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The antibiotic resistome: gene flow in environments, animals and human beings

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《医学前沿（英文）》 2017年第11卷第2期页码 161-168 doi: 10.1007/s11684-017-0531-x

摘要：

The antibiotic resistance is natural in bacteria and predates the human use of antibiotics. Numerous antibiotic resistance genes (ARGs) have been discovered to confer resistance to a wide range of antibiotics. The ARGs in natural environments are highly integrated and tightly regulated in specific bacterial metabolic networks. However, the antibiotic selection pressure conferred by the use of antibiotics in both human medicine and agriculture practice leads to a significant increase of antibiotic resistance and a steady accumulation of ARGs in bacteria. In this review, we summarized, with an emphasis on an ecological point of view, the important research progress regarding the collective ARGs (antibiotic resistome) in bacterial communities of natural environments, human and animals, i.e., in the one health settings. We propose that the resistance gene flow in nature is “from the natural environments” and “to the natural environments”; human and animals, as intermediate recipients and disseminators, contribute greatly to such a resistance gene “circulation.”

关键词： antibiotic resistance resistome microbiome gene flow

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Assessment of antibiotic resistance genes in dialysis water treatment processes

Xuan Zhu, Chengsong Ye, Yuxin Wang, Lihua Chen, Lin Feng

《环境科学与工程前沿（英文）》 2019年第13卷第3期 doi: 10.1007/s11783-019-1136-1

摘要：

• Quantitative global ARGs profile in dialysis water was investigated.

• Totally 35 ARGs were found in the dialysis treatment train.

• 29 ARGs (highest) were found in carbon filtration effluent.

• erm and mtrD-02 occurred in the final effluent.

• The effluent was associated with health risks even after RO treatment.

关键词： Dialysis water Treatment process Antibiotic resistance gene High-throughput quantitative PCR Horizontal gene transfer

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Distribution and removal of antibiotic resistance genes during anaerobic sludge digestion with alkaline

Mengli Wang, Ruying Li, Qing Zhao

《环境科学与工程前沿（英文）》 2019年第13卷第3期 doi: 10.1007/s11783-019-1127-2

摘要：

Sludge digestion is critical to control the spread of ARGs from wastewater to soil.

Fate of ARGs in three pretreatment-AD processes was investigated.

UP was more efficient for ARGs removal than AP and THP in pretreatment-AD process.

The total ARGs concentration showed significant correlation with 16S rRNA gene.

The bacteria carrying ARGs could be mainly affiliated with Proteobacteria.

关键词： Tetracycline resistance genes Sulfonamide resistance genes 16S rRNA gene Sludge pretreatment Anaerobic sludge digestion

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Mitigating microbiological risks of potential pathogens carrying antibiotic resistance genes and virulence

《环境科学与工程前沿（英文）》 2023年第17卷第7期 doi: 10.1007/s11783-023-1682-4

摘要：

● Abundance of MAGs carrying ARG-VF pairs unchanged in rivers after WWTP upgrade.

关键词： Wastewater treatment plant upgrade Antibiotic resistance genes (ARGs) Virulence factors (VFs) Gene co-occurrence Genome-centric analysis

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Biofiltration and disinfection codetermine the bacterial antibiotic resistome in drinking water: A review

Kun Wan, Wenfang Lin, Shuai Zhu, Shenghua Zhang, Xin Yu

《环境科学与工程前沿（英文）》 2020年第14卷第1期 doi: 10.1007/s11783-019-1189-1

摘要： Published data was used to analyze the fate of ARGs in water treatment. Biomass removal leads to the reduction in absolute abundance of ARGs. Mechanism that filter biofilm maintain ARB/ARGs was summarized. Potential BAR risks caused by biofiltration and chlorination were proposed. The bacterial antibiotic resistome (BAR) is one of the most serious contemporary medical challenges. The BAR problem in drinking water is receiving growing attention. In this study, we focused on the distribution, changes, and health risks of the BAR throughout the drinking water treatment system. We extracted the antibiotic resistance gene (ARG) data from recent publications and analyzed ARG profiles based on diversity, absolute abundance, and relative abundance. The absolute abundance of ARG was found to decrease with water treatment processes and was positively correlated with the abundance of 16S rRNA (r2 = 0.963, p<0.001), indicating that the reduction of ARG concentration was accompanied by decreasing biomass. Among treatment processes, biofiltration and chlorination were discovered to play important roles in shaping the bacterial antibiotic resistome. Chlorination exhibited positive effects in controlling the diversity of ARG, while biofiltration, especially granular activated carbon filtration, increased the diversity of ARG. Both biofiltration and chlorination altered the structure of the resistome by affecting relative ARG abundance. In addition, we analyzed the mechanism behind the impact of biofiltration and chlorination on the bacterial antibiotic resistome. By intercepting influent ARG-carrying bacteria, biofilters can enrich various ARGs and maintain ARGs in biofilm. Chlorination further selects bacteria co-resistant to chlorine and antibiotics. Finally, we proposed the BAR health risks caused by biofiltration and chlorination in water treatment. To reduce potential BAR risk in drinking water, membrane filtration technology and water boiling are recommended at the point of use.

关键词： Drinking water treatment Antibiotic resistance gene Biofiltration Chlorination

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Degradation of extracellular genomic, plasmid DNA and specific antibiotic resistance genes by chlorination

Menglu Zhang, Sheng Chen, Xin Yu, Peter Vikesland, Amy Pruden

《环境科学与工程前沿（英文）》 2019年第13卷第3期 doi: 10.1007/s11783-019-1124-5

摘要：

Extracellular DNA structure damaged by chlorination was characterized.

Integrity of extracellular ARG genetic information after chlorination was determined.

Typical chlorine doses will likely effectively diminish extracellular DNA and ARGs.

Plasmid DNA/ARGs were less readily broken down than genomic DNA.

The Bioanalyzer methodology effectively documented damage incurred to DNA.

关键词： Antibiotic resistance Antibiotic resistance genes (ARGs) Extracellular DNA/ARGs Chlorination

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Distribution of antibiotic resistance genes and their association with bacteria and viruses in decentralized

《环境科学与工程前沿（英文）》 2022年第16卷第3期 doi: 10.1007/s11783-021-1469-4

摘要：

• Distribution of ARGs in decentralized sewage facilities were investigated.

关键词： Decentralized sewage treatment facilities Antibiotic resistance genes Virus Metagenomics Network analysis

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Environmental Antibiotics and Antibiotic Resistance: From Problems to Solutions

Xin Yu, Virender K. Sharma, Hui Li

《环境科学与工程前沿（英文）》 2019年第13卷第3期 doi: 10.1007/s11783-019-1137-0

摘要：

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Analysis of antibiotic resistance of

Yangyang Yu, Xiaolin Zhu, Guanlan Wu, Chengzhi Wang, Xing Yuan

《环境科学与工程前沿（英文）》 2019年第13卷第3期 doi: 10.1007/s11783-019-1123-6

摘要：

The concentrations of four types of antibiotics in the Yitong River were detected.

The concentration of total coliforms in summer was higher than that in spring.

There was a seasonal difference in antibiotic resistance of E. coli.

The E. coli in the Yitong River was found to have multiple antibiotic resistance.

关键词： Yitong River Coliform bacteria Antibiotic resistance Escherichia coli

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Effect of ultraviolet irradiation and chlorination on ampicillin-resistant

Yuchen PANG,Jingjing HUANG,Jinying XI,Hongying HU,Yun ZHU

《环境科学与工程前沿（英文）》 2016年第10卷第3期页码 522-530 doi: 10.1007/s11783-015-0779-9

摘要： Antibiotic resistance is a serious public health risk that may spread via potable and reclaimed water. Effective disinfection is important for inactivation of antibiotic-resistant bacteria and disruption of antibiotic resistance genes. Ampicillin is a widely prescribed antibiotic but its effectiveness is increasingly undermined by resistance. In this study, changes in ampicillin resistance for ( ) CGMCC 1.1595 were analyzed after exposure to different doses of ultraviolet (UV) or chlorine, and damage incurred by the plasmid encoding ampicillin resistance gene was assessed. We reported a greater stability in ampicillin-resistant CGMCC 1.1595 after UV irradiation or chlorination when compared with previously published data for other strains. UV irradiation and chlorination led to a shift in the mortality frequency distributions of ampicillin-resistant when subsequently exposed to ampicillin. The ampicillin hemi-inhibitory concentration (IC ) without disinfection was 3800 mg·L , and an increment was observed after UV irradiation or chlorination. The IC of ampicillin-resistant was 1.5-fold higher at a UV dose of 40 mJ·cm , and was 1.4-fold higher when exposed to 2.0 mg·L chlorine. These results indicate that UV irradiation and chlorination can potentially increase the risk of selection for strains with high ampicillin resistance. There was no evident damage to after 1–10 mg Cl ·L chlorination, while a UV dose of 80 mJ·cm yielded a damage ratio for of approximately 1.2-log. Therefore, high UV doses are required for effective disruption of antibiotic resistance genes in bacteria.

关键词： antibiotic resistance Escherichia coli ampicillin resistance gene ultraviolet irradiation chlorination

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Transmission of antibiotic resistance genes in agroecosystems: an overview

Jizheng HE, Zhenzhen YAN, Qinglin CHEN

《农业科学与工程前沿（英文）》 2020年第7卷第3期页码 329-332 doi: 10.15302/J-FASE-2020333

摘要：

The use of antibiotics in human medicine and animal husbandry has resulted in the continuous release of antibiotics into the environment, which imposes high selection pressure on bacteria to develop antibiotic resistance. The spread and aggregation of antibiotic resistance genes (ARGs) in multidrug-resistant pathogens is one of the most intractable clinical challenges. Numerous studies have been conducted to profile the patterns of ARGs in agricultural ecosystems, as this is closely related to human health and wellbeing. This paper provides an overview of the transmission of ARGs in agricultural ecosystems resulting from the application of animal manures and other organic amendments. The future need to control and mitigate the spread of antibiotic resistance in agricultural ecosystems is also discussed, particularly from a holistic perspective, and requires multiple sector efforts to translate fundamental knowledge into effective strategies.

关键词： agroecosystem antibiotic resistance public health soil-plant system

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Presence, dissemination and removal of antibiotic resistant bacteria and antibiotic resistance genes

Qiaowen Tan, Weiying Li, Junpeng Zhang, Wei Zhou, Jiping Chen, Yue Li, Jie Ma

《环境科学与工程前沿（英文）》 2019年第13卷第3期 doi: 10.1007/s11783-019-1120-9

摘要：

Reviewed the change of ARGs and ARB in full-scale urban drinking water systems.

Conventional processes are more promising than BAC process in ARGs removal.

Mechanisms of ARGs enrichment and spread in BAC filter and DWDSs are discussed.

Raise the need of future research on ARGs and ARB change in building plumbing systems.

关键词： Antibiotic resistant bacteria Antibiotic resistance genes Water source Drinking water treatment plant Drinking water distribution system Urban drinking water system

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ARGs-OAP v3.0——抗生素耐药基因数据库的筛选和分析流程优化 Article

Xiaole Yin, Xiawan Zheng, Liguan Li, An-Ni Zhang, Xiao-Tao Jiang, Tong Zhang

《工程（英文）》 2023年第27卷第8期页码 234-241 doi: 10.1016/j.eng.2022.10.011

摘要：

Antibiotic resistance, which is encoded by antibiotic-resistance genes (ARGs), has proliferated to become a growing threat to public health around the world. With technical advances, especially in the popularization of metagenomic sequencing, scientists have gained the ability to decipher the profiles of ARGs in diverse samples with high accuracy at an accelerated speed. To analyze thousands of ARGs in a highthroughput way, standardized and integrated pipelines are needed. The new version (v3.0) of the widely used ARGs online analysis pipeline (ARGs-OAP) has made significant improvements to both the reference database—the structured ARGs (SARG) database—and the integrated analysis pipeline. SARG has been enhanced with sequence curation to improve annotation reliability, incorporate emerging resistance genotypes, and determine rigorous mechanism classification. The database has been further organized and visualized online in the format of a tree-like structure with a dictionary. It has also been divided into sub-databases for different application scenarios. In addition, the ARGs-OAP has been improved with adjusted quantification methods, simplified tool implementation, and multiple functions with userdefined reference databases. Moreover, the online platform now provides a diverse biostatistical analysis workflow with visualization packages for the efficient interpretation of ARG profiles. The ARGs-OAP v3.0 with an improved database and analysis pipeline will benefit academia, governmental management, and consultation regarding risk assessment of the environmental prevalence of ARGs.

关键词： SARG database ARGs-OAP Antibiotic-resistance genes Environmental metagenome Quantification

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Antibiotic resistome of : molecular determinants for the emergence of drug resistance

《医学前沿（英文）》 2021年第15卷第5期页码 693-703 doi: 10.1007/s11684-020-0777-6

摘要： Resistome is a cluster of microbial genes encoding proteins with necessary functions to resist the action of antibiotics. Resistome governs essential and separate biological functions to develop resistance against antibiotics. The widespread clinical and nonclinical uses of antibiotics over the years have combined to select antibiotic-resistant determinants and develop resistome in bacteria. At present, the emergence of drug resistance because of resistome is a significant problem faced by clinicians for the treatment of Salmonella infection. Antibiotic resistome is a dynamic and ever-expanding component in Salmonella. The foundation of resistome in Salmonella is laid long before; therefore, the antibiotic resistome of Salmonella is reviewed, discussed, and summarized. We have searched the literature using PubMed, MEDLINE, and Google Scholar with related key terms (resistome, Salmonella, antibiotics, drug resistance) and prepared this review. In this review, we summarize the status of resistance against antibiotics in S. typhi, highlight the seminal work in the resistome of S. typhi and the genes involved in the antibiotic resistance, and discuss the various methods to identify S. typhi resistome for the proactive identification of this infection and quick diagnosis of the disease.

关键词： S. typhi antibiotic resistance mechanism resistome identification methods

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Influences and mechanisms of nanofullerene on the horizontal transfer of plasmid-encoded antibiotic resistance

Qingkun Ji, Caihong Zhang, Dan Li

《环境科学与工程前沿（英文）》 2020年第14卷第6期 doi: 10.1007/s11783-020-1287-0

摘要： Abstract • Sub-inhibitory levels of nC60 promote conjugative transfer of ARGs. • nC60 can induce ROS generation, oxidative stress and SOS response. • nC60 can increase cell membrane permeability and alter gene expression. • Results provide evidence of nC60 promoting antibiotic resistance dissemination. The spread and development of antibiotic resistance globally have led to severe public health problems. It has been shown that some non-antibiotic substances can also promote the diffusion and spread of antibiotic resistance genes (ARGs). Nanofullerene (nC60) is a type of nanomaterial widely used around the world, and some studies have discovered both the biological toxicity and environmental toxicity of nC60. In this study, cellular and molecular biology techniques were employed to investigate the influences of nC60 at sub-minimum inhibitory concentrations (sub-MICs) on the conjugation of ARGs between the E. coli strains. Compared with the control group, nC60 significantly increased the conjugation rates of ARGs by 1.32‒10.82 folds within the concentration range of 7.03‒1800 mg/L. This study further explored the mechanism of this phenomenon, finding that sub-MICs of nC60 could induce the production of reactive oxygen species (ROS), trigger SOS-response and oxidative stress, affect the expression of outer membrane proteins (OMPs) genes, increase membrane permeability, and thus promote the occurrence of conjugation. This research enriches our understanding of the environmental toxicity of nC60, raises our risk awareness toward nC60, and may promote the more rational employment of nC60 materials.

关键词： Nanofullerene Sub-minimum inhibitory concentrations Antibiotic resistance genes Conjugation Molecular biological techniques