Monitoring SARS-CoV-2 variants alterations in Nice neighborhoods by wastewater nanopore sequencing
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SciScore for 10.1101/2021.07.09.21257475: (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. Table 2: Resources
No key resources detected.
Results from OddPub: Thank you for sharing your code and data.
Results from LimitationRecognizer: We detected the following sentences addressing limitations in the study:A limitation of our study is that our analyses were done with RNA from 1 milliliter of wastewater. An increase of the amount of RNA led to RT/PCR inhibition likely due to the co-purification of inhibitors present in wastewater during virus concentration and RNA preparation. Future SARS-CoV-2 concentration techniques and RT/PCR inhibitor removal from the …
SciScore for 10.1101/2021.07.09.21257475: (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. Table 2: Resources
No key resources detected.
Results from OddPub: Thank you for sharing your code and data.
Results from LimitationRecognizer: We detected the following sentences addressing limitations in the study:A limitation of our study is that our analyses were done with RNA from 1 milliliter of wastewater. An increase of the amount of RNA led to RT/PCR inhibition likely due to the co-purification of inhibitors present in wastewater during virus concentration and RNA preparation. Future SARS-CoV-2 concentration techniques and RT/PCR inhibitor removal from the RNA preparations will certainly improve the sensitivity of the measurement, as previously done for detecting poliovirus [17]. This approach was however sufficient in the present study because the concentration of the virus was high at that time in Nice. The results were robust, and we believe that internal controls such as PMMoV will contribute to the development of more quantitative approaches. In conclusion, our results strongly position RNA sequencing of wastewater samples as a credible tool for analyzing the spread and evolution of SARS-CoV-2. Viral monitoring in wastewater is clearly not limited to the surveillance of the present SARS-CoV-2 pandemic. The surveillance approach that we have set up can easily be transferred to other epidemiological programs, targeting future emerging viruses of concern. As such, it appears as a valuable monitoring tool to assess the effectiveness of sanitary measures aiming to curb virus transmission. Last, our work illustrates how the situation can vary between different neighborhoods of the same city. The raise of B.1.1.7 in “Les Moulins” in January coincides with a raise of A.27 in “Bon V...
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.
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