Reverse-Transcription Loop-Mediated Isothermal Amplification Has High Accuracy for Detecting Severe Acute Respiratory Syndrome Coronavirus 2 in Saliva and Nasopharyngeal/Oropharyngeal Swabs from Asymptomatic and Symptomatic Individuals
This article has been Reviewed by the following groups
Listed in
- Evaluated articles (ScreenIT)
Abstract
No abstract available
Article activity feed
-
-
-
-
-
SciScore for 10.1101/2021.06.28.21259398: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
Ethics not detected. Sex as a biological variable not detected. Randomization not detected. Blinding not detected. Power Analysis not detected. Cell Line Authentication not detected. Table 2: Resources
Experimental Models: Cell Lines Sentences Resources 0% confluent Vero E6 cells and allowed to adsorb for 1 hour. Vero E6suggested: RRID:CVCL_XD71)Software and Algorithms Sentences Resources SARS-CoV-2 Real-Time RT-qPCR: RNA was analysed using a range of different methods available at each site: CerTest VIASURE SARS-CoV-2 real time qPCR assay: Single step RT-qPCR against the ORF1ab region and N1 gene target of SARS-CoV-2 was carried out using the CerTest VIASURE SARS-CoV-2 real time PCR kit (CerTest Biotech SL, … SciScore for 10.1101/2021.06.28.21259398: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
Ethics not detected. Sex as a biological variable not detected. Randomization not detected. Blinding not detected. Power Analysis not detected. Cell Line Authentication not detected. Table 2: Resources
Experimental Models: Cell Lines Sentences Resources 0% confluent Vero E6 cells and allowed to adsorb for 1 hour. Vero E6suggested: RRID:CVCL_XD71)Software and Algorithms Sentences Resources SARS-CoV-2 Real-Time RT-qPCR: RNA was analysed using a range of different methods available at each site: CerTest VIASURE SARS-CoV-2 real time qPCR assay: Single step RT-qPCR against the ORF1ab region and N1 gene target of SARS-CoV-2 was carried out using the CerTest VIASURE SARS-CoV-2 real time PCR kit (CerTest Biotech SL, Zaragoza, Spain) according to manufacturer’s instructions for use (IFU) on either the ThermoFisher QuantStudio 5 or BioMolecular Systems MIC instruments, using 5 µl of extracted RNA per reaction. ThermoFisher QuantStudiosuggested: (Primer Express Software, RRID:SCR_017376)Real-Time qPCR assay: Single step RT-qPCR against the E gene target of SARS-CoV-2 was carried out with the Corman et al. 3 primers using the AgPath-ID™ PCR kit (Thermofisher) according to manufacturer’s instructions for use (IFU) on an Aria qPCR Cycler (Agilent) and results analysed using the Agilent AriaMX 1.5 software, using 5 µl of extracted RNA per reaction. Agilent AriaMXsuggested: (Agilent AriaMx Real-time PCR System, RRID:SCR_019469)Confusion matrices, sensitivity, specificity, sensitivity as a function of viral load calculations, and the production of scatter graphs showing the relationship between RT-LAMP results and CT were performed using Python 3.8.6. Pythonsuggested: (IPython, RRID:SCR_001658)Results from OddPub: Thank you for sharing your data.
Results from LimitationRecognizer: We detected the following sentences addressing limitations in the study:Incorporation of this inhibition control into the RT-LAMP assays would alleviate a potential limitation of the current assays and further support quality assurance for use within a clinical diagnostic setting. This study demonstrated high sensitivity and specificity for a novel sample preparation method used for SARS-CoV-2 Direct RT-LAMP, particularly in samples from which the individual would likely be considered infectious, highlighting the usefulness of saliva as a simple to collect, non-invasive sample type. The highly sensitive RNA RT-LAMP assay provides a rapid alternative with a reliance on differing reagents and equipment to RT-qPCR testing, thus providing additional diagnostic capacity and redundancy through diversity. Direct RT-LAMP may complement existing surveillance tools for SARS-CoV-2 testing including other point-of-care and laboratory-based diagnostics and is applicable to a variety of clinical scenarios, such as frequent, interval-based testing of asymptomatic individuals that may be missed when reliance is on symptomatic testing alone. However, care should be taken when considering frequency of testing, messaging around the role and interpretation of asymptomatic rapid tests, integration of data storage and access, and the challenges faced when scaling up surveillance to large populations. The role out of a new testing strategy can often throw up interesting and unexpected experiences. These collective experiences and lessons learnt from setting up an NHS a...
Results from TrialIdentifier: No clinical trial numbers were referenced.
Results from Barzooka: We did not find any issues relating to the usage of bar graphs.
Results from JetFighter: We did not find any issues relating to colormaps.
Results from rtransparent:- Thank you for including a conflict of interest statement. Authors are encouraged to include this statement when submitting to a journal.
- Thank you for including a funding statement. Authors are encouraged to include this statement when submitting to a journal.
- No protocol registration statement was detected.
Results from scite Reference Check: We found no unreliable references.
-
-