Metagenomic analysis of viruses, bacteria and protozoa in irrigation water

Rusiñol, Marta; Martínez-Puchol, Sandra; Timoneda, Natàlia; Fernández-Cassi, Xavier; Pérez-Cataluña, Alba; Fernández-Bravo, Ana; Moreno-Mesonero, Laura; Moreno, Yolanda; Alonso, J.L.; Figueras, María José; Abril, Josep F.; Bofill-Mas, Sı́lvia; Gironés, Rosina

doi:10.1016/j.ijheh.2019.113440

Cited by 32 publications

(19 citation statements)

References 82 publications

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“…There have been numerous studies on the detection of viruses in different water matrices, including: surface water treated for drinking water purposes ( Wang et al, 2020b ), bottled drinking water ( Martin-Latil et al, 2012 ), well water ( Emelko et al, 2019 ; Ji et al, 2020 ), seawater ( Canh et al, 2019 ), irrigation water ( Rusiñol et al, 2020 ), surface water ( Canh et al, 2019 ; Guo et al, 2018 ; Hata et al, 2014 ; Khalenkov et al, 2008 ) and wastewater ( Di Bonito et al, 2017 ; Ibrahim et al, 2017 ; Jahne et al, 2020 ; Masclaux et al, 2013 ; Prado et al, 2019 ; Qiu et al, 2016 ; Symonds et al, 2014 ).…”

Section: Detection Methods Of Viruses In Wastewatermentioning

confidence: 99%

Viruses in wastewater: occurrence, abundance and detection methods

Corpuz

Buonerba

Vigliottá

et al. 2020

Science of The Total Environment

194

178

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This paper presents an updated and comprehensive review on the different methods used for detection and quantification of viruses in wastewater treatment systems. The analysis of viability of viruses in wastewater and sludge is another thrust of this review. Recent studies have mostly focused on determining the abundance and diversity of viruses in wastewater influents, in samples from primary, secondary, and tertiary treatment stages, and in final effluents. A few studies have also examined the occurrence and diversity of viruses in raw and digested sludge samples. Recent efforts to improve efficiency of virus detection and quantification methods in the complex wastewater and sludge matrices are highlighted in this review. A summary and a detailed comparison of the pre-treatment methods that have been utilized for wastewater and sludge samples are also presented. The role of metagenomics or sequencing analysis in monitoring wastewater systems to predict disease outbreaks, to conduct public health surveillance, to assess the efficiency of existing treatment systems in virus removal, and to re-evaluate current regulations regarding pathogenic viruses in wastewater is discussed in this paper. Challenges and future perspectives in the detection of viruses, including emerging and newly emerged viruses such as the Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2), in wastewater systems are discussed in this review.

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Section: Detection Methods Of Viruses In Wastewatermentioning

confidence: 99%

Viruses in wastewater: occurrence, abundance and detection methods

Corpuz

Buonerba

Vigliottá

et al. 2020

Science of The Total Environment

194

178

View full text Add to dashboard Cite

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“…Both the interactions within such a shared community, as well as factors that might lead to the complete dominance of bacteria over fungi (or vice versa), warrant further study, particularly given that many of the involved species were opportunistic pathogens. Studies of viruses in greywater or other types of recycled water demonstrate the presence of both human pathogens, including adenoviruses and noroviruses, and bacteriophages (Jahne et al, 2020, Rusinol et al, 2020. Wang et al (2013) have proposed the potential for leveraging knowledge of the microbial ecology within a plumbing system to control resident pathogens.…”

Section: Accepted Articlementioning

confidence: 99%

Human‐ and infrastructure‐associated bacteria in greywater

et al. 2021

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Greywater, the wastewater from sinks, showers and laundry, is an understudied environment for bacterial communities. Most greywater studies focus on quantifying pathogens, often via proxies used in other wastewater, like faecal indicator bacteria; there is a need to identify more greywater-appropriate surrogates, like Staphylococcus sp. Sequencing-based studies have revealed distinct communities in different types of greywater as well as in different parts of greywater infrastructure, including biofilms on pipes, holding tanks and filtration systems. The use of metagenomic sequencing provides high resolution on both the taxa and genes present, which may be of interest in cases like identifying pathogens and surrogates relevant to different matrices, monitoring antibiotic resistance genes and understanding metabolic processes occurring in the system. Here, we review what is known about bacterial communities in different types of greywater and its infrastructure. We suggest that wider adoption of environmental sequencing in greywater research is important because it can describe the entire bacterial community along with its metabolic capabilities, including pathways for removal of nutrients and organic materials. We briefly describe a metagenomic dataset comparing different types of greywater samples in a college dormitory building to highlight the type of questions these methods can address. Metagenomic sequencing can help further the understanding of greywater treatment for reuse because it allows for identification of new pathogens or genes of concern.

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“…is a Gram-positive thermophilic genus isolated from hot springs and found in extreme environments [51]. It has been detected in very low abundance in water springs and drinking water [52] explaining its presence in tap water (<1.0 log10 16S gene copies/mL) recovered from both dairy plants. However, Anoxybacillus sp.…”

Section: Bacterial Genera Found In Dairy White Wastewatersmentioning

confidence: 99%

Characterization of Chemical and Bacterial Compositions of Dairy Wastewaters

Alalam

Ben-Souilah

Lessard

et al. 2021

Dairy

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The dairy industry produces large amounts of wastewater, including white and cleaning wastewater originating principally from rinsing and cleaning-in-place procedures. Their valorization into process water and non-fat milk solids, in the case of white wastewater, or the renewal of cleaning solutions could be achieved using pressure-driven membrane processes. However, it is crucial to determine the intrinsic characteristics of wastewaters, such as proximate composition and bacterial composition, to optimize their potential for valorization. Consequently, white and cleaning wastewaters were sampled from industrial-scale pasteurizers located in two different Canadian dairy processing plants. Bacterial profiles of dairy wastewaters were compared to those of tap waters, pasteurized skim milk and unused cleaning solutions. The results showed that the physicochemical characteristics as well as non-fat milk solids contents differed drastically between the two dairy plants due to different processing conditions. A molecular approach combining quantitative real-time polymerase chain reaction (qPCR) and metabarcoding was used to characterize the bacteria present in these solutions. The cleaning solutions did not contain sufficient genomic DNA for sequencing. In white wastewater, the bacterial contamination differed depending on the dairy plant (6.91 and 7.21 log10 16S gene copies/mL). Psychrotrophic Psychrobacter genus (50%) dominated white wastewater from plant A, whereas thermophilic Anoxybacillus genus (56%) was predominant in plant B wastewater. The use of cold or warm temperatures during the pasteurizer rinsing step in each dairy plant might explain this difference. The detailed characterization of dairy wastewaters described in this study is important for the dairy sector to clearly identify the challenges in implementing strategies for wastewater valorization.

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Metagenomic analysis of viruses, bacteria and protozoa in irrigation water

Cited by 32 publications

References 82 publications

Viruses in wastewater: occurrence, abundance and detection methods

Viruses in wastewater: occurrence, abundance and detection methods

Human‐ and infrastructure‐associated bacteria in greywater

Characterization of Chemical and Bacterial Compositions of Dairy Wastewaters

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