Molecular Biology

CONTAIN: An open-source shipping container laboratory optimised for automated COVID-19 diagnostics

1. Kenneth T. Walker
2. Matthew Donora
3. Anthony Thomas
4. Alexander James Phillips
5. Krishma Ramgoolam
6. Kjara S Pilch
7. Phil Oberacker
8. Tomasz Piotr Jurkowski
9. Rares Marius Gosman
10. Aubin Fleiss
11. Alex Perkins
12. Neil MacKenzie
13. Mark Zuckerman
14. Davide Danovi
15. Helene Steiner
16. Thomas Meany

Reviewed by ScreenIT

Tiled-ClickSeq for targeted sequencing of complete coronavirus genomes with simultaneous capture of RNA recombination and minority variants

1. Elizabeth Jaworski
2. Rose M Langsjoen
3. Brooke Mitchell
4. Barbara Judy
5. Patrick Newman
6. Jessica A Plante
7. Kenneth S Plante
8. Aaron L Miller
9. Yiyang Zhou
10. Daniele Swetnam
11. Stephanea Sotcheff
12. Victoria Morris
13. Nehad Saada
14. Rafael RG Machado
15. Allan McConnell
16. Steven G Widen
17. Jill Thompson
18. Jianli Dong
19. Ping Ren
20. Rick B Pyles
21. Thomas G Ksiazek
22. Vineet D Menachery
23. Scott C Weaver
24. Andrew L Routh

• Curated by eLife

  Evaluation Summary:

  The ability to fully resolve the whole genome of viral pathogens is often hampered by a multitude of different obstacles, one of which is optimally amplifying different regions of the genome. Part of this challenge lies in designing the best primers pairs that can consistently amplify PCR products despite the presence of changes (mutations) in the genome. The work described by Jaworski and colleagues can potentially provide an alternative approach that does not depend on primer pairs to fully sequence one such viral pathogen, SARS-CoV-2, and can also be applied towards other viral families.

  (This preprint has been reviewed by eLife. We include the public reviews from the reviewers here; the authors also receive private feedback with suggested changes to the manuscript. Reviewer #1 agreed to share their name with the authors.)

Reviewed by eLife, ScreenIT

Validation of a Lysis Buffer Containing 4 M Guanidinium Thiocyanate (GITC)/ Triton X-100 for Extraction of SARS-CoV-2 RNA for COVID-19 Testing: Comparison of Formulated Lysis Buffers Containing 4 to 6 M GITC, Roche External Lysis Buffer and Qiagen RTL Lysis Buffer

1. Martina F. Scallan
2. Catherine Dempsey
3. John MacSharry
4. Isabelle O’Callaghan
5. Paula M. O’Connor
6. Conor P. Horgan
7. Edel Durack
8. Paul D. Cotter
9. Sarah Hudson
10. Humphrey A. Moynihan
11. Brigid Lucey

Reviewed by ScreenIT

Identification of lectin receptors for conserved SARS‐CoV‐2 glycosylation sites

1. David Hoffmann
2. Stefan Mereiter
3. Yoo Jin Oh
4. Vanessa Monteil
5. Elizabeth Elder
6. Rong Zhu
7. Daniel Canena
8. Lisa Hain
9. Elisabeth Laurent
10. Clemens Grünwald‐Gruber
11. Miriam Klausberger
12. Gustav Jonsson
13. Max J Kellner
14. Maria Novatchkova
15. Melita Ticevic
16. Antoine Chabloz
17. Gerald Wirnsberger
18. Astrid Hagelkruys
19. Friedrich Altmann
20. Lukas Mach
21. Johannes Stadlmann
22. Chris Oostenbrink
23. Ali Mirazimi
24. Peter Hinterdorfer
25. Josef M Penninger

Reviewed by ScreenIT

Dimeric form of SARS-CoV-2 polymerase

1. Florian A. Jochheim
2. Dimitry Tegunov
3. Hauke S. Hillen
4. Jana Schmitzova
5. Goran Kokic
6. Christian Dienemann
7. Patrick Cramer

Reviewed by ScreenIT

Follow-up of a hospital cohort during the first 3,530 suspected cases of COVID-19 in Sao Jose do Rio Preto, Sao Paulo, Brazil

1. Carolina Colombelli Pacca
2. Nathalia Zini
3. Alice F. Versiani
4. Edoardo E. de O. Lobl
5. Bruno H. G. A. Milhim
6. Guilherme R. F. Campos
7. Marília M. Moraes
8. Thayza M.I.L dos Santos
9. Fernanda S. Dourado
10. Beatriz C. Marques
11. Leonardo C. da Rocha
12. Andresa L dos Santos
13. Gislaine C.D. da Silva
14. Leonardo G. P. Ruiz
15. Raphael Nicesio
16. Flávia Queiroz
17. Andreia F. N. Reis
18. Natal S. da Silva
19. Maurício L. Nogueira
20. Cássia F. Estofolete

Reviewed by ScreenIT

A one-enzyme RT-qPCR assay for SARS-CoV-2, and procedures for reagent production

1. Sanchita Bhadra
2. Andre C. Maranhao
3. Andrew D. Ellington

Reviewed by ScreenIT

Specific mutations in SARS-CoV2 RNA dependent RNA polymerase and helicase alter protein structure, dynamics and thus function: Effect on viral RNA replication

1. Feroza Begum
2. Debica Mukherjee
3. Sandeepan Das
4. Dluya Thagriki
5. Prem Prakash Tripathi
6. Arup Kumar Banerjee
7. Upasana Ray

Reviewed by ScreenIT

Ubiquitous Forbidden Order in R-group classified protein sequence of SARS-CoV-2 and other viruses

1. Pratibha
2. C. Shaju
3. Kamal

Reviewed by ScreenIT

DNA spike-ins enable confident interpretation of SARS-CoV-2 genomic data from amplicon-based sequencing

1. Kim A. Lagerborg
2. Erica Normandin
3. Matthew R. Bauer
4. Gordon Adams
5. Katherine Figueroa
6. Christine Loreth
7. Adrianne Gladden-Young
8. Bennett Shaw
9. Leah Pearlman
10. Erica S. Shenoy
11. David Hooper
12. Virginia M. Pierce
13. Kimon C. Zachary
14. Daniel J. Park
15. Bronwyn L. MacInnis
16. Jacob E. Lemieux
17. Pardis C. Sabeti
18. Steven K Reilly
19. Katherine J. Siddle

Reviewed by ScreenIT