Interfaculty Institute of Microbiology and Infection Medicine, Microbiology/Biotechnology, University of Tübingen, 72076 Tübingen, Germany.
German Centre for Infection Research (DZIF), Partner Site Tübingen, 72076 Tübingen, Germany.
Nucleic Acids Res. 2017 Jul 3;45(W1):W42-W48. doi: 10.1093/nar/gkx360.
With the rise of multi-drug resistant pathogens and the decline in number of potential new antibiotics in development there is a fervent need to reinvigorate the natural products discovery pipeline. Most antibiotics are derived from secondary metabolites produced by microorganisms and plants. To avoid suicide, an antibiotic producer harbors resistance genes often found within the same biosynthetic gene cluster (BGC) responsible for manufacturing the antibiotic. Existing mining tools are excellent at detecting BGCs or resistant genes in general, but provide little help in prioritizing and identifying gene clusters for compounds active against specific and novel targets. Here we introduce the 'Antibiotic Resistant Target Seeker' (ARTS) available at https://arts.ziemertlab.com. ARTS allows for specific and efficient genome mining for antibiotics with interesting and novel targets. The aim of this web server is to automate the screening of large amounts of sequence data and to focus on the most promising strains that produce antibiotics with new modes of action. ARTS integrates target directed genome mining methods, antibiotic gene cluster predictions and 'essential gene screening' to provide an interactive page for rapid identification of known and putative targets in BGCs.
随着多药耐药病原体的兴起和潜在新抗生素数量的减少，人们迫切需要重振天然产物发现管道。大多数抗生素都来源于微生物和植物产生的次级代谢产物。为了避免自杀，抗生素生产者通常会拥有负责制造抗生素的生物合成基因簇（BGC）内的抗性基因。现有的挖掘工具非常擅长检测 BGC 或一般抗性基因，但在针对特定和新颖靶标具有活性的化合物中，对基因簇进行优先级排序和鉴定方面帮助不大。在这里，我们介绍可在 https://arts.ziemertlab.com 上访问的“抗生素抗性靶标搜索器”（ARTS）。ARTS 允许针对具有有趣和新颖靶标的抗生素进行特定且高效的基因组挖掘。该网络服务器的目的是自动化大量序列数据的筛选，并专注于产生具有新型作用模式的抗生素的最有前途的菌株。ARTS 集成了靶向基因组挖掘方法、抗生素基因簇预测和“必需基因筛选”，为 BGC 中已知和假定靶标的快速鉴定提供了一个交互式页面。
