Efficient recall of Omicron-reactive B cell memory after a third dose of SARS-CoV-2 mRNA vaccine

  1. Rishi R. Goel
  2. Mark M. Painter
  3. Kendall A. Lundgreen
  4. Sokratis A. Apostolidis
  5. Amy E. Baxter
  6. Josephine R. Giles
  7. Divij Mathew
  8. Ajinkya Pattekar
  9. Arnold Reynaldi
  10. David S. Khoury
  11. Sigrid Gouma
  12. Philip Hicks
  13. Sarah Dysinger
  14. Amanda Hicks
  15. Harsh Sharma
  16. Sarah Herring
  17. Scott Korte
  18. Wumesh KC
  19. Derek A. Oldridge
  20. Rachel I. Erickson
  21. Madison E. Weirick
  22. Christopher M. McAllister
  23. Moses Awofolaju
  24. Nicole Tanenbaum
  25. Jeanette Dougherty
  26. Sherea Long
  27. Kurt D’Andrea
  28. Jacob T. Hamilton
  29. Maura McLaughlin
  30. Justine C. Williams
  31. Sharon Adamski
  32. Oliva Kuthuru
  33. Elizabeth M. Drapeau
  34. Miles P. Davenport
  35. Scott E. Hensley
  36. Paul Bates
  37. Allison R. Greenplate
  38. E. John Wherry

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Abstract

No abstract available

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  1. Version published to 10.1016/j.cell.2022.04.009
  2. ScreenIT

    SciScore for 10.1101/2022.02.20.481163: (What is this?)

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

    Table 1: Rigor

    EthicsIRB: Clinical Recruitment and Sample Collection: 61 individuals (45 SARS-CoV-2 naïve, 16 SARS-CoV-2 recovered) were consented and enrolled in the longitudinal vaccine study with approval from the University of Pennsylvania Institutional Review Board (IRB# 844642).
    Sex as a biological variablenot detected.
    Randomizationnot detected.
    Blindingnot detected.
    Power Analysisnot detected.
    Cell Line Authenticationnot detected.

    Table 2: Resources

    Antibodies
    SentencesResources
    Next, 50 uL of 1:5000 diluted goat anti-human IgG-HRP (Jackson ImmunoResearch Laboratories) or 1:1000 diluted goat anti-human IgM-HRP (SouthernBiotech) was added to each well and plates were incubated for 1 hour.
    anti-human IgG-HRP
    suggested: None
    The next day, 2-fold serially diluted serum samples were mixed with VSVΔG-RFP SARS-CoV-2 pseudotype virus (100-300 focus forming units/well) and incubated for 1 hour at 37⁰C. 1E9F9, a mouse anti-VSV Indiana G, was also included in this mixture at a concentration of 600 ng/ml (Absolute Antibody, Ab01402-2.0) to neutralize any potential VSV-G carryover virus.
    anti-VSV
    suggested: None
    Experimental Models: Cell Lines
    SentencesResources
    Detection of SARS-CoV-2 Neutralizing Antibodies: 293T cells were seeded for 24 hours at 5 × 106 cells per 10 cm dish and were transfected using calcium phosphate with 25 μg of pCG1 SARS-CoV-2 S D614G delta18, pCG1 SARS-CoV-2 S B.1.617.2 delta 18, or pCG1 SARS-CoV-2 S B.1.1.529 delta 18 expression plasmid encoding a codon optimized SARS-CoV-2 S gene with an 18-residue truncation in the cytoplasmic tail.
    293T
    suggested: None
    Vero E6 cells stably expressing TMPRSS2 were seeded in 100 μl at 2.5×104 cells/well in a 96 well collagen coated plate.
    Vero E6
    suggested: None
    The serum-virus mixture was then used to replace the media on VeroE6 TMPRSS2 cells.
    VeroE6 TMPRSS2
    suggested: JCRB Cat# JCRB1819, RRID:CVCL_YQ49)
    Recombinant DNA
    SentencesResources
    Detection of SARS-CoV-2 Neutralizing Antibodies: 293T cells were seeded for 24 hours at 5 × 106 cells per 10 cm dish and were transfected using calcium phosphate with 25 μg of pCG1 SARS-CoV-2 S D614G delta18, pCG1 SARS-CoV-2 S B.1.617.2 delta 18, or pCG1 SARS-CoV-2 S B.1.1.529 delta 18 expression plasmid encoding a codon optimized SARS-CoV-2 S gene with an 18-residue truncation in the cytoplasmic tail.
    pCG1 SARS-CoV-2
    suggested: None
    pCG1
    suggested: None
    Software and Algorithms
    SentencesResources
    Data were analyzed using FlowJo v10 (BD Bioscience).
    FlowJo
    suggested: (FlowJo, RRID:SCR_008520)
    High Dimensional Analysis and Statistics: All data were analyzed using custom scripts in R and visualized using RStudio.
    RStudio
    suggested: (RStudio, RRID:SCR_000432)
    For heatmaps, data were visualized with pheatmap.
    pheatmap
    suggested: (pheatmap, RRID:SCR_016418)

    Results from OddPub: We did not detect open data. We also did not detect open code. Researchers are encouraged to share open data when possible (see Nature blog).

    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.

  3. Version published to 10.1101/2022.02.20.481163v1 on bioRxiv