National Risk Assessment Laboratory for Antimicrobial Resistance of Animal Original Bacteria, South China Agricultural University, Guangzhou, Guangdong, China.
Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, Guangdong, China.
Nat Commun. 2020 Mar 18;11(1):1427. doi: 10.1038/s41467-020-15222-y.
Anthropogenic environments have been implicated in enrichment and exchange of antibiotic resistance genes and bacteria. Here we study the impact of confined and controlled swine farm environments on temporal changes in the gut microbiome and resistome of veterinary students with occupational exposure for 3 months. By analyzing 16S rRNA and whole metagenome shotgun sequencing data in tandem with culture-based methods, we show that farm exposure shapes the gut microbiome of students, resulting in enrichment of potentially pathogenic taxa and antimicrobial resistance genes. Comparison of students' gut microbiomes and resistomes to farm workers' and environmental samples revealed extensive sharing of resistance genes and bacteria following exposure and after three months of their visit. Notably, antibiotic resistance genes were found in similar genetic contexts in student samples and farm environmental samples. Dynamic Bayesian network modeling predicted that the observed changes partially reverse over a 4-6 month period. Our results indicate that acute changes in a human's living environment can persistently shape their gut microbiota and antibiotic resistome.
人为环境被认为是抗生素耐药基因和细菌的富集和交换的原因。在这里，我们研究了封闭和受控的养猪场环境对兽医学生职业暴露 3 个月后肠道微生物组和耐药组的时间变化的影响。通过分析 16S rRNA 和全宏基因组鸟枪法测序数据与基于培养的方法，我们表明农场暴露塑造了学生的肠道微生物组，导致潜在的致病性分类群和抗微生物药物耐药基因的富集。将学生的肠道微生物组和耐药组与农场工人和环境样本进行比较，发现暴露后和访问三个月后，大量耐药基因和细菌存在共享。值得注意的是，在学生样本和农场环境样本中发现了具有相似遗传背景的抗生素耐药基因。动态贝叶斯网络建模预测，观察到的变化在 4-6 个月的时间内部分逆转。我们的研究结果表明，人类生活环境的急性变化可以持续地塑造他们的肠道微生物群和抗生素耐药组。
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