Metagenomic water quality monitoring with a portable laboratory

Acharya, Kishor; Blackburn, Adrian; Mohammed, Jemila; Haile, Alemseged Tamiru; Hiruy, Andualem Mekonnen; Werner, David

doi:10.1016/j.watres.2020.116112

Cited by 53 publications

(46 citation statements)

References 29 publications

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“…DNA metagenome sequencing (metagenomics) is a valuable technology for detection of all Vibrio spp. in the environment, including VBNC Vibrio, and is particularly useful because it simultaneously profiles virulence and antimicrobial resistance associated genes (Roy et al, 2018;Acharya et al, 2020;Brumfield et al, 2020Brumfield et al, , 2021. Most of the HTS studies reported to date have focused on clinical isolates obtained by culture previously from patient samples.…”

Section: Molecular Methods For Detection and Genomic Analysis Of Vibrio Sppmentioning

confidence: 99%

Environmental parameters associated with incidence and transmission of pathogenic Vibrio spp.

Brumfield

Usmani

Chen

et al. 2021

Environmental Microbiology

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Section: Molecular Methods For Detection and Genomic Analysis Of Vibrio Sppmentioning

confidence: 99%

Environmental parameters associated with incidence and transmission of pathogenic Vibrio spp.

Brumfield

Usmani

Chen

et al. 2021

Environmental Microbiology

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“…The use of 16S rRNA RFLP is commonly utilized to characterize Arcobacter in water, despite its reported lack of reliability [179]. Recently, the use of 16s rRNA sequencing has become more common for characterization [140,179,185,186].…”

Section: Campylobacter and Emerging Arcobactermentioning

confidence: 99%

The Persistence of Bacterial Pathogens in Surface Water and Its Impact on Global Food Safety

et al. 2021

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Water is vital to agriculture. It is essential that the water used for the production of fresh produce commodities be safe. Microbial pathogens are able to survive for extended periods of time in water. It is critical to understand their biology and ecology in this ecosystem in order to develop better mitigation strategies for farmers who grow these food crops. In this review the prevalence, persistence and ecology of four major foodborne pathogens, Shiga toxin-producing Escherichia coli (STEC), Salmonella, Campylobacter and closely related Arcobacter, and Listeria monocytogenes, in water are discussed. These pathogens have been linked to fresh produce outbreaks, some with devastating consequences, where, in a few cases, the contamination event has been traced to water used for crop production or post-harvest activities. In addition, antimicrobial resistance, methods improvements, including the role of genomics in aiding in the understanding of these pathogens, are discussed. Finally, global initiatives to improve our knowledge base of these pathogens around the world are touched upon.

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“…This changed after the introduction of the third generation of sequencers developed by Oxford Nanopore Technology. Their product, MinION, is a USB-shaped sequencing device connected to a standard computer that can be applied also in the field [ 129 ].…”

Section: Detection Of Sars-cov-2mentioning

confidence: 99%

Wastewater-Based Epidemiology as an Early Warning System for the Spreading of SARS-CoV-2 and Its Mutations in the Population

Martı́n

Gál

Špalková

et al. 2021

IJERPH

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New methodologies based on the principle of “sewage epidemiology” have been successfully applied before in the detection of illegal drugs. The study describes the idea of early detection of a virus, e.g., SARS-CoV-2, in wastewater in order to focus on the area of virus occurrence and supplement the results obtained from clinical examination. By monitoring temporal variation in viral loads in wastewater in combination with other analysis, a virus outbreak can be detected and its spread can be suppressed early. The use of biosensors for virus detection also seems to be an interesting application. Biosensors are highly sensitive, selective, and portable and offer a way for fast analysis. This manuscript provides an overview of the current situation in the area of wastewater analysis, including genetic sequencing regarding viral detection and the technological solution of an early warning system for wastewater monitoring based on biosensors.

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Metagenomic water quality monitoring with a portable laboratory

Cited by 53 publications

References 29 publications

Environmental parameters associated with incidence and transmission of pathogenic Vibrio spp.

Environmental parameters associated with incidence and transmission of pathogenic Vibrio spp.

The Persistence of Bacterial Pathogens in Surface Water and Its Impact on Global Food Safety

Wastewater-Based Epidemiology as an Early Warning System for the Spreading of SARS-CoV-2 and Its Mutations in the Population

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