Identification and categorization of horizontally transferred genes in prokaryotic genomes
文献类型：期刊论文
| 作者 | Shi, SY; Cai, XH; Ding, DF |
| 刊名 | ACTA BIOCHIMICA ET BIOPHYSICA SINICA
 |
| 出版日期 | 2005 |
| 卷号 | 37期号:8页码:561-566 |
| 关键词 | genome evolution horizontal gene transfer function and pathway analysis |
| 通讯作者 | Ding, DF (reprint author), Chinese Acad Sci, Shanghai Inst Biol Sci, Key Lab Prot, Inst Biochem & Cell Biol,Grad Sch, Shanghai 200031, Peoples R China.,dingdafu@server.shcnc.ac.cn |
| 英文摘要 | Horizontal gene transfer (HGT), a process through which genomes acquire genetic materials from distantly related organisms, is believed to be one of the major forces in prokaryotic genome evolution. However, systematic investigation is still scarce to clarify two basic issues about HGT: (1) what types of genes are transferred; and (2) what influence HGT events over the organization and evolution of biological pathways. Genome-scale investigations of these two issues will advance the systematical understanding of HGT in the context of prokaryotic genome evolution. Having investigated 82 genomes, we constructed an HGT database across broad evolutionary timescales. We identified four function categories containing a high proportion of horizontally transferred genes: cell envelope, energy metabolism, regulatory functions, and transport/binding proteins. Such biased function distribution indicates that HGT is not completely random; instead, it is under high selective pressure, required by function restraints in organisms. Furthermore, we mapped the transferred genes onto the connectivity structure map of organism-specific pathways listed in Kyoto Encyclopedia of Genes and Genomes (KEGG). Our results suggest that recruitment of transferred genes into pathways is also selectively constrained because of the tuned interaction between original pathway members. Pathway organization structures still conserve well through evolution even with the recruitment of horizontally transferred genes. Interestingly, in pathways whose organization were significantly affected by HGT events, the operon-like arrangement of transferred genes was found to be prevalent. Such results suggest that operon plays an essential and directional role in the integration of alien genes into pathways. |
| 学科主题 | Biochemistry & Molecular Biology; Biophysics |
| 类目[WOS] | Biochemistry & Molecular Biology ; Biophysics |
| 关键词[WOS] | BACTERIAL GENOMES ; EVOLUTION ; CLASSIFICATION ; GENERATION ; DATABASE ; BLAST ; VIEW |
| 收录类别 | SCI |
| 语种 | 英语 |
| WOS记录号 | WOS:000231465200008 |
| 版本 | 出版稿 |
| 源URL | [http://202.127.25.143/handle/331003/1943]  |
| 专题 | 上海生化细胞研究所_上海生科院生化细胞研究所 |
| 推荐引用方式 GB/T 7714 | Shi, SY,Cai, XH,Ding, DF. Identification and categorization of horizontally transferred genes in prokaryotic genomes[J]. ACTA BIOCHIMICA ET BIOPHYSICA SINICA,2005,37(8):561-566. |
| APA | Shi, SY,Cai, XH,&Ding, DF.(2005).Identification and categorization of horizontally transferred genes in prokaryotic genomes.ACTA BIOCHIMICA ET BIOPHYSICA SINICA,37(8),561-566. |
| MLA | Shi, SY,et al."Identification and categorization of horizontally transferred genes in prokaryotic genomes".ACTA BIOCHIMICA ET BIOPHYSICA SINICA 37.8(2005):561-566. |
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