Aberrant microbiomes are associated with increased antibiotic resistance gene load in hybrid mice.

IF 5.1 Q1 ECOLOGY ISME communications Pub Date : 2024-04-15 eCollection Date: 2024-01-01 DOI:10.1093/ismeco/ycae053
Víctor Hugo Jarquín-Díaz, Susana Carolina Martins Ferreira, Alice Balard, Ľudovít Ďureje, Milos Macholán, Jaroslav Piálek, Johan Bengtsson-Palme, Stephanie Kramer-Schadt, Sofia Kirke Forslund-Startceva, Emanuel Heitlinger
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Abstract

Antibiotic resistance is a priority public health problem resulting from eco-evolutionary dynamics within microbial communities and their interaction at a mammalian host interface or geographical scale. The links between mammalian host genetics, bacterial gut community, and antimicrobial resistance gene (ARG) content must be better understood in natural populations inhabiting heterogeneous environments. Hybridization, the interbreeding of genetically divergent populations, influences different components of the gut microbial communities. However, its impact on bacterial traits such as antibiotic resistance is unknown. Here, we present that hybridization might shape bacterial communities and ARG occurrence. We used amplicon sequencing to study the gut microbiome and to predict ARG composition in natural populations of house mice (Mus musculus). We compared gastrointestinal bacterial and ARG diversity, composition, and abundance across a gradient of pure and hybrid genotypes in the European House Mouse Hybrid Zone. We observed an increased overall predicted richness of ARG in hybrid mice. We found bacteria-ARG interactions by their co-abundance and detected phenotypes of extreme abundances in hybrid mice at the level of specific bacterial taxa and ARGs, mainly multidrug resistance genes. Our work suggests that mammalian host genetic variation impacts the gut microbiome and chromosomal ARGs. However, it raises further questions on how the mammalian host genetics impact ARGs via microbiome dynamics or environmental covariates.

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杂交小鼠的微生物组异常与抗生素耐药性基因负荷增加有关。
抗生素耐药性是由微生物群落内部的生态进化动态及其在哺乳动物宿主界面或地理尺度上的相互作用所导致的优先公共卫生问题。必须更好地了解哺乳动物宿主遗传学、细菌肠道群落和抗菌药耐药性基因(ARG)含量之间的联系。杂交,即基因不同种群之间的杂交,影响着肠道微生物群落的不同组成部分。然而,杂交对细菌特性(如抗生素耐药性)的影响尚不清楚。在此,我们提出杂交可能会影响细菌群落和 ARG 的发生。我们利用扩增子测序技术研究了家鼠(Mus musculus)的肠道微生物组,并预测了自然种群中 ARG 的组成。我们比较了欧洲家鼠杂交区纯种和杂交基因型梯度上的胃肠道细菌和 ARG 的多样性、组成和丰度。我们观察到杂交小鼠中 ARG 的总体预测丰富度有所增加。我们通过共同丰度发现了细菌-ARG之间的相互作用,并在特定细菌类群和ARG(主要是多药耐药基因)水平上检测到杂交小鼠中极端丰度的表型。我们的研究表明,哺乳动物宿主的遗传变异会影响肠道微生物组和染色体上的 ARGs。然而,这也提出了哺乳动物宿主遗传学如何通过微生物组动态或环境协变量影响 ARGs 的进一步问题。
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