Evidence map›Paper›PMID 38527999›Full record

ArticleScientific reports2024

Evaluating and optimizing Acid-pH and Direct Lysis RNA extraction for SARS-CoV-2 RNA detection in whole saliva.

Brayden LaBute, Jackie Fong, Farinaz Ziaee, Robert Gombar, Mathew Stover, Terry Beaudin, Maria Badalova, Qiudi Geng, Ryland Corchis-Scott, Ana Podadera and 13 more

Open access · goldAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Scientific reports, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing papers in PubMed
0.8field-weighted citation impact, top 31% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

0 citing papers in PubMed, 2 citations in OpenAlex.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

23 authors at 2 institutions in 1 country.

Brayden LaBute *Department of Biomedical Sciences, University of Windsor, Windsor, ON, Canada.
Jackie Fong *Department of Biomedical Sciences, University of Windsor, Windsor, ON, Canada.
Farinaz ZiaeeDepartment of Chemistry and Biochemistry, University of Windsor, Windsor, ON, Canada.
Robert GombarDepartment of Biomedical Sciences, University of Windsor, Windsor, ON, Canada.
Mathew StoverDepartment of Biomedical Sciences, University of Windsor, Windsor, ON, Canada.
Terry BeaudinDepartment of Biomedical Sciences, University of Windsor, Windsor, ON, Canada.
Maria BadalovaDepartment of Biomedical Sciences, University of Windsor, Windsor, ON, Canada.
Qiudi GengGreat Lakes Institute for Environmental Research, University of Windsor, Windsor, ON, Canada.
Ryland Corchis-ScottGreat Lakes Institute for Environmental Research, University of Windsor, Windsor, ON, Canada.
Ana PodaderaDepartment of Chemistry and Biochemistry, University of Windsor, Windsor, ON, Canada.
Kyle LagoWE-SPARK Health Institute, University of Windsor, Windsor, ON, Canada.
ZhenHuan XuAumintec Research Inc., Richmond Hill, ON, Canada.
Fievel LimAumintec Research Inc., Richmond Hill, ON, Canada.
Felix ChiuAumintec Research Inc., Richmond Hill, ON, Canada.
Minghua FuAumintec Research Inc., Richmond Hill, ON, Canada.
Xiaofeng NieAumintec Research Inc., Richmond Hill, ON, Canada.
Yuanmin WuAumintec Research Inc., Richmond Hill, ON, Canada.
Corrina QuanWindsor Regional Hospital, Windsor, ON, Canada.
Caroline HammWE-SPARK Health Institute, University of Windsor, Windsor, ON, Canada.
R Michael McKayGreat Lakes Institute for Environmental Research, University of Windsor, Windsor, ON, Canada.
Kenneth NgDepartment of Chemistry and Biochemistry, University of Windsor, Windsor, ON, Canada.
Lisa A PorterDepartment of Biomedical Sciences, University of Windsor, Windsor, ON, Canada. lporter@uwindsor.ca.
Yufeng TongDepartment of Chemistry and Biochemistry, University of Windsor, Windsor, ON, Canada. Yufeng.Tong@uwindsor.ca.
University of Windsor · CAWindsor Regional Hospital · CA

Funding

CIHR 177776
6 · The paper itself

Abstract

COVID-19 has been a global public health and economic challenge. Screening for the SARS-CoV-2 virus has been a key part of disease mitigation while the world continues to move forward, and lessons learned will benefit disease detection beyond COVID-19. Saliva specimen collection offers a less invasive, time- and cost-effective alternative to standard nasopharyngeal swabs. We optimized two different methods of saliva sample processing for RT-qPCR testing. Two methods were optimized to provide two cost-efficient ways to do testing for a minimum of four samples by pooling in a 2.0 mL tube and decrease the need for more highly trained personnel. Acid-pH-based RNA extraction method can be done without the need for expensive kits. Direct Lysis is a quick one-step reaction that can be applied quickly. Our optimized Acid-pH and Direct Lysis protocols are reliable and reproducible, detecting the beta-2 microglobulin (B2M) mRNA in saliva as an internal control from 97 to 96.7% of samples, respectively. The cycle threshold (Ct) values for B2M were significantly higher in the Direct Lysis protocol than in the Acid-pH protocol. The limit of detection for N1 gene was higher in Direct Lysis at ≤ 5 copies/μL than Acid-pH. Saliva samples collected over the course of several days from two COVID-positive individuals demonstrated Ct values for N1 that were consistently higher from Direct Lysis compared to Acid-pH. Collectively, this work supports that each of these techniques can be used to screen for SARS-CoV-2 in saliva for a cost-effective screening platform.

Indexed as

COVID-19HumansHydrogen-Ion ConcentrationNasopharynxRNA, ViralSalivaSARS-CoV-2Specimen HandlingRNA, Viral

Identifiers

PMID38527999
PMCPMC10963802
OpenAlexW4393149770

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.