Environmental Pollution, Journal Year: 2024, Volume and Issue: 359, P. 124752 - 124752
Published: Aug. 17, 2024
Language: Английский
mSphere, Journal Year: 2024, Volume and Issue: 9(3)
Published: Feb. 27, 2024
Enteric infections are important causes of morbidity and mortality, yet clinical surveillance is limited. Wastewater-based epidemiology (WBE) has been used to study community circulation individual enteric viruses panels respiratory diseases, but there limited work studying the concurrent a suite viruses. A retrospective WBE was carried out at two wastewater treatment plants located in California, United States. Using digital droplet polymerase chain reaction (PCR), we measured concentrations human adenovirus group F, enteroviruses, norovirus genogroups I II, rotavirus nucleic acids solids times per week for 26 months (
Language: Английский
Citations
11
Epidemiology and Infection, Journal Year: 2025, Volume and Issue: 153
Published: Jan. 1, 2025
As astroviral infection rapidly increased in the summer of 2022 Korea, this study aimed to determine cause and genotype astroviruses during period. From January December 2022, we tested 43,312 stool samples from patients with acute gastroenteritis utilizing multiplex PCR detect HAstV. For HAstV-positive samples, determined genotypes HAstVs by sequencing. The monthly positive rate 2015 showed a notable abrupt increase HAstV between June August peaking at 9.8% July 2022. annual positivity remained 2-3% 2019, then decreased 0.5% 2020, followed an 1.5% 2021 3.6% 2022.The genotyped were all identified as HAstV-1 type, nucleotide identity% among them was >99%. GenBank accession number for strain genetically closest strains our ON571597.1, which isolated Pingtan 2019. Our results provide recent epidemiological data on Korea. decline surge astrovirus years may be related COVID-19 pandemic.
Language: Английский
Citations
1
Water Research, Journal Year: 2024, Volume and Issue: 263, P. 122152 - 122152
Published: July 29, 2024
Wastewater-based epidemiology (WBE) gained widespread use as a tool for supporting clinical disease surveillance during the COVID-19 pandemic. There is now significant interest in continued development of WBE other pathogens significance. In this study, approximately 3,200 samples wastewater from across England, previously collected quantification SARS-CoV-2, were re-analysed norovirus genogroup I (GI) and II (GII). Overall, GI GII detected 93% 98% respectively, at least one genogroups was 99% samples. found significantly lower concentrations than GII, but proportion each varied over time, with becoming more prevalent some areas towards end study period (May 2021 - March 2022). Using relative strength indices (RSI), it possible to trends genogroup, total time. Increases levels appeared coincide removal related lockdown restrictions within England. Local Moran's analyses indicated several localised outbreaks both notably outbreak north England early 2022. Comparisons national average against concomitant reported case numbers showed linear relationship. This highlights potential wastewater-based monitoring valuable approach support communities.
Language: Английский
Citations
5
Journal of Clinical Virology, Journal Year: 2024, Volume and Issue: 172, P. 105676 - 105676
Published: April 12, 2024
Viral gastroenteritis continues to be a leading cause of death in low-income countries. The impact nonpharmaceutical interventions (NPIs) on the transmission gastroenteritis-causing viruses during COVID-19 pandemic is understudied. To investigate 10-year trends enteric and estimate implementing mitigating NPIs. Data regarding norovirus, rotavirus, adenovirus, astrovirus, sapovirus detection were collected from five Korean hospitals between January 2013 April 2023. We compared positivity pre-pandemic, pandemic, post-pandemic periods. causal effects NPIs quantified using Bayesian Structural Time Series (BSTS) model. Norovirus was most frequently detected (9.9%), followed by rotavirus (6.7%), adenovirus (3.3%), astrovirus (1.4%), (0.6%). During all decreased, ranging -1.0% -8.1%, with showing greatest decrease. In period, rebounded for except rotavirus. BSTS model revealed that NPI implementation negatively affected viruses, resulting reductions -73.0% -91.0% prediction, being least affected. Conversely, mitigation positively 79.0% 200.0%, Trends observed over 10 years show have had major changes virus detection. effect vaccines, addition NPIs, requires further investigation. Our findings emphasize importance infection control prevention.
Language: Английский
Citations
4
One Health, Journal Year: 2024, Volume and Issue: 19, P. 100882 - 100882
Published: Aug. 23, 2024
Hepatitis E virus (HEV) and Rat (RHEV), recognized for their zoonotic potential, pose significant public health concerns. Our previous research identified both viruses in effluent wastewater Gothenburg, Sweden. However, there are lingering inquiries regarding the prevalence genetic diversity of these influent wastewater, as well utility surveillance elucidating community circulation dynamics. To address knowledge gaps, we conducted weekly collection samples at Rya treatment plant Gothenburg throughout 2023. The concentrations HEV RHEV were quantified using quantitative polymerase chain reaction (qPCR). Additionally, two semi/nested-PCR utilized to amplify viral strains. Furthermore, strains from patients within same region, other regions Sweden 2023, incorporated into analysis. Remarkably, observed a high (86%) (98%) samples, with majority sequences subtype 3c/i (9/12). In contrast, 3f was most sequenced among clinical patient (6/12). Notably, previously unreported HEV-3b unclassified detected wastewater. Almost all (20/21) clustered European groups, none genetically close found human cases. notable discordance subtypes HEV-3 compared suggests either underdiagnosis infections or differences loads shedding durations humans between subtypes. This underscores urgent need improved diagnostic techniques heightened awareness transmission consistent detection necessity further investigations assess potential role hepatitis cases unknown etiology, given that currently available assays fail detect RHEV.
Language: Английский
Citations
3
medRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown
Published: March 13, 2024
Abstract Wastewater-based epidemiology (WBE) gained widespread use as a tool for supporting clinical disease surveillance during the COVID-19 pandemic. There is now significant interest in continued development of WBE other pathogens significance. In this study, approximately 3,200 samples wastewater from across England, previously collected quantification SARS-CoV-2, were re-analysed norovirus genogroup I (GI) and II (GII). Overall, GI GII detected 93% 98% respectively, at least one genogroups was 99% samples. found significantly lower concentrations than GII, but proportion each varied over time, with becoming more prevalent some areas towards end study period (May 2021 – March 2022). Using relative strength indices (RSI), it possible to trends genogroup, total time. Increases levels appeared coincide removal related lockdown restrictions within England. Local Moran’s analyses indicated several localised outbreaks both notably outbreak north England early 2022. Comparisons national average against concomitant reported case numbers showed linear relationship. This highlights potential wastewater-based monitoring valuable approach support communities.
Language: Английский
Citations
2
Environment International, Journal Year: 2024, Volume and Issue: 190, P. 108875 - 108875
Published: July 9, 2024
Wastewater contains an extensive reservoir of genetic information, yet largely unexplored. Here, we analyzed by high-throughput sequencing total nucleic acids extracted from wastewater samples collected during a 17 month-period in Berlin, Germany. By integrating global datasets and applying novel computational approach to accurately identify viral strains within sewage RNA-sequencing data, demonstrated the emergence dissemination specific astrovirus strain. Astrovirus abundance sequence variation mirrored temporal spatial patterns infection, potentially serving as footprints timeframes geographical locations. Additionally, revealed more than 100,000 contigs likely originating species, exhibiting distinct profiles RNA DNA including undescribed bunyaviruses parvoviruses. Finally, identified thousands new CRISPR-associated protein sequences, Transposase B (TnpB), class compact, RNA-guided editing enzymes. Collectively, our findings underscore potential derived for broad range applications.
Language: Английский
Citations
2
The Science of The Total Environment, Journal Year: 2024, Volume and Issue: 920, P. 170887 - 170887
Published: Feb. 11, 2024
Co-presence of enveloped and non-enveloped viruses is common both in community circulation wastewater. Community surveillance infections requires robust methods enabling simultaneous quantification multiple Using SARS-CoV-2 Omicron subvariants Norovirus (NoV) as examples, this study reports a method that integrates electronegative membrane (EM) concentration, viral inactivation, RNA preservation (VIP) with efficient capture enrichment the on magnetic (Mag) beads, direct detection beads. This provides improved recoveries 80 ± 4 % for 72 5 (Murine NoV). Duplex reverse transcription quantitative polymerase chain reaction (RT-qPCR) assays newly designed degenerate primer-probe sets offered high PCR efficiencies (90–91 %) targets NoV (GI GII) were able to detect few 15 copies per reaction. technique, combined multiplex duplex successfully quantified variants same 94 influent wastewater samples collected from two large systems between July 2022 June 2023. The results showed temporal changes revealing an inverse relationship their emergence. demonstrated importance analytical platform ability sensitively determine pathogens will advance applications complementary public health tool.
Language: Английский
Citations
1
International Journal of Molecular Sciences, Journal Year: 2024, Volume and Issue: 25(7), P. 3619 - 3619
Published: March 23, 2024
Norovirus (NoV) genogroup II, polymerase type P31, capsid genotype 4, Sydney_2012 variant (GII.P31/GII.4_Sydney_2012) has been circulating at high levels for over a decade, raising the question of whether this strain is undergoing molecular alterations without demonstrating substantial phylogenetic difference. Here, we applied next-generation sequencing to learn more about genetic diversity 14 GII.P31/GII.4_Sydney_2012 strains that caused epidemics in specific region Japan, with 12 from Kyoto and 2 Shizuoka, between 2012 2022, an emphasis on amino acid (aa) differences all three ORFs. We found numerous notable aa antigenic locations (ORF2) as well other In ORFs, earlier (2013–2016) remained phylogenetically distinct later (2019–2022). This research expected shed light evolutionary properties dominating strains, which could provide useful information viral diarrhea prevention treatment.
Language: Английский
Citations
1
Frontiers in Microbiology, Journal Year: 2024, Volume and Issue: 15
Published: July 10, 2024
In the 2010s, several unusual rotavirus strains emerged, causing epidemics worldwide. This study reports a comprehensive molecular epidemiological of rotaviruses in Japan based on full-genome analysis. From 2014 to 2019, total 489 rotavirus-positive stool specimens were identified, and associated viral genomes analyzed by next-generation sequencing. The genotype constellations those classified into nine patterns (G1P[8] (Wa), G1P[8]-E2, G1P[8] (DS-1), G2P[4] G3P[8] G8P[8] G9P[8] G9P[8]-E2). major prevalent differed year, comprising (DS-1) (37% that year’s isolates) 2014, (65%) 2015, (Wa) (72%) 2016, (66%) 2017, G1P[8]-E2 (53%) 2018, (26%) 2019. (G1-P[8]-I1-R1-C1-M1-A1-N1-T1-E2-H1) isolated from 42 discontinuous years (2015 2018), which newly-emerged NSP4 mono-reassortant strains. Based results Bayesian evolutionary analyses, G9P[8]-E2 hypothesized have been generated distinct independent inter-genogroup reassortment events. G1 detected this multiple clusters, depending year detection. A comparison predicted amino acid sequences VP7 epitopes revealed different encoded harboring mutations. These mutations may be responsible for immune escape annual changes
Language: Английский
Citations
0