Articles producció científica> Ciències Mèdiques Bàsiques

Metagenomic analysis of viruses, bacteria and protozoa in irrigation water

  • Identification data

    Identifier: imarina:6063465
    Authors:
    Rusiñol MMartínez-Puchol STimoneda NFernández-Cassi XPérez-Cataluña AFernández-Bravo AMoreno-Mesonero LMoreno YAlonso JFigueras MAbril JBofill-Mas SGirones R
    Abstract:
    © 2019 Viruses (e.g., noroviruses and hepatitis A and E virus), bacteria (e.g., Salmonella spp. and pathogenic Escherichia coli) and protozoa (e.g., Cryptosporidium parvum and Giardia intestinalis) are well-known contributors to food-borne illnesses linked to contaminated fresh produce. As agricultural irrigation increases the total amount of water used annually, reclaimed water is a good alternative to reduce dependency on conventional irrigation water sources. European guidelines have established acceptable concentrations of certain pathogens and/or indicators in irrigation water, depending on the irrigation system used and the irrigated crop. However, the incidences of food-borne infections are known to be underestimated and all the different pathogens contributing to these infections are not known. Next-generation sequencing (NGS) enables the determination of the viral, bacterial and protozoan populations present in a water sample, providing an opportunity to detect emerging pathogens and develop improved tools for monitoring the quality of irrigation water. This is a descriptive study of the virome, bacteriome and parasitome present in different irrigation water sources. We applied the same concentration method for all the studied samples and specific metagenomic approaches to characterize both DNA and RNA viruses, bacteria and protozoa. In general, most of the known viral species corresponded to plant viruses and bacteriophages. Viral diversity in river water varied over the year, with higher bacteriophage prevalences during the autumn and winter. Reservoir water contained Enterobacter cloacae, an opportunistic human pathogen and an indicator of fecal contamination, as well as Naegleria australiensis and Naegleria clarki. Hepatitis E virus and Naegleria fowleri, e
  • Others:

    Author, as appears in the article.: Rusiñol M; Martínez-Puchol S; Timoneda N; Fernández-Cassi X; Pérez-Cataluña A; Fernández-Bravo A; Moreno-Mesonero L; Moreno Y; Alonso J; Figueras M; Abril J; Bofill-Mas S; Girones R
    Department: Ciències Mèdiques Bàsiques
    URV's Author/s: Fernández Bravo, Ana / Figueras Salvat, María Josefa / PÉREZ CATALUÑA, ALBA
    Keywords: bacteria irrigation water metagenomics protozoa Antibiotic-resistance Bacteria Contamination Diversity Drinking Entamoeba-moshkovskii Identification Irrigation water Metagenomics Microorganisms Protozoa River water Treatment-plant Urban sewage Virus
    Abstract: © 2019 Viruses (e.g., noroviruses and hepatitis A and E virus), bacteria (e.g., Salmonella spp. and pathogenic Escherichia coli) and protozoa (e.g., Cryptosporidium parvum and Giardia intestinalis) are well-known contributors to food-borne illnesses linked to contaminated fresh produce. As agricultural irrigation increases the total amount of water used annually, reclaimed water is a good alternative to reduce dependency on conventional irrigation water sources. European guidelines have established acceptable concentrations of certain pathogens and/or indicators in irrigation water, depending on the irrigation system used and the irrigated crop. However, the incidences of food-borne infections are known to be underestimated and all the different pathogens contributing to these infections are not known. Next-generation sequencing (NGS) enables the determination of the viral, bacterial and protozoan populations present in a water sample, providing an opportunity to detect emerging pathogens and develop improved tools for monitoring the quality of irrigation water. This is a descriptive study of the virome, bacteriome and parasitome present in different irrigation water sources. We applied the same concentration method for all the studied samples and specific metagenomic approaches to characterize both DNA and RNA viruses, bacteria and protozoa. In general, most of the known viral species corresponded to plant viruses and bacteriophages. Viral diversity in river water varied over the year, with higher bacteriophage prevalences during the autumn and winter. Reservoir water contained Enterobacter cloacae, an opportunistic human pathogen and an indicator of fecal contamination, as well as Naegleria australiensis and Naegleria clarki. Hepatitis E virus and Naegleria fowleri, emerging human pathogens, were detected in groundwater. Reclaimed water produced in a constructed wetland system presented a virome and bacteriome that resembled those of freshwater samples (river and reservoir water). Viral, bacterial and protozoan pathogens were occasionally detected in the different irrigation water sources included in this study, justifying the use of improved NGS techniques to get a comprehensive evaluation of microbial species and potential environmental health hazards associated to irrigation water.
    Thematic Areas: Biodiversidade Biotecnología Ciência de alimentos Ciências agrárias i Ciências ambientais Ciências biológicas i Ciências biológicas ii Ciências biológicas iii Engenharias ii Farmacia Infectious diseases Interdisciplinar Materiais Medicina i Medicina ii Planejamento urbano e regional / demografia Public health, environmental and occupational health Public, environmental & occupational health Saúde coletiva Zootecnia / recursos pesqueiros
    licence for use: https://creativecommons.org/licenses/by/3.0/es/
    Author's mail: mariajose.figueras@urv.cat ana.fernandez@urv.cat
    ISSN: 14384639
    Author identifier: 0000-0002-2268-8980 0000-0001-7637-5958
    Record's date: 2023-02-22
    Papper version: info:eu-repo/semantics/submittedVersion
    Link to the original source: https://www.sciencedirect.com/science/article/abs/pii/S1438463919306716?via%3Dihub
    Papper original source: International Journal Of Hygiene And Environmental Health. 224 (UNSP 113440): 113440-
    APA: Rusiñol M; Martínez-Puchol S; Timoneda N; Fernández-Cassi X; Pérez-Cataluña A; Fernández-Bravo A; Moreno-Mesonero L; Moreno Y; Alonso J; Figueras M; A (2020). Metagenomic analysis of viruses, bacteria and protozoa in irrigation water. International Journal Of Hygiene And Environmental Health, 224(UNSP 113440), 113440-. DOI: 10.1016/j.ijheh.2019.113440
    Licence document URL: https://repositori.urv.cat/ca/proteccio-de-dades/
    Article's DOI: 10.1016/j.ijheh.2019.113440
    Entity: Universitat Rovira i Virgili
    Journal publication year: 2020
    Publication Type: Journal Publications
  • Keywords:

    Infectious Diseases,Public Health, Environmental and Occupational Health,Public, Environmental & Occupational Health
    bacteria
    irrigation water
    metagenomics
    protozoa
    Antibiotic-resistance
    Bacteria
    Contamination
    Diversity
    Drinking
    Entamoeba-moshkovskii
    Identification
    Irrigation water
    Metagenomics
    Microorganisms
    Protozoa
    River water
    Treatment-plant
    Urban sewage
    Virus
    Biodiversidade
    Biotecnología
    Ciência de alimentos
    Ciências agrárias i
    Ciências ambientais
    Ciências biológicas i
    Ciências biológicas ii
    Ciências biológicas iii
    Engenharias ii
    Farmacia
    Infectious diseases
    Interdisciplinar
    Materiais
    Medicina i
    Medicina ii
    Planejamento urbano e regional / demografia
    Public health, environmental and occupational health
    Public, environmental & occupational health
    Saúde coletiva
    Zootecnia / recursos pesqueiros
    14384639
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