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Prisons are high-risk settings for infectious disease transmission, due to their enclosed and semi-enclosed environments. The proximity between prisoners and staff, and the diversity of prisons reduces the effectiveness of non-pharmaceutical interventions, such as social distancing. Therefore, alternative health monitoring methods, such as wastewater-based epidemiology (WBE), are needed to track pathogens, including SARS-CoV-2. This pilot study assessed WBE to quantify SARS-CoV-2 prevalence in prison wastewater to determine its utility within a health protection system for residents. The study analysed 266 samples from six prisons in England over a 12-week period for nucleoprotein 1 (N1 gene) and envelope protein (E gene) using quantitative reverse transcriptase-polymerase chain reaction. Both gene assays successfully detected SARS-CoV-2 fragments in wastewater samples, with both genes significantly correlating with COVID-19 case numbers across the prisons (p < 0.01). However, in 25% of the SARS-positive samples, only one gene target was detected, suggesting that both genes be used to reduce false-negative results. No significant differences were observed between 14- and 2-h composite samples, although 2-h samples showed greater signal variance. Population normalisation did not improve correlations between the N1 and E genes and COVID-19 case data. Overall, WBE shows considerable promise for health protection in prison settings. HIGHLIGHTS Wastewater epidemiology is effective in flagging COVID-19 cases in prison settings.; SARS-CoV-2 levels were quantified using N1 and E gene targets.; Both targets should be used in routine analysis to reduce false negatives.; COVID-19 case numbers significantly correlated with both wastewater gene targets across all samples.; Each prison is different – local activities are important when designing sampling programmes.;

The world is becoming increasingly urbanized, with migration rates often exceeding the infra-structural capacity in cities across the developing world. As such, many migrants must reside in informal settlements that lack civil and health protection infrastructure, including air quality monitoring. Here, geospatial inverse distance weighting and archived Central Pollution Control Board (CPCB) air quality data for neighboring stations from 2018 to 2021 were used to estimate air conditions in five informal settlements in Delhi, India, spanning the 2020 pandemic lockdown. The results showed that WHO limits for PM2.5 and NO2 were exceeded regularly, although air quality improved during the pandemic. Air quality was always better during the monsoon season (44.3 ± 3.47 and 26.9 ± 2.35 μg/m3 for PM2.5 and NO2, respectively) and poorest in the post-monsoon season (180 ± 15.5 and 55.2 ± 3.59 μg/m3 for PM2.5 and NO2). Differences in air quality among settlements were explained by the proximity to major roads and places of open burning, with NO2 levels often being greater near roads and PM2.5 levels being elevated near places with open burning. Field monitoring was performed in 2023 at three settlements and local CPCB stations. Air quality at settlements and their closest station were not significantly different (p < 0.01). However, field data showed that on-site factors within settlements, such as cooking, ad hoc burning, or micro-scale industry, impact air quality on local scales, suggesting health risks are greater in informal settlements because of greater unregulated activity. City-scale models can estimate mean air quality concentrations at unmonitored locations, but caution is needed because such models can miss local exposures that may have the greatest impact on local health.

Enterococcus belongs to a group of microorganisms known as lactic acid bacteria (LAB), which constitute a broad heterogeneous group of generally food-grade microorganisms historically used in food preservation. Enterococci live as commensals of the gastrointestinal tract of warm-blooded animals, although they also are present in food of animal origin (milk, cheese, fermented sausages), vegetables, and plant materials because of their ability to survive heat treatments and adverse environmental conditions. The biotechnological traits of enterococci can be applied in the food industry; however, the emergence of enterococci as a cause of nosocomial infections makes their food status uncertain. Recent advances in high-throughput sequencing allow the subtyping of bacterial pathogens, but it cannot reflect the temporal dynamics and functional activities of microbiomes or bacterial isolates. Moreover, genetic analysis is based on sequence homologies, inferring functions from databases. Here, we used an end-to-end proteomic workflow to rapidly characterize two bacteriocin-producing Enterococcus faecium (Efm) strains. The proteome analysis was performed with liquid chromatography coupled to a trapped ion mobility spectrometry-time-of-flight mass spectrometry instrument (TimsTOF) for high-throughput and high-resolution characterization of bacterial proteins. Thus, we identified almost half of the proteins predicted in the bacterial genomes (>1100 unique proteins per isolate), including quantifying proteins conferring resistance to antibiotics, heavy metals, virulence factors, and bacteriocins. The obtained proteomes were annotated according to function, resulting in 22 complete KEGG metabolic pathway modules for both strains. The workflow used here successfully characterized these bacterial isolates and showed great promise for determining and optimizing the bioengineering and biotechnology properties of other LAB strains in the food industry.