Large-Scale Recombinant Production of the SARS-CoV-2 Proteome for High-Throughput and Structural Biology Applications.
Average rating
Cast your vote
You can rate an item by clicking the amount of stars they wish to award to this item.
When enough users have cast their vote on this item, the average rating will also be shown.
Star rating
Your vote was cast
Thank you for your feedback
Thank you for your feedback
Authors
Altincekic, NadideKorn, Sophie Marianne
Qureshi, Nusrat Shahin
Dujardin, Marie
Ninot-Pedrosa, Martí
Abele, Rupert
Abi Saad, Marie Jose
Alfano, Caterina
Almeida, Fabio C L
Alshamleh, Islam
de Amorim, Gisele Cardoso
Anderson, Thomas K
Anobom, Cristiane D
Anorma, Chelsea
Bains, Jasleen Kaur
Bax, Adriaan
Blackledge, Martin
Blechar, Julius
Böckmann, Anja
Brigandat, Louis
Bula, Anna
Bütikofer, Matthias
Camacho-Zarco, Aldo R
Carlomagno, Teresa
Caruso, Icaro Putinhon
Ceylan, Betül
Chaikuad, Apirat
Chu, Feixia
Cole, Laura
Crosby, Marquise G
de Jesus, Vanessa
Dhamotharan, Karthikeyan
Felli, Isabella C
Ferner, Jan
Fleischmann, Yanick
Fogeron, Marie-Laure
Fourkiotis, Nikolaos K
Fuks, Christin
Fürtig, Boris
Gallo, Angelo
Gande, Santosh L
Gerez, Juan Atilio
Ghosh, Dhiman
Gomes-Neto, Francisco
Gorbatyuk, Oksana
Guseva, Serafima
Hacker, Carolin
Häfner, Sabine
Hao, Bing
Hargittay, Bruno
Henzler-Wildman, K
Hoch, Jeffrey C
Hohmann, Katharina F
Hutchison, Marie T
Jaudzems, Kristaps
Jović, Katarina
Kaderli, Janina
Kalniņš, Gints
Kaņepe, Iveta
Kirchdoerfer, Robert N
Kirkpatrick, John
Knapp, Stefan
Krishnathas, Robin
Kutz, Felicitas
Zur Lage, Susanne
Lambertz, Roderick
Lang, Andras
Laurents, Douglas
Lecoq, Lauriane
Linhard, Verena
Löhr, Frank
Malki, Anas
Bessa, Luiza Mamigonian
Martin, Rachel W
Matzel, Tobias
Maurin, Damien
McNutt, Seth W
Mebus-Antunes, Nathane Cunha
Meier, Beat H
Meiser, Nathalie
Mompeán, Miguel
Monaca, Elisa
Montserret, Roland
Mariño Perez, Laura
Moser, Celine
Muhle-Goll, Claudia
Neves-Martins, Thais Cristtina
Ni, Xiamonin
Norton-Baker, Brenna
Pierattelli, Roberta
Pontoriero, Letizia
Pustovalova, Yulia
Ohlenschläger, Oliver
Orts, Julien
Da Poian, Andrea T
Pyper, Dennis J
Richter, Christian
Riek, Roland
Rienstra, Chad M
Robertson, Angus
Pinheiro, Anderson S
Sabbatella, Raffaele
Salvi, Nicola
Saxena, Krishna
Schulte, Linda
Schiavina, Marco
Schwalbe, Harald
Silber, Mara
Almeida, Marcius da Silva
Sprague-Piercy, Marc A
Spyroulias, Georgios A
Sreeramulu, Sridhar
Tants, Jan-Niklas
Tārs, Kaspars
Torres, Felix
Töws, Sabrina
Treviño, Miguel Á
Trucks, Sven
Tsika, Aikaterini C
Varga, Krisztina
Wang, Ying
Weber, Marco E
Weigand, Julia E
Wiedemann, Christoph
Wirmer-Bartoschek, Julia
Wirtz Martin, Maria Alexandra
Zehnder, Johannes
Hengesbach, Martin
Schlundt, Andreas
Issue Date
2021-05-10
Metadata
Show full item recordAbstract
The highly infectious disease COVID-19 caused by the Betacoronavirus SARS-CoV-2 poses a severe threat to humanity and demands the redirection of scientific efforts and criteria to organized research projects. The international COVID19-NMR consortium seeks to provide such new approaches by gathering scientific expertise worldwide. In particular, making available viral proteins and RNAs will pave the way to understanding the SARS-CoV-2 molecular components in detail. The research in COVID19-NMR and the resources provided through the consortium are fully disclosed to accelerate access and exploitation. NMR investigations of the viral molecular components are designated to provide the essential basis for further work, including macromolecular interaction studies and high-throughput drug screening. Here, we present the extensive catalog of a holistic SARS-CoV-2 protein preparation approach based on the consortium's collective efforts. We provide protocols for the large-scale production of more than 80% of all SARS-CoV-2 proteins or essential parts of them. Several of the proteins were produced in more than one laboratory, demonstrating the high interoperability between NMR groups worldwide. For the majority of proteins, we can produce isotope-labeled samples of HSQC-grade. Together with several NMR chemical shift assignments made publicly available on covid19-nmr.com, we here provide highly valuable resources for the production of SARS-CoV-2 proteins in isotope-labeled form.Citation
ront Mol Biosci. 2021 May 10;8:653148. doi: 10.3389/fmolb.2021.653148.Affiliation
HZI,Helmholtz-Zentrum für Infektionsforschung GmbH, Inhoffenstr. 7,38124 Braunschweig, Germany.Publisher
FrontiersPubMed ID
34041264Type
ArticleLanguage
enISSN
2296-889Xae974a485f413a2113503eed53cd6c53
10.3389/fmolb.2021.653148
Scopus Count
The following license files are associated with this item:
- Creative Commons
Related articles
- (1)H, (13)C, and (15)N backbone chemical shift assignments of the nucleic acid-binding domain of SARS-CoV-2 non-structural protein 3e.
- Authors: Korn SM, Dhamotharan K, Fürtig B, Hengesbach M, Löhr F, Qureshi NS, Richter C, Saxena K, Schwalbe H, Tants JN, Weigand JE, Wöhnert J, Schlundt A
- Issue date: 2020 Oct
- (1)H, (13)C, and (15)N backbone chemical shift assignments of the apo and the ADP-ribose bound forms of the macrodomain of SARS-CoV-2 non-structural protein 3b.
- Authors: Cantini F, Banci L, Altincekic N, Bains JK, Dhamotharan K, Fuks C, Fürtig B, Gande SL, Hargittay B, Hengesbach M, Hutchison MT, Korn SM, Kubatova N, Kutz F, Linhard V, Löhr F, Meiser N, Pyper DJ, Qureshi NS, Richter C, Saxena K, Schlundt A, Schwalbe H, Sreeramulu S, Tants JN, Wacker A, Weigand JE, Wöhnert J, Tsika AC, Fourkiotis NK, Spyroulias GA
- Issue date: 2020 Oct
- (1)H, (13)C and (15)N backbone chemical shift assignments of SARS-CoV-2 nsp3a.
- Authors: Salvi N, Bessa LM, Guseva S, Camacho-Zarco A, Maurin D, Perez LM, Malki A, Hengesbach M, Korn SM, Schlundt A, Schwalbe H, Blackledge M
- Issue date: 2021 Apr
- (1)H, (13)C, and (15)N backbone chemical shift assignments of coronavirus-2 non-structural protein Nsp10.
- Authors: Kubatova N, Qureshi NS, Altincekic N, Abele R, Bains JK, Ceylan B, Ferner J, Fuks C, Hargittay B, Hutchison MT, de Jesus V, Kutz F, Wirtz Martin MA, Meiser N, Linhard V, Pyper DJ, Trucks S, Fürtig B, Hengesbach M, Löhr F, Richter C, Saxena K, Schlundt A, Schwalbe H, Sreeramulu S, Wacker A, Weigand JE, Wirmer-Bartoschek J, Wöhnert J
- Issue date: 2021 Apr
- Understanding COVID-19 via comparative analysis of dark proteomes of SARS-CoV-2, human SARS and bat SARS-like coronaviruses.
- Authors: Giri R, Bhardwaj T, Shegane M, Gehi BR, Kumar P, Gadhave K, Oldfield CJ, Uversky VN
- Issue date: 2021 Feb
Related items
Showing items related by title, author, creator and subject.
-
Considerations and consequences of allowing DNA sequence data as types of fungal taxa.Zamora, Juan Carlos; Svensson, Måns; Kirschner, Roland; Olariaga, Ibai; Ryman, Svengunnar; Parra, Luis Alberto; Geml, József; Rosling, Anna; Adamčík, Slavomír; Ahti, Teuvo; et al. (2018-06-01)Nomenclatural type definitions are one of the most important concepts in biological nomenclature. Being physical objects that can be re-studied by other researchers, types permanently link taxonomy (an artificial agreement to classify biological diversity) with nomenclature (an artificial agreement to name biological diversity). Two proposals to amend the International Code of Nomenclature for algae, fungi, and plants (ICN), allowing DNA sequences alone (of any region and extent) to serve as types of taxon names for voucherless fungi (mainly putative taxa from environmental DNA sequences), have been submitted to be voted on at the 11th International Mycological Congress (Puerto Rico, July 2018). We consider various genetic processes affecting the distribution of alleles among taxa and find that alleles may not consistently and uniquely represent the species within which they are contained. Should the proposals be accepted, the meaning of nomenclatural types would change in a fundamental way from physical objects as sources of data to the data themselves. Such changes are conducive to irreproducible science, the potential typification on artefactual data, and massive creation of names with low information content, ultimately causing nomenclatural instability and unnecessary work for future researchers that would stall future explorations of fungal diversity. We conclude that the acceptance of DNA sequences alone as types of names of taxa, under the terms used in the current proposals, is unnecessary and would not solve the problem of naming putative taxa known only from DNA sequences in a scientifically defensible way. As an alternative, we highlight the use of formulas for naming putative taxa (candidate taxa) that do not require any modification of the ICN.
-
Guidelines for the use of flow cytometry and cell sorting in immunological studies (second edition).Cossarizza, Andrea; Chang, Hyun-Dong; Radbruch, Andreas; Acs, Andreas; Adam, Dieter; Adam-Klages, Sabine; Agace, William W; Aghaeepour, Nima; Akdis, Mübeccel; Allez, Matthieu; et al. (Wiley, 2019-10-01)These guidelines are a consensus work of a considerable number of members of the immunology and flow cytometry community. They provide the theory and key practical aspects of flow cytometry enabling immunologists to avoid the common errors that often undermine immunological data. Notably, there are comprehensive sections of all major immune cell types with helpful Tables detailing phenotypes in murine and human cells. The latest flow cytometry techniques and applications are also described, featuring examples of the data that can be generated and, importantly, how the data can be analysed. Furthermore, there are sections detailing tips, tricks and pitfalls to avoid, all written and peer-reviewed by leading experts in the field, making this an essential research companion.
-
Computational strategies to combat COVID-19: useful tools to accelerate SARS-CoV-2 and coronavirus research.Hufsky, Franziska; Lamkiewicz, Kevin; Almeida, Alexandre; Aouacheria, Abdel; Arighi, Cecilia; Bateman, Alex; Baumbach, Jan; Beerenwinkel, Niko; Brandt, Christian; Cacciabue, Marco; et al. (Oxford Academic, 2020-11-04)SARS-CoV-2 (severe acute respiratory syndrome coronavirus 2) is a novel virus of the family Coronaviridae. The virus causes the infectious disease COVID-19. The biology of coronaviruses has been studied for many years. However, bioinformatics tools designed explicitly for SARS-CoV-2 have only recently been developed as a rapid reaction to the need for fast detection, understanding and treatment of COVID-19. To control the ongoing COVID-19 pandemic, it is of utmost importance to get insight into the evolution and pathogenesis of the virus. In this review, we cover bioinformatics workflows and tools for the routine detection of SARS-CoV-2 infection, the reliable analysis of sequencing data, the tracking of the COVID-19 pandemic and evaluation of containment measures, the study of coronavirus evolution, the discovery of potential drug targets and development of therapeutic strategies. For each tool, we briefly describe its use case and how it advances research specifically for SARS-CoV-2. All tools are free to use and available online, either through web applications or public code repositories.