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Shotgun metagenomics reveals differences in antibiotic resistance genes among bacterial communities in Western Balkans glacial lakes sediments.
Journal of Water & Health ( IF 2.3 ) Pub Date : 2020-06-01 , DOI: 10.2166/wh.2020.227
Brankica Filipic 1 , Katarina Novovic 2 , David J Studholme 3 , Milka Malesevic 2 , Nemanja Mirkovic 2 , Milan Kojic 2 , Branko Jovcic 4
Affiliation  

Long-term overuse of antibiotics has driven the propagation and spreading of antibiotic resistance genes (ARGs) such as efflux pumps in the environment, which can be transferred to clinically relevant pathogens. This study explored the abundance and diversity of ARGs and mobile genetic elements within bacterial communities from sediments of three Western Balkans glacial lakes: Plav Lake (high impact of human population), Black Lake (medium impact of human population) and Donje Bare Lake (remote lake, minimal impact of human population) via shotgun metagenomics. Assembled metagenomic sequences revealed that Resistance-Nodulation-Division (RND) efflux pumps genes were most abundant in metagenome from the Plav Lake. The Integron Finder bioinformatics tool detected 38 clusters of attC sites lacking integron-integrases (CALIN) elements: 20 from Plav Lake, four from Black Lake and 14 from Donje Bare Lake. A complete integron sequence was recovered only from the assembled metagenome from Plav Lake. Plasmid contents within the metagenomes were similar, with proportions of contigs being plasmid-related: 1.73% for Plav Lake, 1.59% for Black Lake and 1.64% for Donje Bare Lake. The investigation showed that RNDs and mobile genetic elements content correlated with human population impact.



中文翻译:

弹枪宏基因组学揭示了西巴尔干冰川湖沉积物中细菌群落之间抗生素抗性基因的差异。

长期过度使用抗生素已导致抗生素抗性基因(ARG)的传播和扩散,例如环境中的外排泵,这些基因可以转移到临床相关病原体上。这项研究探索了三个西部巴尔干冰川湖的沉积物中细菌群落中ARG的丰富性和多样性:普拉夫湖(对人类造成巨大影响),黑湖(对人类造成了中等影响)和东杰裸湖(远程) shot弹枪的宏基因组学研究。组装的宏基因组序列显示,抗性结瘤分裂(RND)外排泵基因在来自Plav湖的后基因组中含量最高。该整合子搜索生物信息学工具检测到38 Ç的枝形吊灯一个TTC站点ACKING从普拉夫湖,四从黑湖和14从Donje裸湖20:tegron-整合酶(CALIN)元素。仅从普拉夫湖的组装的基因组中回收了完整的整合子序列。元基因组中的质粒含量相似,重叠群的比例与质粒相关:Plav Lake为1.73%,Black Lake为1.59%,Donje Bare Lake为1.64%。调查显示,RND和流动遗传元素含量与人口影响相关。

更新日期:2020-06-01
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