在厄瓜多尔的Mycobacterium结核病分离体中使用基于网络的生物信息学工具对基因组耐药性查进行精确的概述
Gabriel Morey-León1,2,3, Paulina M Mejía-Ponce4, Juan Carlos Granda Pardo5
1Facultad de Ciencias de la Salud, Universidad Espíritu Santo, Samborondón, Ecuador.
PloS one
|December 5, 2023
概括
网络工具准确地检测出结核病耐药性突变,有助于监测. SAM-TB,PhyResSE,TB-profiler和Mykrobe显示出改善诊断和理解Mycobacterium结核病的耐药性方面的希望.
科学领域:
- 微生物学 微生物学
- 基因组学就是基因组学.
- 流行病学 流行病学
背景情况:
- 由于新出现的耐药性Mycobacterium结核菌株,结核病 (TB) 仍然是全球健康威胁.
- 结核病诊断,治疗坚持和监测方面的挑战阻碍了有效的控制工作.
- COVID-19 疫情进一步强调了快速和准确的诊断工具的必要性.
研究的目的:
- 评估基于Web的全基因组测序工具的性能,用于检测Mycobacterium tuberculosis中的耐药性.
- 为了比较Mykrobe,TB-profiler,PhyResSE,KvarQ和SAM-TB与传统药物敏感性测试 (DST) 的准确性.
- 确定有效的工具,以改善厄瓜多尔的结核病监测计划.
主要方法:
- 从88个厄瓜多尔的Mycobacterium结核病分离物中提取了基因组DNA.
- 在分离物上进行了全基因组测序.
- 对五种基于网络的工具 (Mykrobe,TB-profiler,PhyResSE,KvarQ,SAM-TB) 的性能进行了评估,并对其表型的DST结果进行了评估.
- 统计分析,包括科恩的卡帕,被用来评估相关性.
主要成果:
- 四种工具 (SAM-TB,PhyResSE,TB-profiler,Mykrobe) 显示出与DST在全球抗药性检测方面的高度一致 (98%).
- 这四种工具也显示出个人第一线耐药性的强烈相关性.
- 只有50%的鉴定突变是正规的,并列在世卫组织目录中,这凸显了改善二线药物耐药性检测的需要.
结论:
- 基于Web的工具,如SAM-TB,PhyResSE,TB-profiler和Mykrobe,对于识别Mycobacterium结核病中的正规耐药性突变非常有效.
- 需要进一步开发以提高二线药物耐药性检测的准确性.
- 实施全基因组测序工具对于了解结核病分子流行病学和改善耐药结核病监测至关重要.
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