scholarly journals SARS-CoV-2 in wastewater settled solids is associated with COVID-19 cases in a large urban sewershed

2020 ◽  
Author(s):  
Katherine Graham ◽  
Stephanie Loeb ◽  
Marlene Wolfe ◽  
David Catoe ◽  
Nasa Sinnott-Armstrong ◽  
...  
Keyword(s):  
Wastewater Treatment Plants ◽  
Rt Pcr ◽  
Pcr Assay ◽  
Public Health Response ◽  
Pepper Mild Mottle Virus ◽  
Rna Targets ◽  
Health Response ◽  
One Step ◽  
The One ◽  
Analytical Approaches

Wastewater-based epidemiology (WBE) may be useful for informing public health response to viral diseases like COVID-19 caused by SARS-CoV-2. We quantified SARS-CoV-2 RNA in wastewater influent and primary settled solids in two wastewater treatment plants to inform the pre-analytical and analytical approaches, and to assess whether influent or solids harbored more viral targets. The primary settled solids samples resulted in higher SARS-CoV-2 detection frequencies than the corresponding influent samples. Likewise, SARS-CoV-2 RNA was more readily detected in solids using one-step digital droplet (dd)RT-PCR than with two-step RT-QPCR and two-step ddRT-PCR, likely owing to reduced inhibition with the one-step ddRT-PCR assay. We subsequently analyzed a longitudinal time series of 89 settled solids samples from a single plant for SARS-CoV-2 RNA as well as coronavirus recovery (bovine coronavirus) and fecal strength (pepper mild mottle virus, PMMoV) controls. SARS-CoV-2 RNA targets N1 and N2 concentrations correlate positively and significantly with COVID-19 clinical confirmed case counts in the sewershed. Together, the results demonstrate that measuring SARS-CoV-2 RNA concentrations in settled solids may be a more sensitive approach than measuring SARs-CoV-2 in influent.

scholarly journals Development of the one-step qualitative RT-PCR assay to detect SARS-CoV-2 Omicron (B.1.1.529) variant in respiratory specimens

2022 ◽  
Author(s):  
Tung Phan ◽  
Stephanie Boes ◽  
Melissa McCullough ◽  
Jamie Gribschaw ◽  
Alan Wells
Keyword(s):  
Limit Of Detection ◽  
Cross Reactivity ◽  
Upper Respiratory Tract ◽  
Rt Pcr ◽  
Pcr Assay ◽  
Qualitative Detection ◽  
One Step ◽  
Upper Respiratory ◽  
The One ◽  
Respiratory Specimens

A new SARS-CoV-2 Omicron (B.1.1.529) Variant of Concern has been emerging worldwide. We are seeing an unprecedented surge in patients due to Omicron in this COVID-19 pandemic. A rapid and accurate molecular test that effectively differentiates Omicron from other SARS-CoV-2 variants would be important for both epidemiologic value and for directing variant-specific therapies such as monoclonal antibody infusions. In this study, we developed a real-time RT-PCR assay for the qualitative detection of Omicron from routine clinical specimens sampling the upper respiratory tract. The limit of detection of the SARS-CoV-2 Omicron variant RT-PCR assay was 2 copies/μl. Notably, the assay did not show any cross-reactivity with other SARS-CoV-2 variants including Delta (B.1.617.2). This SARS-CoV-2 Omicron variant RT-PCR laboratory-developed assay is sensitive and specific to detect Omicron in nasopharyngeal and nasal swab specimens.

A one-step multiplex real-time RT-PCR assay for rapid and simultaneous detection of human norovirus genogroup I, II and IV

2013 ◽  
Vol 189 (2) ◽  
pp. 277-282 ◽  
Author(s):  
Yong Yan ◽  
Heng-hui Wang ◽  
Lei Gao ◽  
Ji-mei Ji ◽  
Zhi-jie Ge ◽  
...  
Keyword(s):  
Real Time ◽  
Simultaneous Detection ◽  
Rt Pcr ◽  
Pcr Assay ◽  
Human Norovirus ◽  
One Step

scholarly journals Detection of Cherry leaf roll virus and Strawberry latent ring spot virus by one-step RT-PCR

2009 ◽  
Vol 45 (No. 4) ◽  
pp. 140-143 ◽  
Author(s):  
S. Kumari
Keyword(s):  
Leaf Roll ◽  
Rt Pcr ◽  
Spot Virus ◽  
Cherry Leaf Roll Virus ◽  
One Step ◽  
Polymerase Chain ◽  
The One ◽  
Ring Spot ◽  
Screen House ◽  
Xiphinema Diversicaudatum

A one-step reverse transcription-polymerase chain reaction (RT-PCR) protocol was developed and used for the detection of <i>Cherry leaf roll virus</i> (CLRV) and <i>Strawberry latent ring spot virus</i> (SLRSV). The protocol was used to test infected screen house plants and also plants from orchards and vineyards where the vector (<i>Xiphinema diversicaudatum</i>) of SLRSV was detected from the soil. The one-step RT-PCR protocol is rapid and sensitive and has the potential to be used for the diagnosis of CLRV and SLRSV in routine diagnostic laboratories.

scholarly journals A Second-Order Disaster? Digital Technologies During the COVID-19 Pandemic

2020 ◽  
Vol 6 (3) ◽  
pp. 205630512094816
Author(s):  
Mirca Madianou
Keyword(s):  
Public Health ◽  
Social Inequalities ◽  
Digital Technologies ◽  
Second Order ◽  
Contact Tracing ◽  
Remote Work ◽  
Public Health Response ◽  
Marginalized Communities ◽  
Health Response ◽  
The One

One of the most striking features of the COVID-19 pandemic in the United Kingdom has been the disproportionate way in which it has affected Black, Asian, ethnic minority, and working class people. In this article, I argue that digital technologies and data practices in the response to COVID-19 amplify social inequalities, which are already accentuated by the pandemic, thus leading to a “second-order disaster”—a human-made disaster which further traps disadvantaged people into precarity. Inequalities are reproduced both in the everyday uses of technology for distance learning and remote work as well as in the public health response. Applications such as contact tracing apps raise concerns about “function creep”—the reuse of data for different purposes than the one for which they were originally collected—while they normalize surveillance which has been traditionally used on marginalized communities. The outsourcing of the digital public health response consolidates the arrival of the privatized digital welfare state, which increases risks of potential discrimination.

Rapid detection of Enterovirus and Coxsackievirus A10 by a TaqMan based duplex one-step real time RT-PCR assay

2017 ◽  
Vol 33 ◽  
pp. 8-10 ◽  
Author(s):  
Jingfang Chen ◽  
Rusheng Zhang ◽  
Xinhua Ou ◽  
Dong Yao ◽  
Zheng Huang ◽  
...  
Keyword(s):  
Real Time ◽  
Rapid Detection ◽  
Rt Pcr ◽  
Pcr Assay ◽  
One Step

scholarly journals Progress towards Rapid Detection of Measles Vaccine Strains: a Tool To Inform Public Health Interventions

2016 ◽  
Vol 55 (3) ◽  
pp. 686-689 ◽  
Author(s):  
Jill K. Hacker
Keyword(s):  
Public Health ◽  
Measles Virus ◽  
Measles Vaccine ◽  
Wild Type ◽  
Pcr Assay ◽  
Public Health Response ◽  
The Public ◽  
Health Response ◽  
Epidemiological Tool ◽  
Type Strains

ABSTRACT Rapid differentiation of vaccine from wild-type strains in suspect measles cases is a valuable epidemiological tool that informs the public health response to this highly infectious disease. Few public health laboratories sequence measles virus-positive specimens to determine genotype, and the vaccine-specific real-time reverse transcriptase PCR (rRT-PCR) assay described by F. Roy et al. (J. Clin. Microbiol. 55:735–743, 2017, https://doi.org/10.1128/JCM.01879-16 ) offers a rapid, easily adoptable method to identify measles vaccine strains in suspect cases.

scholarly journals Detection of Apple Stem Grooving Virus in Dormant Apple Trees with Crude Extracts as Templates for One-Step RT-PCR

Plant Disease ◽  
1998 ◽  
Vol 82 (7) ◽  
pp. 785-790 ◽  
Author(s):  
Vera L. A. Marinho ◽  
J. Kummert ◽  
G. Rufflard ◽  
D. Colinet ◽  
P. Lepoivre
Keyword(s):  
Rt Pcr ◽  
Degenerate Primers ◽  
Apple Trees ◽  
Active Growth ◽  
Japanese Strain ◽  
Apple Stem Grooving Virus ◽  
Apple Stem ◽  
Crude Extracts ◽  
One Step ◽  
The One

Partial nucleotide sequences of amplification products obtained from four European apple stem grooving virus (ASGV) isolates using degenerate primers showed 80 to 85% similarity with the published ASGV sequence of a Japanese strain but 98 to 100% identities among themselves. Based on these sequences, two ASGV-specific primers (ASGV4F-ASGV4R) were designed to amplify a 574-bp fragment located in the putative viral RNA polymerase. With these primers, six European and five American ASGV isolates, maintained in herbaceous hosts (Chenopodium quinoa, Nicotiana glutinosa, and N. occidentalis) or in apple trees, were readily detected by reverse transcription-polymerase chain reaction (RT-PCR). Using these specific ASGV primers, dsRNA preparations have been shown to constitute good templates for reliable amplification of ASGV sequences from leaves and bark tissues of apple trees, both in a two-step RT-PCR protocol and in the one-step Titan One-Tube RT-PCR. System. Furthermore, the one-step RT-PCR system allowed a specific amplification of ASGV sequences directly from clarified crude extracts of leaves and bark tissues of apple trees during both active growth and the dormant season.

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