Pangenome evidence for higher codon usage bias and stronger translational selection in core genes of escherichia coli
文献类型：期刊论文
| 作者 | Sun, Shixiang1,2,3; Xiao, Jingfa1,2; Zhang, Huiyong4; Zhang, Zhang1,2 |
| 刊名 | Frontiers in microbiology
 |
| 出版日期 | 2016-08-03 |
| 卷号 | 7页码:8 |
| 关键词 | Pangenome Codon usage bias Translational selection Mutation Core genes Strain-specific genes |
| ISSN号 | 1664-302X |
| DOI | 10.3389/fmicb.2016.01180 |
| 通讯作者 | Zhang, huiyong(huiyong.zhang@henau.edu.cn) ; Zhang, zhang(zhangzhang@big.ac.cn) |
| 英文摘要 | Codon usage bias, as a combined interplay from mutation and selection, has been intensively studied in escherichia coli. however, codon usage analysis in an e. coli pangenome remains unexplored and the relative importance of mutation and selection acting on core genes and strain-specific genes is unknown. here we perform comprehensive codon usage analyses based on a collection of multiple complete genome sequences of e. coli. our results show that core genes that are present in all strains have higher codon usage bias than strain-specific genes that are unique to single strains. we further explore the forces in influencing codon usage and investigate the difference of the major force between core and strain-specific genes. our results demonstrate that although mutation may exert genome-wide influences on codon usage acting similarly in different gene sets, selection dominates as an important force to shape biased codon usage as genes are present in an increased number of strains. together, our results provide important insights for better understanding genome plasticity and complexity as well as evolutionary mechanisms behind codon usage bias. |
| WOS关键词 | BACTERIAL PAN-GENOME ; NUCLEOTIDE COMPOSITION ; EVOLUTION ; ADAPTATION ; INNOVATION ; DYNAMICS ; SEQUENCE ; K-12 |
| WOS研究方向 | Microbiology |
| WOS类目 | Microbiology |
| 语种 | 英语 |
| WOS记录号 | WOS:000380653500001 |
| 出版者 | FRONTIERS MEDIA SA |
| URI标识 | http://www.irgrid.ac.cn/handle/1471x/2374454 |
| 专题 | 中国科学院大学 |
| 通讯作者 | Zhang, Huiyong; Zhang, Zhang |
| 作者单位 | 1.Chinese Acad Sci, Beijing Inst Genom, CAS Key Lab Genome Sci & Informat, Beijing, Peoples R China 2.Chinese Acad Sci, Beijing Inst Genom, BIG Data Ctr, Beijing, Peoples R China 3.Univ Chinese Acad Sci, Beijing, Peoples R China 4.Henan Agr Univ, Coll Life Sci, Zhengzhou, Peoples R China |
| 推荐引用方式 GB/T 7714 | Sun, Shixiang,Xiao, Jingfa,Zhang, Huiyong,et al. Pangenome evidence for higher codon usage bias and stronger translational selection in core genes of escherichia coli[J]. Frontiers in microbiology,2016,7:8. |
| APA | Sun, Shixiang,Xiao, Jingfa,Zhang, Huiyong,&Zhang, Zhang.(2016).Pangenome evidence for higher codon usage bias and stronger translational selection in core genes of escherichia coli.Frontiers in microbiology,7,8. |
| MLA | Sun, Shixiang,et al."Pangenome evidence for higher codon usage bias and stronger translational selection in core genes of escherichia coli".Frontiers in microbiology 7(2016):8. |
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来源：中国科学院大学
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