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首页> 美国卫生研究院文献>Evolutionary Bioinformatics Online >Comparative Genome Analysis of 2 MycobacteriumTuberculosis Strains from Pakistan: Insights Globally Into DrugResistance Virulence and Niche Adaptation
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Comparative Genome Analysis of 2 MycobacteriumTuberculosis Strains from Pakistan: Insights Globally Into DrugResistance Virulence and Niche Adaptation

机译：2种分枝杆菌的比较基因组分析巴基斯坦的结核菌：对毒品的全球了解抵抗力毒力和生态位适应

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摘要

Multidrug-resistant Mycobacterium tuberculosis is a global threat particularly in developing countries like Pakistan. In this study, we identified 2 M tuberculosis strains, mnpk and swlpk, by 16S RNA genes, sequenced their draft genome, and compared the 2 genomes with reference strain H37Rv and gene expression analysis of selected virulent genes. Phylogenetic analysis of M tuberculosis strains, mnpk and swlpk, using 16S RNA genes revealed that the strains are closely related with reference strain H37Rv. The draft genome sequence of mnpk and swlpk contains 4305 and 4295 protein-coding genes, respectively, having 99.9% with high collinearity when compared with H37Rv. Although some important drug-resistant genes such as fabG, faDE24, and iniA were missing, genome mining also revealed key drug-resistant genes such as katG, inhA, rpoA, rpoB, and rpoC against first-line isoniazid and rifampicin drug. The strain mnpk and swlpk encodes 257 putative and 86 verified virulent genes including type 7 secretion system (T7SS) key genes. The variation in the expression profile of selectedT7SS genes, particularly low expression level of EspK, raisedconcern that the mechanism of virulence of mnpk and swlpk might be differentfrom H37Rv strains as espK is associated with ATPaseEccC1a and EccC1b which showed highexpression level. Briefly, this study shows that the strains mnpk and swlpk arelinked with H37Rv having 99% similarity in genomes, but the absence ofdrug-resistant genes and variation in key genes’ expression profileespK, EccE1, PPE41, andespC provide a rationale for the future investigation ofM tuberculosis mnpk and swlpk pathogenesis via RNAsequencing, single-nucleotide polymorphisms, as well as gene manipulation.
机译：耐多药结核分枝杆菌是全球性威胁，尤其是在巴基斯坦等发展中国家。在这项研究中，我们通过16S RNA基因鉴定了2 M结核菌株mnpk和swlpk，对其草稿基因组进行了测序，然后将这2个基因组与参考菌株H37Rv进行了比较，并对选定的有毒基因进行了基因表达分析。用16S RNA基因对M结核菌株mnpk和swlpk进行系统发育分析，发现该菌株与参考菌株H37Rv密切相关。 mnpk和swlpk的基因组草图序列分别包含4305和4295个蛋白编码基因，与H37Rv相比具有99.9％的高共线性。尽管缺少了一些重要的耐药基因，例如fabG，faDE24和iniA，但基因组挖掘还揭示了针对一线异烟肼和利福平药物的关键耐药基因，例如katG，inhA，rpoA，rpoB和rpoC。 mnpk和swlpk菌株编码257个推定的和86个经过验证的有毒基因，包括7型分泌系统（T7SS）关键基因。所选表达谱的变化T7SS基因，特别是EspK的低表达水平升高担心mnpk和swlpk的毒力机制可能不同espK与ATPase相关的H37Rv菌株EccC1a和EccC1b显示高表达水平。简而言之，这项研究表明mnpk和swlpk菌株是与在基因组中具有99％相似性的H37Rv连锁耐药基因和关键基因表达谱的变异espK， EccE1 ， PPE41 和 espC 为将来的调查提供了依据RNA的结核 mnpk和swlpk发病机理测序，单核苷酸多态性以及基因操作。

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