MUBII-TB-DB: a database of mutations associated with antibiotic resistance in Mycobacterium tuberculosis.
MUBII-TB-DB: a database of mutations associated with antibiotic resistance in Mycobacterium tuberculosis.
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DOI：
10.1186/1471-2105-15-107
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发表时间：
2014-04-14
影响因子：
3
通讯作者：
Dumitrescu O
中科院分区：
文献类型：
--
作者：
Flandrois JP;Lina G;Dumitrescu O
结核病是由结核分枝杆菌引起的一种传染性细菌性疾病。它仍然是一个重大的健康威胁，每年在全世界造成100多万人死亡。早期抗生素治疗是治疗的基础，多药和广泛耐药突变株的出现和传播提出了重大挑战。由于这些细菌生长非常缓慢，目前使用分子生物学技术检测耐药性突变。通过对耐药相关基因进行测序，然后与文献数据进行比较来鉴定耐药突变。唯一的在线数据库是结核病耐药突变数据库（TBDReaM数据库）;然而，它需要在使用前进行突变检测，并且由于其松散的语法和语法，其查询很复杂。MUBII-TB-DB数据库是一个简单的、高度结构化的基于文本的数据库，包含一组发生在7个位点的结核分枝杆菌突变（DNA和蛋白质）：rpoB、pncA、katG; mabA（fabG 1）-inhA、gyrA、gyrB和rrs。在2013年3月之前对MEDLINE引用的出版物进行系统性综述后提取耐药突变数据。MUBII使用两种并行策略分析通过PCR测序获得的查询序列：i）针对一组先前重建的突变序列的BLAST搜索和ii）查询序列（DNA及其蛋白质翻译）与野生型序列的比对。后处理包括提取比对序列及其描述符（突变的位置和性质）。整个过程都是通过互联网进行的。结果是图表（比对）和文本（突变的描述，治疗意义）。该系统快速且易于使用，即使对于没有接受过生物信息学培训的技术人员也是如此。MUBII-TB-DB是一个结构化的数据库，包含在结核病管理中具有主要治疗价值的七个基因座上发生的突变。此外，该系统提供了生物学和治疗方面的突变解释，并可以通过添加新描述的突变来进化。其目标是通过客户端-服务器模型在Web上提供对导致M抗性的最新突变数据库的简单和全面的访问。结核病抗生素。
Tuberculosis is an infectious bacterial disease caused by Mycobacterium tuberculosis. It remains a major health threat, killing over one million people every year worldwide. An early antibiotic therapy is the basis of the treatment, and the emergence and spread of multidrug and extensively drug-resistant mutant strains raise significant challenges. As these bacteria grow very slowly, drug resistance mutations are currently detected using molecular biology techniques. Resistance mutations are identified by sequencing the resistance-linked genes followed by a comparison with the literature data. The only online database is the TB Drug Resistance Mutation database (TBDReaM database); however, it requires mutation detection before use, and its interrogation is complex due to its loose syntax and grammar. The MUBII-TB-DB database is a simple, highly structured text-based database that contains a set of Mycobacterium tuberculosis mutations (DNA and proteins) occurring at seven loci: rpoB, pncA, katG; mabA(fabG1)-inhA, gyrA, gyrB, and rrs. Resistance mutation data were extracted after the systematic review of MEDLINE referenced publications before March 2013. MUBII analyzes the query sequence obtained by PCR-sequencing using two parallel strategies: i) a BLAST search against a set of previously reconstructed mutated sequences and ii) the alignment of the query sequences (DNA and its protein translation) with the wild-type sequences. The post-treatment includes the extraction of the aligned sequences together with their descriptors (position and nature of mutations). The whole procedure is performed using the internet. The results are graphs (alignments) and text (description of the mutation, therapeutic significance). The system is quick and easy to use, even for technicians without bioinformatics training. MUBII-TB-DB is a structured database of the mutations occurring at seven loci of major therapeutic value in tuberculosis management. Moreover, the system provides interpretation of the mutations in biological and therapeutic terms and can evolve by the addition of newly described mutations. Its goal is to provide easy and comprehensive access through a client–server model over the Web to an up-to-date database of mutations that lead to the resistance of M. tuberculosis to antibiotics.
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