteins were correlated with the GC content at the third codon positions and the effective number of codons (ENC), respectively. We infer that the gene expression level, the hydrophobicity and the aromaticity of the encoded proteins also influenced codon usage in T. pisiformis. Knowledge of the codon usage pattern in T. pisiformis can improve our understanding of the mechanisms of biased usage of synonymous codons and can help in selecting appropriate host expression systems for potential vaccine genes of T. pisiformis. ? 2012 Elsevier Inc.

  • 相关文献

[1]Analysis of Codon Bias on Clostridium Perfringens Dell Genome. Lin CHEN,Ting BAI,Wei WANG,Tian-fei LIU,Li-li JI,Jia-min ZHANG. 2018

[2]Synonymous codon usage patterns in different parasitic platyhelminth mitochondrial genomes. Chen, L.,Yang, D. Y.,Nong, X.,Huang, X.,Xie, Y.,Fu, Y.,Zheng, W. P.,Zhang, R. H.,Wu, X. H.,Gu, X. B.,Wang, S. X.,Yang, G. Y.,Liu, T. F.,Peng, X. R.. 2013

[3]Non-uniqueness of factors constraint on the codon usage in Bombyx mori. Jia, Xian,Zheng, Hao,Qi, Qi,Wei, Lei,Sun, Jingchen,Jia, Xian,Zheng, Hao,Qi, Qi,Wei, Lei,Sun, Jingchen,Liu, Shuyu,He, Jian,Li, Bo,Zhao, Taiyi. 2015

[4]Multiple Evolutionary Selections Involved in Synonymous Codon Usages in the Streptococcus agalactiae Genome. Ma, Yan-Ping,Li, Yu-Gu,Ma, Yan-Ping,Ke, Hao,Liang, Zhi-Ling,Liu, Zhen-Xing,Hao, Le,Ma, Jiang-Yao. 2016

[5]Analysis of codon usage bias of envelope glycoprotein genes in nuclear polyhedrosis virus (NPV) and its relation to evolution. Zheng, Hao,Yan, Donghua,Jiang, Zijian,Qi, Qi,Sun, Jingchen,Xu, Anying. 2016

[6]Analysing codon usage bias of cyprinid herpesvirus 3 and adaptation of this virus to the hosts. Ma, Y. P.,Liu, Z. X.,Hao, L.,Ma, J. Y.,Liang, Z. L.,Ke, H.,Li, Y. G..

[7]Characterization of the porcine epidemic diarrhea virus codon usage bias. Chen, Ye,Shi, Yuzhen,Deng, Hongjuan,Gu, Ting,Xu, Jian,Ou, Jinxin,Jiang, Zhiguo,Jiao, Yiren,Zou, Tan,Wang, Chong.

[8]Achievements and prospects of genomics-assisted breeding in three legume crops of the semi-arid tropics. Varshney, Rajeev K.,Mohan, S. Murali,Gaur, Pooran M.,Pandey, Manish K.,Sawargaonkar, Shrikant L.,Chitikineni, Annapurna,Janila, Pasupuleti,Saxena, K. B.,Sharma, Mamta,Rathore, Abhishek,Mallikarjuna, Nalini,Gowda, C. L. L.,Varshney, Rajeev K.,Varshney, Rajeev K.,Varshney, Rajeev K.,Liang, Xuanqiang,Gangarao, N. V. P. R.,Pandey, Manish K.,Bohra, Abhishek,Pratap, Aditya,Datta, Subhojit,Chaturvedi, S. K.,Nadarajan, N.,Kimurto, Paul K.,Fikre, Asnake,Tripathi, Shailesh,Bharadwaj, Ch.,Anuradha, G.,Babbar, Anita,Choudhary, Arbind K.,Mhase, M. B.,Mannur, D. M.. 2013

[9]De novo Transcriptome Assembly of Chinese Kale and Global Expression Analysis of Genes Involved in Glucosinolate Metabolism in Multiple Tissue. Wu, Shuanghua,Lei, Jianjun,Chen, Guoju,Cao, Bihao,Chen, Changming,Chen, Hancai. 2017

[10]De novo Transcriptome Assembly of Floral Buds of Pineapple and Identification of Differentially Expressed Genes in Response to Ethephon Induction. Liu, Chuan-He,Fan, Chao,Liu, Chuan-He,Fan, Chao. 2016

[11]De novo assembly, gene annotation, and marker development of mulberry (Morus atropurpurea) transcriptome. Dai, Fanwei,Tang, Cuiming,Wang, Zhenjiang,Luo, Guoqing,He, Li,Yao, Liuhui. 2015

[12]Transcriptomic Analysis of Seed Coats in Yellow-Seeded Brassica napus Reveals Novel Genes That Influence Proanthocyanidin Biosynthesis. Hong, Meiyan,Hu, Kaining,Tian, Tiantian,Li, Xia,Chen, Li,Zhang, Yan,Yi, Bin,Wen, Jing,Ma, Chaozhi,Shen, Jinxiong,Fu, Tingdong,Tu, Jinxing,Li, Xia,Chen, Li,Zhang, Yan. 2017

[13]Temporal patterns of gene expression associated with tuberous root formation and development in sweetpotato (Ipomoea batatas). Wang, Zhangying,Fang, Boping,Chen, Xinliang,Liao, Minghuan,Chen, Jingyi,Zhang, Xiongjian,Huang, Lifei,Luo, Zhongxia,Yao, Zhufang,Li, Yujun. 2015

[14]Analysis of Muscle and Ovary Transcriptome of Sus scrofa: Assembly, Annotation and Marker Discovery. Nie, Qinghua,Jia, Xinzheng,Zhang, Wei,Zhou, Xiaoning,He, Xiaomei,Zhang, Xiquan,Nie, Qinghua,Jia, Xinzheng,Zhang, Wei,Zhou, Xiaoning,He, Xiaomei,Zhang, Xiquan,Fang, Meixia. 2011

[15]Phenotypic and Transcriptomic Analyses of Autotetraploid and Diploid Mulberry (Morus alba L.). Dai, Fanwei,Wang, Zhenjiang,Luo, Guoqing,Tang, Cuiming. 2015

[16]Large-scale development of EST-SSR markers in sponge gourd via transcriptome sequencing. Wu, Hai-Bin,Gong, Hao,Liu, Peng,He, Xiao-Li,Luo, Shao-Bo,Zheng, Xiao-Ming,Zhang, Chang-Yuan,He, Xiao-Ming,Luo, Jianning.

[17]Comparative transcriptome analysis of aerial and subterranean pods development provides insights into seed abortion in peanut. Zhu, Wei,Chen, Xiaoping,Li, Haifen,Zhu, Fanghe,Hong, Yanbin,Liang, Xuanqiang,Varshney, Rajeev K..

[18]Comparative Transcriptome Analysis Reveals Differential Transcription in Heat-susceptible and Heat-tolerant Pepper (Capsicum annum L.) Cultivars under Heat Stress. Li, Tao,Xu, Xiaowan,Li, Ying,Wang, Hengming,Li, Zhiliang,Li, Zhenxing,Li, Tao,Xu, Xiaowan.

[19]Transcriptomic analysis reveals differentially expressed genes and a unique apoptosis pathway in channel catfish ovary cells after infection with the channel catfish virus. Dawar, Farman Ullah,Hu, Xianqin,Dong, Xingxing,Xiong, Yang,Mei, Jie,Lin, Li,Dawar, Farman Ullah,Zhao, Lijuan,Zhou, Meng,Liang, Rishen,Babu, V. Sarath,Lin, Li,Hu, Xianqin,Li, Jun,Li, Jun,Lin, Li,Lin, Li.

[20]De Novo Characterization of Leaf Transcriptome Using 454 Sequencing and Development of EST-SSR Markers in Tea (Camellia sinensis). Wu, Hualing,Chen, Dong,Li, Jiaxian,Qiao, Xiaoyan,Huang, Hualin,He, Yumei,Wu, Hualing,Chen, Dong,Li, Jiaxian,Qiao, Xiaoyan,Huang, Hualin,He, Yumei,Yu, Bo.

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：广东省农业科学院

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