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Identification and quantification of bacterial genomes carrying antibiotic resistance genes and virulence factor genes for aquatic microbiological risk assessment
Liang, Jinsong; Mao, Guannan; Yin, Xiaole; Ma, Liping; Liu, Lei; Bai, Yaohui; Zhang, Tong; Qu, Jiuhui
2020
Source PublicationWATER RESEARCH
ISSN0043-1354
Volume168Pages:1-11
AbstractAquatic ecosystems have been increasingly threatened by anthropogenic activities, e.g., wastewater discharge and farm operation. Several methods are adopted to evaluate the effects of anthropogenic activities on biological risk in the environment, such as qPCR and amplicon next-generation sequencing. However, these methods fall short of providing genomic information of target species, which is vital for risk assessment from genomic aspect. Here, we developed a novel approach integrating metagenomic analysis and flow cytometry to identify and quantify potential pathogenic antibiotic resistant bacteria (PARB; carrying both antibiotic resistance genes (ARGs) and virulence factor genes (VFGs)) in the environment, which are of particular concern due to their infection ability and antibiotic resistance. Based on the abundance/density of PARB, we evaluated microbiological risk in a river impacted by both municipal drainage and agriculture runoff. We collected samples upstream (mountainous area) as the control. Results showed that 81.8% of dominant PARB (33) recovered using our approach were related to known pathogenic taxa. In addition, intragenomic ARGs-VFGs coexistence patterns in the dominant Pseudomonas genomes (20 out of 71 PARB) showed high similarity with the most closely related Pseudomonas genomes from the NCBI RetSeq database. These results reflect acceptable reliability of the approach for (potential) pathogen identification in environmental samples. According to the PARB density, microbiological risk in samples from the agricultural area was significantly higher than in samples from the urban area. We speculated that this was due to the higher antibiotic usage in agriculture as well as intragenomic ARGs-VFGs co-evolution under antibiotic selective pressure. This study provides an alternative approach for the identification and quantification of PARB in aquatic environments, which can be applied for microbiological risk assessment. (C) 2019 Elsevier Ltd. All rights reserved.
Department中国科学院饮用水科学与技术重点实验室
KeywordPathogenic antibiotic resistant bacteria Antibiotic resistance genes Virulence factor genes Microbiological risk Aquatic ecosystem
Document Type期刊论文
Identifierhttps://ir.rcees.ac.cn/handle/311016/45303
Collection中国科学院饮用水科学与技术重点实验室
Recommended Citation
GB/T 7714
Liang, Jinsong,Mao, Guannan,Yin, Xiaole,et al. Identification and quantification of bacterial genomes carrying antibiotic resistance genes and virulence factor genes for aquatic microbiological risk assessment[J]. WATER RESEARCH,2020,168:1-11.
APA Liang, Jinsong.,Mao, Guannan.,Yin, Xiaole.,Ma, Liping.,Liu, Lei.,...&Qu, Jiuhui.(2020).Identification and quantification of bacterial genomes carrying antibiotic resistance genes and virulence factor genes for aquatic microbiological risk assessment.WATER RESEARCH,168,1-11.
MLA Liang, Jinsong,et al."Identification and quantification of bacterial genomes carrying antibiotic resistance genes and virulence factor genes for aquatic microbiological risk assessment".WATER RESEARCH 168(2020):1-11.
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