Protocol for Detection of pathogenic enteric RNA viruses by regular monitoring of environmental samples from wastewater treatment plants using Droplet Digital PCR DOI Creative Commons
Ram Kumar Nema, Surya Singh, Ashutosh Kumar Singh

и другие.

Science in One Health, Год журнала: 2024, Номер 3, С. 100080 - 100080

Опубликована: Янв. 1, 2024

The present comprehensive protocol is focused on the detection of pathogenic enteric RNA viruses, explicitly focusing norovirus genogroup Ⅱ (GⅡ), astrovirus, rotavirus, Aichi virus, sapovirus, hepatitis A and E viruses in wastewater treatment plants through droplet digital PCR (ddPCR). Enteric are significant public health concern, as they leading cause diseases like gastroenteritis. Regular monitoring environmental samples, particularly from plants, crucial for early control these viruses. This research aims to improve understanding prevalence dynamics urban India will serve a model similar studies other regions. Our protocol's objective establish novel ddPCR-based methodology molecular characterization samples sourced Bhopal, India. assay capable accurately quantifying virus concentrations without standard curves, minimizing extensive optimization, enhancing sensitivity precision, especially low-abundance targets.

Язык: Английский

A broad wastewater screening and clinical data surveillance for virus-related diseases in the metropolitan Detroit area in Michigan DOI Creative Commons
Yabing Li,

Brijen Miyani,

Russell A. Faust

и другие.

Human Genomics, Год журнала: 2024, Номер 18(1)

Опубликована: Фев. 6, 2024

Abstract Background Periodic bioinformatics-based screening of wastewater for assessing the diversity potential human viral pathogens circulating in a given community may help to identify novel or potentially emerging infectious diseases. Any identified contigs related viruses should be confirmed with targeted and clinical testing. Results During COVID-19 pandemic, untreated samples were collected 1-year period from Great Lakes Water Authority Wastewater Treatment Facility Detroit, MI, USA, population both centralized interceptor sites localized neighborhood sewersheds was investigated. Clinical cases diseases caused by tabulated compared data monitoring. In addition Betacoronavirus , comparison using assembled against custom Swiss-Prot virus database indicated prevalence other pathogenic genera, including: Orthopoxvirus Rhadinovirus, Parapoxvirus Varicellovirus, Hepatovirus, Simplexvirus, Bocaparvovirus, Molluscipoxvirus, Parechovirus, Roseolovirus, Lymphocryptovirus, Alphavirus, Spumavirus, Lentivirus, Deltaretrovirus, Enterovirus, Kobuvirus, Gammaretrovirus, Cardiovirus, Erythroparvovirus, Salivirus, Rubivirus, Orthohepevirus, Cytomegalovirus, Norovirus, Mamastrovirus . Four nearly complete genomes recovered Astrovirus, Norovirus Betapolyomavirus genera species identified. Conclusions The presented findings are primarily at genus level can serve as preliminary “screening” tool that indication initiate further testing confirmation presence associated disease. Integrating innovative environmental microbiology technologies like metagenomic sequencing epidemiology offers significant opportunity improve monitoring of, predictive intelligence for, viruses, wastewater.

Язык: Английский

Процитировано

10

Tunable control of Cas12 activity promotes universal and fast one-pot nucleic acid detection DOI Creative Commons
Zhou‐Hua Cheng,

Xiyan Luo,

Sheng-Song Yu

и другие.

Nature Communications, Год журнала: 2025, Номер 16(1)

Опубликована: Янв. 30, 2025

The CRISPR-based detection methods have been widely applied, yet they remain limited by the non-universal nature of one-pot diagnostic approaches. Here, we report a universal fluorescent method for epidemic pathogens, delivering results within 15-20 min. This uses heparin sodium to precisely tunes cis-cleavage capability Cas12 via interference with Cas12a-crRNA binding process, thereby generating significant fluorescence due accumulation isothermal amplification products. Additionally, this assay accommodates both classic and suboptimal PAMs, as well various Cas12a subtypes such LbCas12a, AsCas12a, AapCas12b. Such robust demonstrates sensitivity specificity exceeding 95% in monkeypox pseudovirus, influenza A virus, SARS-CoV-2 from saliva or wastewater samples, when compared qPCR RT-qPCR. Moreover, cost per thousand is $0.01 $0.04 only. Collectively, fast approach based on offers potential possibilities point-of-care testing.

Язык: Английский

Процитировано

2

Optimization of the 5-plex digital PCR workflow for simultaneous monitoring of SARS-CoV-2 and other pathogenic viruses in wastewater DOI
Bikash Malla, Sadhana Shrestha, Eiji Haramoto

и другие.

The Science of The Total Environment, Год журнала: 2023, Номер 913, С. 169746 - 169746

Опубликована: Дек. 28, 2023

Язык: Английский

Процитировано

21

Wastewater Surveillance Provides Spatiotemporal SARS-CoV-2 Infection Dynamics DOI Creative Commons

Xiawan Zheng,

Kathy Leung, Xiaoqing Xu

и другие.

Engineering, Год журнала: 2024, Номер 40, С. 70 - 77

Опубликована: Март 15, 2024

Wastewater surveillance can leverage its wide coverage, population-based sampling, and high monitoring frequency to capture citywide pandemic trends independent of clinical surveillance. Here we conducted a 9-month daily wastewater for severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) from 12 treatment plants (WWTPs), covering approximately 80% the population, monitor infection dynamics in Hong Kong. We found that SARS-CoV-2 virus concentration was correlated with number reported cases reached two peaks three days earlier during study period. In addition, different methods were established estimate prevalence/incidence rates measurements. The estimated results consistent findings programmes (rapid antigen test (RAT) serology surveillance), but higher than by Centre Health Protection (CHP) Moreover, effective reproductive (Rt) measurements reflect both regional transmission dynamics. Our demonstrate large-scale intensive WWTPs provides cost-effective timely public health information, especially when is inadequate costly. This approach also insights into at spatiotemporal resolutions, facilitating formulation control policies targeted resource allocation.

Язык: Английский

Процитировано

7

Tracking diarrhea viruses and mpox virus using the wastewater surveillance network in Hong Kong DOI

Xiawan Zheng,

Keyue Zhao,

Bingjie Xue

и другие.

Water Research, Год журнала: 2024, Номер 255, С. 121513 - 121513

Опубликована: Март 24, 2024

Язык: Английский

Процитировано

7

Early Detection of the Emerging SARS-CoV-2 BA.2.86 Lineage Through Wastewater Surveillance Using a Mediator Probe PCR Assay — Shenzhen City, Guangdong Province, China, 2023 DOI Creative Commons
Du Chen,

Yuejing Peng,

Ziquan Lyu

и другие.

Deleted Journal, Год журнала: 2024, Номер 6(15), С. 332 - 338

Опубликована: Янв. 1, 2024

Introduction The emergence of the new severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) Omicron sublineage, BA.2.86, has sparked global public health concerns for its potential heightened transmissibility and immune evasion. Utilizing data from Shenzhen's city-wide wastewater surveillance system, we highlight presence BA.2.86 lineage in Shenzhen. Methods A mediator probe polymerase chain reaction (PCR) assay was developed to detect by targeting a specific mutation (Spike: A264D). Between September 19 December 10, 2023, 781 samples 38 treatment plants (WWTPs) 9 pump stations ten districts Shenzhen were examined. Through multiple short-amplicon sequencing, three positive identified. Results identified Futian Nanshan on 2, 2023. From total 21 BA.2.86-positive found across 6 (Futian, Nanshan, Longhua, Baoan, Longgang, Luohu) weighted average viral load 43.5 copies/L increased 219.8 4, then decreased approximately 100 6, 8, 10. Conclusions PCR assay, designed swift detection low concentrations samples, shows promise detecting different SARS-CoV-2 variants. Wastewater could serve as an early system promptly identifying variants they emerge.

Язык: Английский

Процитировано

7

Wastewater genomic sequencing for SARS-CoV-2 variants surveillance in wastewater-based epidemiology applications DOI
Xiaoqing Xu, Yu Deng, Jiahui Ding

и другие.

Water Research, Год журнала: 2023, Номер 244, С. 120444 - 120444

Опубликована: Авг. 3, 2023

Язык: Английский

Процитировано

12

Simple SARS-CoV-2 concentration methods for wastewater surveillance in low resource settings DOI Creative Commons
Mohammad Dehghan Banadaki, Soroosh Torabi,

Alexus Rockward

и другие.

The Science of The Total Environment, Год журнала: 2023, Номер 912, С. 168782 - 168782

Опубликована: Ноя. 23, 2023

Язык: Английский

Процитировано

12

High-resolution and real-time wastewater viral surveillance by Nanopore sequencing DOI
Xiaoqing Xu, Yu Deng, Jiahui Ding

и другие.

Water Research, Год журнала: 2024, Номер 256, С. 121623 - 121623

Опубликована: Апрель 16, 2024

Язык: Английский

Процитировано

5

Rapid and extensive SARS-CoV-2 Omicron variant infection wave revealed by wastewater surveillance in Shenzhen following the lifting of a strict COVID-19 strategy DOI
Yinghui Li, Du Chen,

Ziquan Lv

и другие.

The Science of The Total Environment, Год журнала: 2024, Номер 949, С. 175235 - 175235

Опубликована: Авг. 3, 2024

Язык: Английский

Процитировано

5