Comparison of antibiotic resistance genes in swine manure storage pits of Iowa, USA
Comparison of antibiotic resistance genes in swine manure storage pits of Iowa, USA
复制标题
DOI：
10.3389/frabi.2023.1116785
复制
发表时间：
2023-03
影响因子：
7.3
通讯作者：
T. P. Neher;M. Soupir;D. Andersen;Maggie L. O’Neill;A. Howe
中科院分区：
文献类型：
--
作者：
T. P. Neher;M. Soupir;D. Andersen;Maggie L. O’Neill;A. Howe
当细菌受到未代谢抗生素的选择性压力时，深坑猪粪储存中可能会产生抗生素耐药性（AMR）。随后对中耕作物施用的粪肥成为土壤和下游径流水中抗菌素耐药性的来源。因此，了解不同农场粪便中不同抗生素抗性基因（ARG）的模式对于解释先前研究中这些基因的检测结果以及使用这些基因作为环境中粪便传播抗生素抗性的生物指示剂非常重要。先前对粪便相关 ARG 的研究是基于有限的粪便样本。为了更好地了解粪便中 ARG 的分布，我们对爱荷华州 48 个地理上独立的养猪场的粪便进行了特征分析。本研究的目的是表征这些粪便中 ARG 的分布，并评估粪便管理中的哪些因素可能影响粪便中 ARG 的存在。我们的分析包括对猪粪中两种常见的 ARGs、ermB 和 tetM 进行定量。此外，我们还鉴定了更广泛的 31 个 ARG，可以同时检测多个基因是否存在。我们发现公司积分器对 ermB (P=0.0007) 和 tetM 基因浓度 (P=0.0425) 都有显着影响。我们对 ARG 图谱的广泛分析发现，tet(36) 基因广泛存在于猪粪中，随后在 14 个农场的样本中检测到了 tetT、tetM、erm(35)、ermF、ermB、str、aadD 和 intl3。最后，我们对粪便中 ARG 的检测方法进行了比较，特别是比较传统和高通量 qPCR，并讨论了它们在 ARG 环境监测工作中的作用。这项研究的结果深入了解了粪便储存坑中 ARG 存在的共性，并提供了公司集成商决策可能影响 ARG 浓度的支持证据。
Antimicrobial resistance (AMR) can develop in deep-pit swine manure storage when bacteria are selectively pressured by unmetabolized antibiotics. Subsequent manure application on row crops is then a source of AMR into soil and downstream runoff water. Therefore, understanding the patterns of diverse antibiotic resistance genes (ARGs) in manure among different farms is important for both interpreting the results of the detection of these genes from previous studies and for the use of these genes as bioindicators of manure borne antibiotic resistance in the environment. Previous studies of manure-associated ARGs are based on limited samples of manures. To better understand the distribution of ARGs between manures, we characterized manures from 48 geographically independent swine farms across Iowa. The objectives of this study were to characterize the distribution of ARGs among these manures and to evaluate what factors in manure management may influence the presence of ARGs in manures. Our analysis included quantification of two commonly found ARGs in swine manure, ermB and tetM. Additionally, we characterized a broader suite of 31 ARGs which allowed for simultaneous assays of the presence or absence of multiple genes. We found the company integrator had a significant effect on both ermB (P=0.0007) and tetM gene concentrations (P=0.0425). Our broad analysis on ARG profiles found that the tet(36) gene was broadly present in swine manures, followed by the detection of tetT, tetM, erm(35), ermF, ermB, str, aadD, and intl3 in samples from 14 farms. Finally, we provide a comparison of methods to detect ARGs in manures, specifically comparing conventional and high-throughput qPCR and discuss their role in ARG environmental monitoring efforts. Results of this study provide insight into commonalities of ARG presence in manure holding pits and provide supporting evidence that company integrator decisions may impact ARG concentrations.