ThioFinder: A Web-Based Tool for the Identification of Thiopeptide Gene Clusters in DNA Sequences
文献类型：期刊论文
| 作者 | Li Jing ; Ju XD(瞿旭东) ; He XY(贺新义) ; Duan L(段炼) ; Wu Guojun ; Bi Dexi ; Deng ZX(邓子新) ; Liu W(刘文) ; Ou HY(欧竑宇) |
| 刊名 | PLoS One
 |
| 出版日期 | 2012 |
| 卷号 | 7期号:9页码:e45878 |
| ISSN号 | 1932-6203 |
| 其他题名 | ThioFinder: 基于WEB的硫肽类抗生素发现工具 |
| 通讯作者 | 刘文 ; 欧竑宇 |
| 英文摘要 | Thiopeptides are a growing class of sulfur-rich, highly modified heterocyclic peptides that are mainly active against Gram-positive bacteria including various drug-resistant pathogens. Recent studies also reveal that many thiopeptides inhibit the proliferation of human cancer cells, further expanding their application potentials for clinical use. Thiopeptide biosynthesis shares a common paradigm, featuring a ribosomally synthesized precursor peptide and conserved posttranslational modifications, to afford a characteristic core system, but differs in tailoring to furnish individual members. Identification of new thiopeptide gene clusters, by taking advantage of increasing information of DNA sequences from bacteria, may facilitate new thiopeptide discovery and enrichment of the unique biosynthetic elements to produce novel drug leads by applying the principle of combinatorial biosynthesis. In this study, we have developed a web-based tool ThioFinder to rapidly identify thiopeptide biosynthetic gene cluster from DNA sequence using a profile Hidden Markov Model approach. Fifty-four new putative thiopeptide biosynthetic gene clusters were found in the sequenced bacterial genomes of previously unknown producing microorganisms. ThioFinder is fully supported by an open-access database ThioBase, which contains the sufficient information of the 99 known thiopeptides regarding the chemical structure, biological activity, producing organism, and biosynthetic gene (cluster) along with the associated genome if available. The ThioFinder website offers researchers a unique resource and great flexibility for sequence analysis of thiopeptide biosynthetic gene clusters. ThioFinder is freely available at http://db-mml.sjtu.edu.cn/ThioFinder/. |
| 学科主题 | 生命有机化学 |
| 收录类别 | SCI |
| 原文出处 | http://dx.doi.org/10.1371/journal.pone.0045878 |
| 语种 | 英语 |
| WOS记录号 | WOS:000309554700083 |
| 公开日期 | 2013-08-23 |
| 源URL | [http://202.127.28.38/handle/331003/28567]  |
| 专题 | 上海有机化学研究所_生命有机化学国家重点实验室 |
| 推荐引用方式 GB/T 7714 | Li Jing,Ju XD,He XY,et al. ThioFinder: A Web-Based Tool for the Identification of Thiopeptide Gene Clusters in DNA Sequences[J]. PLoS One,2012,7(9):e45878. |
| APA | Li Jing.,瞿旭东.,贺新义.,段炼.,Wu Guojun.,...&欧竑宇.(2012).ThioFinder: A Web-Based Tool for the Identification of Thiopeptide Gene Clusters in DNA Sequences.PLoS One,7(9),e45878. |
| MLA | Li Jing,et al."ThioFinder: A Web-Based Tool for the Identification of Thiopeptide Gene Clusters in DNA Sequences".PLoS One 7.9(2012):e45878. |
入库方式： OAI收割
来源：上海有机化学研究所
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