Trophic level and proteobacteria abundance drive antibiotic resistance levels in fish from coastal New England.
Trophic level and proteobacteria abundance drive antibiotic resistance levels in fish from coastal New England.
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DOI：
10.1186/s42523-023-00236-w
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发表时间：
2023-03-06
影响因子：
4.7
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中科院分区：
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天然海洋环境是抗菌素耐药性细菌的巨大储存库。栖息在这种环境中的野生动物作为这些细菌的宿主和传播耐药性发挥着重要作用。宿主饮食，繁殖和营养水平与海洋鱼类中的微生物组/抗性组之间的关系尚未完全了解。为了进一步探索这种关系，我们利用鸟枪宏基因组测序来定义在沿海新英格兰沃茨收集的七种不同海洋脊椎动物的胃肠道微生物组。我们确定了这些野生海洋鱼类种群肠道微生物群的种间和种内差异。此外，我们发现抗生素抗性基因和宿主的饮食集团之间的关联，这表明更高的营养级生物有更丰富的抗性基因。此外，我们证明抗生素耐药基因负荷与微生物组中的变形菌丰度呈正相关。最后，我们确定了这些鱼的肠道内的饮食特征，并找到了可能的饮食选择的证据，细菌具有特定的碳水化合物利用潜力。这项工作建立了宿主生活方式/饮食协会与微生物组组成和海洋生物胃肠道内抗生素抗性基因丰度之间的联系。我们扩展了目前对海洋生物相关微生物群落及其作为抗菌素耐药基因储存库的作用的理解。在线版本包含补充材料，可通过10.1186/s42523-023-00236-w获取。
The natural marine environment represents a vast reservoir of antimicrobial resistant bacteria. The wildlife that inhabits this environment plays an important role as the host to these bacteria and in the dissemination of resistance. The relationship between host diet, phylogeny, and trophic level and the microbiome/resistome in marine fish is not fully understood. To further explore this relationship, we utilize shotgun metagenomic sequencing to define the gastrointestinal tract microbiomes of seven different marine vertebrates collected in coastal New England waters. We identify inter and intraspecies differences in the gut microbiota of these wild marine fish populations. Furthermore, we find an association between antibiotic resistance genes and host dietary guild, which suggests that higher trophic level organisms have a greater abundance of resistance genes. Additionally, we demonstrate that antibiotic resistance gene burden is positively correlated with Proteobacteria abundance in the microbiome. Lastly, we identify dietary signatures within the gut of these fish and find evidence of possible dietary selection for bacteria with specific carbohydrate utilization potential. This work establishes a link between host lifestyle/dietary guild, and microbiome composition and the abundance of antibiotic resistance genes within the gastrointestinal tract of marine organisms. We expand the current understanding of marine organism-associated microbial communities and their role as reservoirs of antimicrobial resistance genes. The online version contains supplementary material available at 10.1186/s42523-023-00236-w.