Oliveira Willian K, Ferrarini Mariana, Morello Luis G, Faoro Helisson
Laboratory for Applied Science and Technology in Health, Carlos Chagas Institute, FIOCRUZ, Paraná, 81350-010, Brazil.
Laboratoire de Biométrie et Biologie Évolutive, UMR 5558, CNRS, Université de Lyon, Université Lyon 1, Villeurbanne 69622, France.
NAR Genom Bioinform. 2020 Jul 31;2(3):lqaa055. doi: 10.1093/nargab/lqaa055. eCollection 2020 Sep.
Bacterial resistance to antibiotics is a global public health problem. Its association with bloodstream infections is even more severe and may easily evolve to sepsis. To improve our response to these bacteria, it is essential to gather thorough knowledge on the main pathogens along with the main mechanisms of resistance they carry. In this paper, we performed a large meta-analysis of 3872 bacterial genomes isolated from blood samples, from which we identified 71 745 antibiotic resistance genes (ARGs). Taxonomic analysis showed that Proteobacteria and Firmicutes phyla, and the species and were the most represented. Comparison of ARGs with the Resfams database showed that the main mechanism of antibiotic resistance is mediated by efflux pumps. Clustering analysis between resistome of blood and soil-isolated bacteria showed that there is low identity between transport and efflux proteins between bacteria from these environments. Furthermore, a correlation analysis among all features showed that and formed two well-defined clusters related to the resistance mechanisms, proteins and antibiotics. A retrospective analysis has shown that the average number of ARGs per genome has gradually increased. The results demonstrate the importance of comprehensive studies to understand the antibiotic resistance phenomenon.
细菌对抗生素的耐药性是一个全球性的公共卫生问题。其与血流感染的关联更为严重，且可能很容易演变为败血症。为了更好地应对这些细菌，深入了解主要病原体及其携带的主要耐药机制至关重要。在本文中，我们对从血液样本中分离出的3872个细菌基因组进行了大规模的荟萃分析，从中鉴定出71745个抗生素耐药基因（ARGs）。分类学分析表明，变形菌门和厚壁菌门以及相关物种的代表性最强。将ARGs与Resfams数据库进行比较表明，抗生素耐药的主要机制是由外排泵介导的。血液和土壤分离细菌的耐药基因组之间的聚类分析表明，来自这些环境的细菌之间的转运蛋白和外排蛋白的一致性较低。此外，所有特征之间的相关性分析表明，与耐药机制、蛋白质和抗生素相关的形成了两个明确的聚类。回顾性分析表明，每个基因组中ARGs的平均数量逐渐增加。结果证明了全面研究对于理解抗生素耐药现象的重要性。
