Biochemical Characterization of Emerging SARS-CoV-2 Nsp15 Endoribonuclease Variants

  1. Isha M. Wilson
  2. Meredith N. Frazier
  3. Jian-Liang Li
  4. Thomas A. Randall
  5. Robin E. Stanley

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Abstract

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  1. Version published to 10.1016/j.jmb.2022.167796
  2. Rapid Reviews Infectious Diseases

    Kanchan Bhardwaj

    Review 3: "Biochemical Characterization of Emerging SARS-CoV-2 Nsp15 Endoribonuclease Variants"

    This preprint aims to characterize the impact of SARS-CoV-2 Nsp15 variants on its oligomerization state and nuclease activity. Reviewers find the study informative, with scope for improvement in the analysis of the oligomerization state.

  3. Rapid Reviews Infectious Diseases

    Fenyong Liu

    Review 4: "Biochemical Characterization of Emerging SARS-CoV-2 Nsp15 Endoribonuclease Variants"

    This preprint aims to characterize the impact of SARS-CoV-2 Nsp15 variants on its oligomerization state and nuclease activity. Reviewers find the study informative, with scope for improvement in the analysis of the oligomerization state.

  4. Rapid Reviews Infectious Diseases

    Katja Lammens

    Review 2: "Biochemical Characterization of Emerging SARS-CoV-2 Nsp15 Endoribonuclease Variants"

    This preprint aims to characterize the impact of SARS-CoV-2 Nsp15 variants on its oligomerization state and nuclease activity. Reviewers find the study informative, with scope for improvement in the analysis of the oligomerization state.

  5. Rapid Reviews Infectious Diseases

    Youngchang Kim

    Review 1: "Biochemical Characterization of Emerging SARS-CoV-2 Nsp15 Endoribonuclease Variants"

    This preprint aims to characterize the impact of SARS-CoV-2 Nsp15 variants on its oligomerization state and nuclease activity. Reviewers find the study informative, with scope for improvement in the analysis of the oligomerization state.

  6. Rapid Reviews Infectious Diseases

    Strength of evidence

    Reviewers: Youngchang Kim (Argonne National Laboratory) | 📗📗📗📗◻️
    Katja Lammens (Gene Center Munich) | 📒📒📒◻️◻️
    Kanchan Bhardwaj (Manav Rachna International Institute of Research and Studies) | 📗📗📗📗◻️
    Fenyong Liu (UC Berkeley) | 📗📗📗📗◻️

  7. ScreenIT

    SciScore for 10.1101/2022.05.10.491349: (What is this?)

    Please note, not all rigor criteria are appropriate for all manuscripts.

    Table 1: Rigor

    Ethicsnot detected.
    Sex as a biological variablenot detected.
    Randomizationnot detected.
    Blindingnot detected.
    Power Analysisnot detected.

    Table 2: Resources

    Recombinant DNA
    SentencesResources
    Protein expression of Nsp15 variants: WT Nsp15 was previously synthesized by Genscript (Piscataway, NJ), and contains an N-terminal His tag with thrombin and TEV cleavage sites in pET14b [28].
    pET14b
    suggested: None
    Software and Algorithms
    SentencesResources
    The sequences of Nsp15 isolates were then aligned to that of the original Wuhan isolate (GenBank NC_045512.2) using the nucmer command from MUMmer 4.0 package [53] with default parameters.
    MUMmer
    suggested: (MUMmer, RRID:SCR_018171)

    Results from OddPub: Thank you for sharing your data.

    Results from LimitationRecognizer: An explicit section about the limitations of the techniques employed in this study was not found. We encourage authors to address study limitations.

    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.

    About SciScore

    SciScore is an automated tool that is designed to assist expert reviewers by finding and presenting formulaic information scattered throughout a paper in a standard, easy to digest format. SciScore checks for the presence and correctness of RRIDs (research resource identifiers), and for rigor criteria such as sex and investigator blinding. For details on the theoretical underpinning of rigor criteria and the tools shown here, including references cited, please follow this link.

  8. Version published to 10.1101/2022.05.10.491349v1 on bioRxiv