Development of a qualitative approach to assessing risks associated with the use of treated wastewater in agricultural irrigation

The European Commission’s draft regulation for minimum requirements for water reuse in agriculture addresses microbial and basic water quality parameters but does not consider the potential impacts of chemicals of emerging concern (CECs) on human and environmental health. Because insufficient data prevents the quantitative characterisation of risks posed by CECs in treated wastewater (TWW), this paper presents a framework, which combines data and expert judgement to assess likelihood of occurrence and magnitude of impact. An increasing relative scale is applied where numeric values are pre-defined to represent comparative levels of importance. Subsequently, an overall assessment of the level of risk is characterised by multiplying together allocated scores, to obtain a single discrete overall score per CEC. Guidelines to support implementation of the framework as far as soil (the initial receiving compartment and pathway to further protected targets) are developed and applied. The approach is demonstrated through its application to clarithromycin, where results indicate that – under the considered scenario - there is limited possibility of its occurrence in soil in a bioavailable form. The role of a qualitative risk assessment approach is considered and the opportunity for its outputs to inform future research agendas described

Recommendations to derive quality standards for chemical pollutants in reclaimed water intended for reuse in agricultural irrigation

The reuse of treated municipal wastewater (herein referred to as reclaimed water) in agricultural irrigation (RWAI) as a means to alleviate water scarcity is gaining increasing policy attention, particularly in areas where water demand mitigation measures have proved insufficient. However, reclaimed water reuse in practice is lagging behind policy ambition, with <2.5% of it reused in a European context. A key barrier identified as limiting its full valorisation is concern over its impact on human and environmental health. To address this concern, and to meet further objectives including achieving parity between current reclaimed water reuse guidelines operational in various Member States, the European Commission has proposed a regulation which identifies minimum quality requirements (MQR) for a range of microbiological and physico-chemical parameters but the inclusion of compounds of emerging concern (CECs) in terms of the determination of quality standards (QS) is missing. This paper reviews the existing pertinent EU legislation in terms of identifying the need for CEC QS for RWAI, considering the scope and remit of on-going pan-European chemicals prioritisation schemes. It also evaluates opportunities to link in with the existing EQS derivation methodology under the EU WFD to address all protection targets in the environmental compartments exposed via potential pathways of RWAI. Finally, it identifies the main data gaps and research needs for terrestrial ecosystems, the removal efficiency of CECs by WWTPs and transformation products generated during the wastewater reuse cycle

The potential implications of reclaimed wastewater reuse for irrigation on the agricultural environment: the knowns and unknowns of the fate of antibiotics and antibiotic resistant bacteria and resistance genes – a review

The use of reclaimed wastewater (RWW) for the irrigation of crops may result in the continuous exposure of the agricultural environment to antibiotics, antibiotic resistant bacteria (ARB) and antibiotic resistance genes (ARGs). In recent years, certain evidence indicate that antibiotics and resistance genes may become disseminated in agricultural soils as a result of the amendment with manure and biosolids and irrigation with RWW. Antibiotic residues and other contaminants may undergo sorption/desorption and transformation processes (both biotic and abiotic), and have the potential to affect the soil microbiota. Antibiotics found in the soil pore water (bioavailable fraction) as a result of RWW irrigation may be taken up by crop plants, bioaccumulate within plant tissues and subsequently enter the food webs; potentially resulting in detrimental public health implications. It can be also hypothesized that ARGs can spread among soil and plant-associated bacteria, a fact that may have serious human health implications. The majority of studies dealing with these environmental and social challenges related with the use of RWW for irrigation were conducted under laboratory or using, somehow, controlled conditions. This critical review discusses the state of the art on the fate of antibiotics, ARB and ARGs in agricultural environment where RWW is applied for irrigation. The implications associated with the uptake of antibiotics by plants (uptake mechanisms) and the potential risks to public health are highlighted. Additionally, knowledge gaps as well as challenges and opportunities are addressed, with the aim of boosting future research towards an enhanced understanding of the fate and implications of these contaminants of emerging concern in the agricultural environment. These are key issues in a world where the increasing water scarcity and the continuous appeal of circular economy demand answers for a long-term safe use of RWW for irrigation

Inter-laboratory calibration of quantitative analyses of antibiotic resistance genes

info:eu-repo/semantics/publishedVersio

Antibiotic resistance genes in treated wastewater and in the receiving water bodies: a pan-European survey of urban settings

There is increasing public concern regarding the fate of antibiotic resistance genes (ARGs) during wastewater treatment, their persistence during the treatment process and their potential impacts on the receiving water bodies. In this study, we used quantitative PCR (qPCR) to determine the abundance of nine ARGs and a class 1 integron associated integrase gene in 16 wastewater treatment plant (WWTP) effluents from ten different European countries. In order to assess the impact on the receiving water bodies, gene abundances in the latter were also analysed. Six out of the nine ARGs analysed were detected in all effluent and river water samples. Among the quantified genes, intI1 and sul1 were the most abundant. Our results demonstrate that European WWTP contribute to the enrichment of the resistome in the receiving water bodies with the particular impact being dependent on the effluent load and local hydrological conditions. The ARGs concentrations in WWTP effluents were found to be inversely correlated to the number of implemented biological treatment steps, indicating a possible option for WWTP management. Furthermore, this study has identified bla as a possible resistance gene for future studies investigating the impact of WWTPs on their receiving water. [Abstract copyright: Copyright © 2019 The Authors. Published by Elsevier Ltd.. All rights reserved.

Every fifth published metagenome is not available to science

Have you ever sought to use metagenomic DNA sequences reported in scientific publications? Were you successful? Here, we reveal that metagenomes from no fewer than 20% of the papers found in our literature search, published between 2016 and 2019, were not deposited in a repository or were simply inaccessible. The proportion of inaccessible data within the literature has been increasing year-on-year. Noncompliance with Open Data is best predicted by the scientific discipline of the journal. The number of citations, journal type (e.g., Open Access or subscription journals), and publisher are not good predictors of data accessibility. However, many publications in high–impact factor journals do display a higher likelihood of accessible metagenomic data sets. Twenty-first century science demands compliance with the ethical standard of data sharing of metagenomes and DNA sequence data more broadly. Data accessibility must become one of the routine and mandatory components of manuscript submissions—a requirement that should be applicable across the increasing number of disciplines using metagenomics. Compliance must be ensured and reinforced by funders, publishers, editors, reviewers, and, ultimately, the authors.info:eu-repo/semantics/publishedVersio

MiDAS 4: A global catalogue of full-length 16S rRNA gene sequences and taxonomy for studies of bacterial communities in wastewater treatment plants

Microbial communities are responsible for biological wastewater treatment, but our knowledge of their diversity and function is still poor. Here, we sequence more than 5 million high-quality, full-length 16S rRNA gene sequences from 740 wastewater treatment plants (WWTPs) across the world and use the sequences to construct the ‘MiDAS 4’ database. MiDAS 4 is an amplicon sequence variant resolved, full-length 16S rRNA gene reference database with a comprehensive taxonomy from domain to species level for all sequences. We use an independent dataset (269 WWTPs) to show that MiDAS 4, compared to commonly used universal reference databases, provides a better coverage for WWTP bacteria and an improved rate of genus and species level classification. Taking advantage of MiDAS 4, we carry out an amplicon-based, global-scale microbial community profiling of activated sludge plants using two common sets of primers targeting regions of the 16S rRNA gene, revealing how environmental conditions and biogeography shape the activated sludge microbiota. We also identify core and conditionally rare or abundant taxa, encompassing 966 genera and 1530 species that represent approximately 80% and 50% of the accumulated read abundance, respectively. Finally, we show that for well-studied functional guilds, such as nitrifiers or polyphosphate-accumulating organisms, the same genera are prevalent worldwide, with only a few abundant species in each genus