Urban ponds as hotspots of antibiotic resistome in the urban environment

Hou, Liyuan; Zhang, Lanping; Li, Furun; Huang, Sijun; Yang, Jun; Ma, Cong; Zhang, Duanxin; Yu, Chang‐Ping; Hu, Anyi

doi:10.1016/j.jhazmat.2020.124008

Cited by 65 publications

(29 citation statements)

References 79 publications

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“…Due to the different regulations between Taiwan and the mainland, China, we could only collect samples from anthropogenic-disturbed environments in Xiamen, China. Some (72 of 219 samples) of the above datasets have been shown in our previous studies [19,41].…”

Section: Sampling Design Collection and Physicochemical Analysismentioning

confidence: 87%

“…Then, the relationship between physicochemical variables and the β-diversity of bacteria or ARGs was determined by using the "envfit" function in R package vegan [47]. The variation partitioning analysis (VPA) was used to determine the pure effects of the physicochemical variables, MGEs (the absolute and normalized abundances of MGEs) and bacterial communities (the first two axes of PCoA ordination) on the composition of ARGs [41]. The significant response variables in explaining the β-diversity variation of ARGs were identified by using forward selection with the 'ordiR2step' function in R package vegan [47].…”

Section: Discussionmentioning

confidence: 99%

“…In addition, one primer set targeting 16S rRNA genes was also included [6]. Numerous previous studies have employed this method to study the ARG profiles in diverse aquatic environments [6,8,41]. Amplification was conducted in a 100 nL reaction system containing 1× LightCycler ® 480 SYBR Green I Master Mix (Roche, UK), 5 ng/µL of template DNA, 1 ng/µL bovine serum albumin, and each forward and reverse primer.…”

Section: Ht-qpcr Analysis Of Argsmentioning

confidence: 99%

“…Amplification was conducted in a 100 nL reaction system containing 1× LightCycler ® 480 SYBR Green I Master Mix (Roche, UK), 5 ng/µL of template DNA, 1 ng/µL bovine serum albumin, and each forward and reverse primer. The qPCR amplification cycle was set as 95 • C for 10 min for initial denaturation, followed by 40 cycles of 95 • C for 30 s and 60 • C for 30 s. The HT-qPCR data were processed by using SmartChip qPCR software [19,41]. The previous study based on the Ribosomal RNA Operon Copy Number Database showed that each bacterial cell contains an average of four copy numbers of 16S rRNA genes [6].…”

Section: Ht-qpcr Analysis Of Argsmentioning

confidence: 99%

“…The previous study based on the Ribosomal RNA Operon Copy Number Database showed that each bacterial cell contains an average of four copy numbers of 16S rRNA genes [6]. Thus, the approximate bacterial cells in a community can be calculated as described previously [41].…”

Section: Ht-qpcr Analysis Of Argsmentioning

confidence: 99%

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A Comprehensive Profile of Antibiotic Resistance Genes in the Water Column of a Shallow-Sea Hydrothermal Vent Ecosystem

Zhang

Yu-fang

et al. 2022

Sustainability

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Antibiotic resistance genes (ARGs) became an emerging contaminant, and were found to accumulate in natural and man-made environments. A comprehensive understanding of the diversity and abundance of ARGs in pristine environments is critical for defining the baseline levels of environmental ARGs. However, there is limited information available on the ARG profiles of pristine environments, especially for shallow-sea hydrothermal vents ecosystems. Here, we combined 16S rRNA gene full-length amplicon sequencing and high-throughput quantitative PCR (HT-qPCR) to study the bacterial communities, and ARG abundance and diversity in the shallow-sea hydrothermal vent ecosystem of the Kueishantao Islet. The results of the 16S rRNA gene amplicon sequencing showed that several sulfur-cycling related bacterial genera, including Thiomicrorhabdus, Thioreductor, Sulfurovum, Sulfurimonas and Lebetimonas, dominated in the water column of the shallow-sea system. Temperature was the significant factor shaping the bacterial communities. The results of HT-qPCR analysis showed that the Kueishantao shallow-sea system harbored the lowest diversity (average 10 ARG subtypes) and abundance (average 1.0 × 10−3 copy per bacterial cell) of ARGs compared with other pristine (i.e., Tibet lake sediments, marine water and sediments) and anthropogenic-disturbed (i.e., drinking water reservoirs, urban ponds and wastewater treatment plants) environments. Procrustes analysis demonstrated a concordant pattern between the compositions of bacterial communities and ARGs in the shallow-sea system, while variation partition analysis revealed that the shared effects of physicochemical and bacterial communities explained >80% of the variation in the composition of ARGs. These results suggest that the vent bacterial communities and local environmental factors played an important role in shaping the distribution of the ARG profiles. Our study provides the first comprehensive overview of the background level of ARGs in a shallow-sea hydrothermal vent ecosystem.

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Section: Sampling Design Collection and Physicochemical Analysismentioning

confidence: 87%

Section: Discussionmentioning

confidence: 99%