6zgg Citations

SARS-CoV-2 and bat RaTG13 spike glycoprotein structures inform on virus evolution and furin-cleavage effects.

Nat Struct Mol Biol 27 763-767 (2020)
Related entries: 6zge, 6zgf, 6zgh, 6zgi

Cited: 354 times
EuropePMC logo PMID: 32647346

Abstract

SARS-CoV-2 is thought to have emerged from bats, possibly via a secondary host. Here, we investigate the relationship of spike (S) glycoprotein from SARS-CoV-2 with the S protein of a closely related bat virus, RaTG13. We determined cryo-EM structures for RaTG13 S and for both furin-cleaved and uncleaved SARS-CoV-2 S; we compared these with recently reported structures for uncleaved SARS-CoV-2 S. We also biochemically characterized their relative stabilities and affinities for the SARS-CoV-2 receptor ACE2. Although the overall structures of human and bat virus S proteins are similar, there are key differences in their properties, including a more stable precleavage form of human S and about 1,000-fold tighter binding of SARS-CoV-2 to human receptor. These observations suggest that cleavage at the furin-cleavage site decreases the overall stability of SARS-CoV-2 S and facilitates the adoption of the open conformation that is required for S to bind to the ACE2 receptor.

Reviews - 6zgg mentioned but not cited (13)

  1. SARS-CoV-2 variants, spike mutations and immune escape. Harvey WT, Carabelli AM, Jackson B, Gupta RK, Thomson EC, Harrison EM, Ludden C, Reeve R, Rambaut A, COVID-19 Genomics UK (COG-UK) Consortium, Peacock SJ, Robertson DL. Nat Rev Microbiol 19 409-424 (2021)
  2. Tackling COVID-19 with neutralizing monoclonal antibodies. Corti D, Purcell LA, Snell G, Veesler D. Cell 184 3086-3108 (2021)
  3. Mutations and Evolution of the SARS-CoV-2 Spike Protein. Magazine N, Zhang T, Wu Y, McGee MC, Veggiani G, Huang W. Viruses 14 640 (2022)
  4. Antibody and B cell responses to SARS-CoV-2 infection and vaccination. Röltgen K, Boyd SD. Cell Host Microbe 29 1063-1075 (2021)
  5. Structural Plasticity and Immune Evasion of SARS-CoV-2 Spike Variants. Ghimire D, Han Y, Lu M. Viruses 14 1255 (2022)
  6. New Consensus pattern in Spike CoV-2: potential implications in coagulation process and cell-cell fusion. Buonvino S, Melino S. Cell Death Discov 6 134 (2020)
  7. SARS-CoV-2 variants preferentially emerge at intrinsically disordered protein sites helping immune evasion. Quaglia F, Salladini E, Carraro M, Minervini G, Tosatto SCE, Le Mercier P. FEBS J 289 4240-4250 (2022)
  8. A Biochemical Perspective of the Nonstructural Proteins (NSPs) and the Spike Protein of SARS CoV-2. Yoshimoto FK. Protein J 40 260-295 (2021)
  9. Development of variant-proof severe acute respiratory syndrome coronavirus 2, pan-sarbecovirus, and pan-β-coronavirus vaccines. Zhou J, Liu Z, Zhang G, Xu W, Xing L, Lu L, Wang Q, Jiang S. J Med Virol 95 e28172 (2023)
  10. Man-Specific, GalNAc/T/Tn-Specific and Neu5Ac-Specific Seaweed Lectins as Glycan Probes for the SARS-CoV-2 (COVID-19) Coronavirus. Barre A, Damme EJMV, Simplicien M, Benoist H, Rougé P. Mar Drugs 18 E543 (2020)
  11. Mechanism and evolution of human ACE2 binding by SARS-CoV-2 spike. Wrobel AG. Curr Opin Struct Biol 81 102619 (2023)
  12. Insights into SARS-CoV-2: Medicinal Chemistry Approaches to Combat Its Structural and Functional Biology. Zhuo LS, Wang MS, Yang JF, Xu HC, Huang W, Shang LQ, Yang GF. Top Curr Chem (Cham) 379 23 (2021)
  13. Nanoscale Technologies in the Fight against COVID-19: From Innovative Nanomaterials to Computer-Aided Discovery of Potential Antiviral Plant-Derived Drugs. Iraci N, Corsaro C, Giofrè SV, Neri G, Mezzasalma AM, Vacalebre M, Speciale A, Saija A, Cimino F, Fazio E. Biomolecules 12 1060 (2022)

Articles - 6zgg mentioned but not cited (49)

  1. Receptor binding and priming of the spike protein of SARS-CoV-2 for membrane fusion. Benton DJ, Wrobel AG, Xu P, Roustan C, Martin SR, Rosenthal PB, Skehel JJ, Gamblin SJ. Nature 588 327-330 (2020)
  2. SARS-CoV-2 and bat RaTG13 spike glycoprotein structures inform on virus evolution and furin-cleavage effects. Wrobel AG, Benton DJ, Xu P, Roustan C, Martin SR, Rosenthal PB, Skehel JJ, Gamblin SJ. Nat Struct Mol Biol 27 763-767 (2020)
  3. Recurrent emergence of SARS-CoV-2 spike deletion H69/V70 and its role in the Alpha variant B.1.1.7. Meng B, Kemp SA, Papa G, Datir R, Ferreira IATM, Marelli S, Harvey WT, Lytras S, Mohamed A, Gallo G, Thakur N, Collier DA, Mlcochova P, COVID-19 Genomics UK (COG-UK) Consortium, Duncan LM, Carabelli AM, Kenyon JC, Lever AM, De Marco A, Saliba C, Culap K, Cameroni E, Matheson NJ, Piccoli L, Corti D, James LC, Robertson DL, Bailey D, Gupta RK. Cell Rep 35 109292 (2021)
  4. Heparin Inhibits Cellular Invasion by SARS-CoV-2: Structural Dependence of the Interaction of the Spike S1 Receptor-Binding Domain with Heparin. Mycroft-West CJ, Su D, Pagani I, Rudd TR, Elli S, Gandhi NS, Guimond SE, Miller GJ, Meneghetti MCZ, Nader HB, Li Y, Nunes QM, Procter P, Mancini N, Clementi M, Bisio A, Forsyth NR, Ferro V, Turnbull JE, Guerrini M, Fernig DG, Vicenzi E, Yates EA, Lima MA, Skidmore MA. Thromb Haemost 120 1700-1715 (2020)
  5. Reduced neutralisation of the Delta (B.1.617.2) SARS-CoV-2 variant of concern following vaccination. Davis C, Logan N, Tyson G, Orton R, Harvey WT, Perkins JS, Mollett G, Blacow RM, COVID-19 Genomics UK (COG-UK) Consortium, Peacock TP, Barclay WS, Cherepanov P, Palmarini M, Murcia PR, Patel AH, Robertson DL, Haughney J, Thomson EC, Willett BJ, COVID-19 DeplOyed VaccinE (DOVE) Cohort Study investigators. PLoS Pathog 17 e1010022 (2021)
  6. The effect of the D614G substitution on the structure of the spike glycoprotein of SARS-CoV-2. Benton DJ, Wrobel AG, Roustan C, Borg A, Xu P, Martin SR, Rosenthal PB, Skehel JJ, Gamblin SJ. Proc Natl Acad Sci U S A 118 e2022586118 (2021)
  7. Omicron SARS-CoV-2 mutations stabilize spike up-RBD conformation and lead to a non-RBM-binding monoclonal antibody escape. Zhao Z, Zhou J, Tian M, Huang M, Liu S, Xie Y, Han P, Bai C, Han P, Zheng A, Fu L, Gao Y, Peng Q, Li Y, Chai Y, Zhang Z, Zhao X, Song H, Qi J, Wang Q, Wang P, Gao GF. Nat Commun 13 4958 (2022)
  8. A SARS-CoV-2 variant elicits an antibody response with a shifted immunodominance hierarchy. Greaney AJ, Starr TN, Eguia RT, Loes AN, Khan K, Karim F, Cele S, Bowen JE, Logue JK, Corti D, Veesler D, Chu HY, Sigal A, Bloom JD. PLoS Pathog 18 e1010248 (2022)
  9. research-article Antibody Resistance of SARS-CoV-2 Variants B.1.351 and B.1.1.7. Wang P, Nair MS, Liu L, Iketani S, Luo Y, Guo Y, Wang M, Yu J, Zhang B, Kwong PD, Graham BS, Mascola JR, Chang JY, Yin MT, Sobieszczyk M, Kyratsous CA, Shapiro L, Sheng Z, Huang Y, Ho DD. bioRxiv 2021.01.25.428137 (2021)
  10. The SARS-CoV-2 spike protein: balancing stability and infectivity. Berger I, Schaffitzel C. Cell Res 30 1059-1060 (2020)
  11. Modular basis for potent SARS-CoV-2 neutralization by a prevalent VH1-2-derived antibody class. Rapp M, Guo Y, Reddem ER, Yu J, Liu L, Wang P, Cerutti G, Katsamba P, Bimela JS, Bahna FA, Mannepalli SM, Zhang B, Kwong PD, Huang Y, Ho DD, Shapiro L, Sheng Z. Cell Rep 35 108950 (2021)
  12. Cross-neutralizing antibodies bind a SARS-CoV-2 cryptic site and resist circulating variants. Li T, Xue W, Zheng Q, Song S, Yang C, Xiong H, Zhang S, Hong M, Zhang Y, Yu H, Zhang Y, Sun H, Huang Y, Deng T, Chi X, Li J, Wang S, Zhou L, Chen T, Wang Y, Cheng T, Zhang T, Yuan Q, Zhao Q, Zhang J, McLellan JS, Zhou ZH, Zhang Z, Li S, Gu Y, Xia N. Nat Commun 12 5652 (2021)
  13. Structural insights into the cross-neutralization of SARS-CoV and SARS-CoV-2 by the human monoclonal antibody 47D11. Fedry J, Hurdiss DL, Wang C, Li W, Obal G, Drulyte I, Du W, Howes SC, van Kuppeveld FJM, Förster F, Bosch BJ. Sci Adv 7 eabf5632 (2021)
  14. Biparatopic sybodies neutralize SARS-CoV-2 variants of concern and mitigate drug resistance. Walter JD, Scherer M, Hutter CAJ, Garaeva AA, Zimmermann I, Wyss M, Rheinberger J, Ruedin Y, Earp JC, Egloff P, Sorgenfrei M, Hürlimann LM, Gonda I, Meier G, Remm S, Thavarasah S, van Geest G, Bruggmann R, Zimmer G, Slotboom DJ, Paulino C, Plattet P, Seeger MA. EMBO Rep 23 e54199 (2022)
  15. Letter Profiles of current COVID-19 vaccines. Heinz FX, Stiasny K. Wien Klin Wochenschr 133 271-283 (2021)
  16. Design and proof of concept for targeted phage-based COVID-19 vaccination strategies with a streamlined cold-free supply chain. Staquicini DI, Tang FHF, Markosian C, Yao VJ, Staquicini FI, Dodero-Rojas E, Contessoto VG, Davis D, O'Brien P, Habib N, Smith TL, Bruiners N, Sidman RL, Gennaro ML, Lattime EC, Libutti SK, Whitford PC, Burley SK, Onuchic JN, Arap W, Pasqualini R. Proc Natl Acad Sci U S A 118 e2105739118 (2021)
  17. Structure and Mutations of SARS-CoV-2 Spike Protein: A Focused Overview. Mehra R, Kepp KP. ACS Infect Dis 8 29-58 (2022)
  18. Site-Specific Glycosylation Patterns of the SARS-CoV-2 Spike Protein Derived From Recombinant Protein and Viral WA1 and D614G Strains. Tian Y, Parsons LM, Jankowska E, Cipollo JF. Front Chem 9 767448 (2021)
  19. research-article SARS-CoV-2 B.1.1.7 sensitivity to mRNA vaccine-elicited, convalescent and monoclonal antibodies. Collier DA, De Marco A, Ferreira IATM, Meng B, Datir R, Walls AC, Kemp S SA, Bassi J, Pinto D, Fregni CS, Bianchi S, Tortorici MA, Bowen J, Culap K, Jaconi S, Cameroni E, Snell G, Pizzuto MS, Pellanda AF, Garzoni C, Riva A, CITIID-NIHR BioResource COVID-19 Collaboration, Elmer A, Kingston N, Graves B, McCoy LE, Smith KG, Bradley JR, Temperton N, Ceron-Gutierrez L L, Barcenas-Morales G, COVID-19 Genomics UK (COG-UK) consortium, Harvey W, Virgin HW, Lanzavecchia A, Piccoli L, Doffinger R, Wills M, Veesler D, Corti D, Gupta RK. medRxiv 2021.01.19.21249840 (2021)
  20. A model for pH coupling of the SARS-CoV-2 spike protein open/closed equilibrium. Warwicker J. Brief Bioinform 22 1499-1507 (2021)
  21. Force-tuned avidity of spike variant-ACE2 interactions viewed on the single-molecule level. Zhu R, Canena D, Sikora M, Klausberger M, Seferovic H, Mehdipour AR, Hain L, Laurent E, Monteil V, Wirnsberger G, Wieneke R, Tampé R, Kienzl NF, Mach L, Mirazimi A, Oh YJ, Penninger JM, Hummer G, Hinterdorfer P. Nat Commun 13 7926 (2022)
  22. Mapping major SARS-CoV-2 drug targets and assessment of druggability using computational fragment screening: Identification of an allosteric small-molecule binding site on the Nsp13 helicase. Freidel MR, Armen RS. PLoS One 16 e0246181 (2021)
  23. The SARS-CoV-2 Delta variant induces an antibody response largely focused on class 1 and 2 antibody epitopes. Greaney AJ, Eguia RT, Starr TN, Khan K, Franko N, Logue JK, Lord SM, Speake C, Chu HY, Sigal A, Bloom JD. PLoS Pathog 18 e1010592 (2022)
  24. Investigation of Cu metal nanoparticles with different morphologies to inhibit SARS-CoV-2 main protease and spike glycoprotein using Molecular Docking and Dynamics Simulation. Aallaei M, Molaakbari E, Mostafavi P, Salarizadeh N, Maleksah RE, Afzali D. J Mol Struct 1253 132301 (2022)
  25. Rational Design of a Pan-Coronavirus Vaccine Based on Conserved CTL Epitopes. Li M, Zeng J, Li R, Wen Z, Cai Y, Wallin J, Shu Y, Du X, Sun C. Viruses 13 333 (2021)
  26. Characterization of a Lineage C.36 SARS-CoV-2 Isolate with Reduced Susceptibility to Neutralization Circulating in Lombardy, Italy. Castelli M, Baj A, Criscuolo E, Ferrarese R, Diotti RA, Sampaolo M, Novazzi F, Dalla Gasperina D, Focosi D, Ferrari D, Locatelli M, Clementi M, Clementi N, Maggi F, Mancini N. Viruses 13 1514 (2021)
  27. Emergence of Two Distinct SARS-CoV-2 Gamma Variants and the Rapid Spread of P.1-like-II SARS-CoV-2 during the Second Wave of COVID-19 in Santa Catarina, Southern Brazil. Padilha DA, Benetti Filho V, Moreira RS, Soratto TAT, Maia GA, Christoff AP, Barazzetti FH, Schörner MA, Ferrari FL, Martins CL, Kawagoe EK, Wachter JK, Sachet P, Baptistella AR, Schlindwein AD, Coelho BK, Fernandes SB, Rovaris DB, Debiasi Dos Anjos MP, Melo FR, Bittencourt B, Cunha S, Meneghetti KL, Wendt N, Madaloz TZ, Rodrigues MVD, Souza DSM, Moraes MH, Baptista RP, Toledo-Silva G, Razzera G, Grisard EC, Stoco PH, de Oliveira LFV, Bazzo ML, Fongaro G, Wagner G. Viruses 14 695 (2022)
  28. Microsecond simulations and CD spectroscopy reveals the intrinsically disordered nature of SARS-CoV-2 spike-C-terminal cytoplasmic tail (residues 1242-1273) in isolation. Kumar P, Bhardwaj T, Garg N, Giri R. Virology 566 42-55 (2022)
  29. Serological determinants of COVID-19. Noce A, Santoro ML, Marrone G, D'Agostini C, Amelio I, Duggento A, Tesauro M, Di Daniele N. Biol Direct 15 21 (2020)
  30. research-article Increased Resistance of SARS-CoV-2 Variants B.1.351 and B.1.1.7 to Antibody Neutralization. Wang P, Liu L, Iketani S, Luo Y, Guo Y, Wang M, Yu J, Zhang B, Kwong PD, Graham BS, Mascola JR, Chang JY, Yin MT, Sobieszczyk M, Kyratsous CA, Shapiro L, Sheng Z, Nair MS, Huang Y, Ho DD. Res Sq rs.3.rs-155394 (2021)
  31. Pseudoephedrine and its derivatives antagonize wild and mutated severe acute respiratory syndrome-CoV-2 viruses through blocking virus invasion and antiinflammatory effect. Yu S, Chen Y, Xiang Y, Lin H, Wang M, Ye W, Zhang P, Chen H, Lin G, Zhu Y, Chen L, Zhang J. Phytother Res 35 5847-5860 (2021)
  32. Bispecific antibodies combine breadth, potency, and avidity of parental antibodies to neutralize sarbecoviruses. Radić L, Sliepen K, Yin V, Brinkkemper M, Capella-Pujol J, Schriek AI, Torres JL, Bangaru S, Burger JA, Poniman M, Bontjer I, Bouhuijs JH, Gideonse D, Eggink D, Ward AB, Heck AJR, Van Gils MJ, Sanders RW, Schinkel J. iScience 26 106540 (2023)
  33. Deamidation drives molecular aging of the SARS-CoV-2 spike protein receptor-binding motif. Lorenzo R, Defelipe LA, Aliperti L, Niebling S, Custódio TF, Löw C, Schwarz JJ, Remans K, Craig PO, Otero LH, Klinke S, García-Alai M, Sánchez IE, Alonso LG. J Biol Chem 297 101175 (2021)
  34. Modeling coronavirus spike protein dynamics: implications for immunogenicity and immune escape. Kunkel G, Madani M, White SJ, Verardi PH, Tarakanova A. Biophys J 120 5592-5618 (2021)
  35. Adaptive Evolution of the Spike Protein in Coronaviruses. Tang X, Qian Z, Lu X, Lu J. Mol Biol Evol 40 msad089 (2023)
  36. ChAdOx1 COVID vaccines express RBD open prefusion SARS-CoV-2 spikes on the cell surface. Ni T, Mendonça L, Zhu Y, Howe A, Radecke J, Shah PM, Sheng Y, Krebs AS, Duyvesteyn HME, Allen E, Lambe T, Bisset C, Spencer A, Morris S, Stuart DI, Gilbert S, Zhang P. iScience 26 107882 (2023)
  37. Profile of SARS-CoV-2. Heinz FX, Stiasny K. Wien Klin Wochenschr 132 635-644 (2020)
  38. Fluorescence-Linked Aptamer Assay for SARS-CoV-2 Spike-Protein: A Step-by-Step Performance Analysis in Clinical Samples. Franco-Urquijo PA, Sierra-Martínez M, Jarquín-Martínez M, Martínez-Roque MA, García-Velásquez VM, Acosta-Altamirano G, Ruiz-Pérez NJ, Toscano-Garibay JD, Alvarez-Salas LM. Diagnostics (Basel) 12 2829 (2022)
  39. Prediction of infectivity of SARS-CoV2: Mathematical model with analysis of docking simulation for spike proteins and angiotensin-converting enzyme 2. Takaoka Y, Sugano A, Morinaga Y, Ohta M, Miura K, Kataguchi H, Kumaoka M, Kimura S, Maniwa Y. Microb Risk Anal 22 100227 (2022)
  40. RAGE engagement by SARS-CoV-2 enables monocyte infection and underlies COVID-19 severity. Angioni R, Bonfanti M, Caporale N, Sánchez-Rodríguez R, Munari F, Savino A, Pasqualato S, Buratto D, Pagani I, Bertoldi N, Zanon C, Ferrari P, Ricciardelli E, Putaggio C, Ghezzi S, Elli F, Rotta L, Scardua A, Weber J, Cecatiello V, Iorio F, Zonta F, Cattelan AM, Vicenzi E, Vannini A, Molon B, Villa CE, Viola A, Testa G. Cell Rep Med 4 101266 (2023)
  41. Structural heterogeneity and precision of implications drawn from cryo-electron microscopy structures: SARS-CoV-2 spike-protein mutations as a test case. Mehra R, Kepp KP. Eur Biophys J 51 555-568 (2022)
  42. In Silico Analyses Indicate a Lower Potency for Dimerization of TLR4/MD-2 as the Reason for the Lower Pathogenicity of Omicron Compared to Wild-Type Virus and Earlier SARS-CoV-2 Variants. Kircheis R. Int J Mol Sci 25 5451 (2024)
  43. In Silico Analysis Predicts a Limited Impact of SARS-CoV-2 Variants on CD8 T Cell Recognition. Isaeva OI, Ketelaars SLC, Kvistborg P. Front Immunol 13 891524 (2022)
  44. research-article A SARS-CoV-2 variant elicits an antibody response with a shifted immunodominance hierarchy. Greaney AJ, Starr TN, Eguia RT, Loes AN, Khan K, Karim F, Cele S, Bowen JE, Logue JK, Corti D, Veesler D, Chu HY, Sigal A, Bloom JD. bioRxiv 2021.10.12.464114 (2021)
  45. CryoTRANS: predicting high-resolution maps of rare conformations from self-supervised trajectories in cryo-EM. Fan X, Zhang Q, Zhang H, Zhu J, Ju L, Shi Z, Hu M, Bao C. Commun Biol 7 1058 (2024)
  46. research-article Design and proof-of-concept for targeted phage-based COVID-19 vaccination strategies with a streamlined cold-free supply chain. Staquicini DI, Tang FHF, Markosian C, Yao VJ, Staquicini FI, Dodero-Rojas E, Contessoto VG, Davis D, O'Brien P, Habib N, Smith TL, Bruiners N, Sidman RL, Gennaro ML, Lattime EC, Libutti SK, Whitford PC, Burley SK, Onuchic JN, Arap W, Pasqualini R. bioRxiv 2021.03.15.435496 (2021)
  47. Receptor-binding domain-anchored peptides block binding of severe acute respiratory syndrome coronavirus 2 spike proteins with cell surface angiotensin-converting enzyme 2. Wang T, Xu J, Wang B, Wang Y, Zhao W, Xiang B, Xue Y, Yuan Q, Wang Y. Front Microbiol 13 910343 (2022)
  48. Structural and pKa Estimation of the Amphipathic HR1 in SARS-CoV-2: Insights from Constant pH MD, Linear vs. Nonlinear Normal Mode Analysis. Yánez Arcos DL, Thirumuruganandham SP. Int J Mol Sci 24 16190 (2023)
  49. research-article The SARS-CoV-2 Delta variant induces an antibody response largely focused on class 1 and 2 antibody epitopes. Greaney AJ, Eguia RT, Starr TN, Khan K, Franko N, Logue JK, Lord SM, Speake C, Chu HY, Sigal A, Bloom JD. bioRxiv 2022.03.12.484088 (2022)


Reviews citing this publication (84)

  1. Characteristics of SARS-CoV-2 and COVID-19. Hu B, Guo H, Zhou P, Shi ZL. Nat Rev Microbiol 19 141-154 (2021)
  2. Post-acute COVID-19 syndrome. Nalbandian A, Sehgal K, Gupta A, Madhavan MV, McGroder C, Stevens JS, Cook JR, Nordvig AS, Shalev D, Sehrawat TS, Ahluwalia N, Bikdeli B, Dietz D, Der-Nigoghossian C, Liyanage-Don N, Rosner GF, Bernstein EJ, Mohan S, Beckley AA, Seres DS, Choueiri TK, Uriel N, Ausiello JC, Accili D, Freedberg DE, Baldwin M, Schwartz A, Brodie D, Garcia CK, Elkind MSV, Connors JM, Bilezikian JP, Landry DW, Wan EY. Nat Med 27 601-615 (2021)
  3. The T cell immune response against SARS-CoV-2. Moss P. Nat Immunol 23 186-193 (2022)
  4. The emergence, genomic diversity and global spread of SARS-CoV-2. Li J, Lai S, Gao GF, Shi W. Nature 600 408-418 (2021)
  5. Molecular mechanism of interaction between SARS-CoV-2 and host cells and interventional therapy. Zhang Q, Xiang R, Huo S, Zhou Y, Jiang S, Wang Q, Yu F. Signal Transduct Target Ther 6 233 (2021)
  6. SARS-CoV-2 variant evasion of monoclonal antibodies based on in vitro studies. Cox M, Peacock TP, Harvey WT, Hughes J, Wright DW, COVID-19 Genomics UK (COG-UK) Consortium, Willett BJ, Thomson E, Gupta RK, Peacock SJ, Robertson DL, Carabelli AM. Nat Rev Microbiol 21 112-124 (2023)
  7. Immune Evasion of SARS-CoV-2 Emerging Variants: What Have We Learnt So Far? Lazarevic I, Pravica V, Miljanovic D, Cupic M. Viruses 13 1192 (2021)
  8. Structural biology of SARS-CoV-2: open the door for novel therapies. Yan W, Zheng Y, Zeng X, He B, Cheng W. Signal Transduct Target Ther 7 26 (2022)
  9. Proteolytic activation of SARS-CoV-2 spike protein. Takeda M. Microbiol Immunol 66 15-23 (2022)
  10. Peptide and peptide-based inhibitors of SARS-CoV-2 entry. Schütz D, Ruiz-Blanco YB, Münch J, Kirchhoff F, Sanchez-Garcia E, Müller JA. Adv Drug Deliv Rev 167 47-65 (2020)
  11. Waves and variants of SARS-CoV-2: understanding the causes and effect of the COVID-19 catastrophe. Thakur V, Bhola S, Thakur P, Patel SKS, Kulshrestha S, Ratho RK, Kumar P. Infection 50 309-325 (2022)
  12. COVID-19 mRNA vaccines: Platforms and current developments. Szabó GT, Mahiny AJ, Vlatkovic I. Mol Ther 30 1850-1868 (2022)
  13. Molecular diversity of coronavirus host cell entry receptors. Millet JK, Jaimes JA, Whittaker GR. FEMS Microbiol Rev 45 fuaa057 (2021)
  14. CD147-spike protein interaction in COVID-19: Get the ball rolling with a novel receptor and therapeutic target. Behl T, Kaur I, Aleya L, Sehgal A, Singh S, Sharma N, Bhatia S, Al-Harrasi A, Bungau S. Sci Total Environ 808 152072 (2022)
  15. The role of cell surface sialic acids for SARS-CoV-2 infection. Sun XL. Glycobiology 31 1245-1253 (2021)
  16. Diversity and evolution of the animal virome. Harvey E, Holmes EC. Nat Rev Microbiol 20 321-334 (2022)
  17. Nucleic Acid-Based Diagnostic Tests for the Detection SARS-CoV-2: An Update. Yu CY, Chan KG, Yean CY, Ang GY. Diagnostics (Basel) 11 53 (2021)
  18. Role of host factors in SARS-CoV-2 entry. Evans JP, Liu SL. J Biol Chem 297 100847 (2021)
  19. HIV-1 and SARS-CoV-2: Patterns in the evolution of two pandemic pathogens. Fischer W, Giorgi EE, Chakraborty S, Nguyen K, Bhattacharya T, Theiler J, Goloboff PA, Yoon H, Abfalterer W, Foley BT, Tegally H, San JE, de Oliveira T, Network for Genomic Surveillance in South Africa (NGS-SA), Gnanakaran S, Korber B. Cell Host Microbe 29 1093-1110 (2021)
  20. SARS-CoV-2 Infection: New Molecular, Phylogenetic, and Pathogenetic Insights. Efficacy of Current Vaccines and the Potential Risk of Variants. Rotondo JC, Martini F, Maritati M, Mazziotta C, Di Mauro G, Lanzillotti C, Barp N, Gallerani A, Tognon M, Contini C. Viruses 13 1687 (2021)
  21. Structure genomics of SARS-CoV-2 and its Omicron variant: drug design templates for COVID-19. Wu CR, Yin WC, Jiang Y, Xu HE. Acta Pharmacol Sin 43 3021-3033 (2022)
  22. Structural Analysis of Neutralizing Epitopes of the SARS-CoV-2 Spike to Guide Therapy and Vaccine Design Strategies. Finkelstein MT, Mermelstein AG, Parker Miller E, Seth PC, Stancofski ED, Fera D. Viruses 13 134 (2021)
  23. Chemosensory Dysfunction in COVID-19: Integration of Genetic and Epidemiological Data Points to D614G Spike Protein Variant as a Contributing Factor. Butowt R, Bilinska K, Von Bartheld CS. ACS Chem Neurosci 11 3180-3184 (2020)
  24. The Emergence of the Spike Furin Cleavage Site in SARS-CoV-2. Chan YA, Zhan SH. Mol Biol Evol 39 msab327 (2022)
  25. Challenges and opportunities for antiviral monoclonal antibodies as COVID-19 therapy. Cruz-Teran C, Tiruthani K, McSweeney M, Ma A, Pickles R, Lai SK. Adv Drug Deliv Rev 169 100-117 (2021)
  26. Zoonotic disease and virome diversity in bats. Van Brussel K, Holmes EC. Curr Opin Virol 52 192-202 (2022)
  27. The Antiviral, Anti-Inflammatory Effects of Natural Medicinal Herbs and Mushrooms and SARS-CoV-2 Infection. Shahzad F, Anderson D, Najafzadeh M. Nutrients 12 E2573 (2020)
  28. Coronavirus Disease (COVID-19) Control between Drug Repurposing and Vaccination: A Comprehensive Overview. Al-Karmalawy AA, Soltane R, Abo Elmaaty A, Tantawy MA, Antar SA, Yahya G, Chrouda A, Pashameah RA, Mustafa M, Abu Mraheil M, Mostafa A. Vaccines (Basel) 9 1317 (2021)
  29. Expression and characterization of SARS-CoV-2 spike proteins. Schaub JM, Chou CW, Kuo HC, Javanmardi K, Hsieh CL, Goldsmith J, DiVenere AM, Le KC, Wrapp D, Byrne PO, Hjorth CK, Johnson NV, Ludes-Meyers J, Nguyen AW, Wang N, Lavinder JJ, Ippolito GC, Maynard JA, McLellan JS, Finkelstein IJ. Nat Protoc 16 5339-5356 (2021)
  30. Pathogenic Basis of Thromboinflammation and Endothelial Injury in COVID-19: Current Findings and Therapeutic Implications. Higashikuni Y, Liu W, Obana T, Sata M. Int J Mol Sci 22 12081 (2021)
  31. Evolutionary Dynamics and Epidemiology of Endemic and Emerging Coronaviruses in Humans, Domestic Animals, and Wildlife. Islam A, Ferdous J, Islam S, Sayeed MA, Dutta Choudhury S, Saha O, Hassan MM, Shirin T. Viruses 13 1908 (2021)
  32. Why All the Fury over Furin? Osman EEA, Rehemtulla A, Neamati N. J Med Chem 65 2747-2784 (2022)
  33. Brief review on repurposed drugs and vaccines for possible treatment of COVID-19. De P, Chakraborty I, Karna B, Mazumder N. Eur J Pharmacol 898 173977 (2021)
  34. Targeting Crucial Host Factors of SARS-CoV-2. Tharappel AM, Samrat SK, Li Z, Li H. ACS Infect Dis 6 2844-2865 (2020)
  35. Emerging SARS-CoV-2 variants: Why, how, and what's next? Chen Y, Liu Q, Zhou L, Zhou Y, Yan H, Lan K. Cell Insight 1 100029 (2022)
  36. The Genetic Variant of SARS-CoV-2: would It Matter for Controlling the Devastating Pandemic? Guo S, Liu K, Zheng J. Int J Biol Sci 17 1476-1485 (2021)
  37. Exploring the utility of extracellular vesicles in ameliorating viral infection-associated inflammation, cytokine storm and tissue damage. Pillalamarri N, Abdullah, Ren G, Khan L, Ullah A, Jonnakuti S, Ullah M. Transl Oncol 14 101095 (2021)
  38. Furin cleavage sites in the spike proteins of bat and rodent coronaviruses: Implications for virus evolution and zoonotic transfer from rodent species. Stout AE, Millet JK, Stanhope MJ, Whittaker GR. One Health 13 100282 (2021)
  39. Mechanisms of Lung Injury Induced by SARS-CoV-2 Infection. Upadhya S, Rehman J, Malik AB, Chen S. Physiology (Bethesda) 37 88-100 (2022)
  40. Effects of SARS-CoV-2 Inflammation on Selected Organ Systems of the Human Body. Kopańska M, Barnaś E, Błajda J, Kuduk B, Łagowska A, Banaś-Ząbczyk A. Int J Mol Sci 23 4178 (2022)
  41. Recent Advances of Conducting Polymers and Their Composites for Electrochemical Biosensing Applications. Luong JHT, Narayan T, Solanki S, Malhotra BD. J Funct Biomater 11 E71 (2020)
  42. SARS-CoV-2 Omicron (B.1.1.529) Variant: A Challenge with COVID-19. Mohseni Afshar Z, Tavakoli Pirzaman A, Karim B, Rahimipour Anaraki S, Hosseinzadeh R, Sanjari Pireivatlou E, Babazadeh A, Hosseinzadeh D, Miri SR, Sio TT, Sullman MJM, Barary M, Ebrahimpour S. Diagnostics (Basel) 13 559 (2023)
  43. Evolution, Ecology, and Zoonotic Transmission of Betacoronaviruses: A Review. Jelinek HF, Mousa M, Alefishat E, Osman W, Spence I, Bu D, Feng SF, Byrd J, Magni PA, Sahibzada S, Tay GK, Alsafar HS. Front Vet Sci 8 644414 (2021)
  44. Detection of COVID-19-related biomarkers by electrochemical biosensors and potential for diagnosis, prognosis, and prediction of the course of the disease in the context of personalized medicine. Vásquez V, Orozco J. Anal Bioanal Chem 415 1003-1031 (2023)
  45. Heterologous humoral immunity to human and zoonotic coronaviruses: Aiming for the achilles heel. Ng KW, Faulkner N, Wrobel AG, Gamblin SJ, Kassiotis G. Semin Immunol 55 101507 (2021)
  46. Neurological pathogenesis of SARS-CoV-2 (COVID-19): from virological features to clinical symptoms. Kase Y, Okano H. Inflamm Regen 41 15 (2021)
  47. Structural Bases of Zoonotic and Zooanthroponotic Transmission of SARS-CoV-2. Clayton E, Ackerley J, Aelmans M, Ali N, Ashcroft Z, Ashton C, Barker R, Budryte V, Burrows C, Cai S, Callaghan A, Carberry J, Chatwin R, Davies I, Farlow C, Gamblin S, Iacobut A, Lambe A, Lynch F, Mihalache D, Mokbel A, Potamsetty S, Qadir Z, Soden J, Sun X, Vasile A, Wheeler O, Rohaim MA, Munir M. Viruses 14 418 (2022)
  48. The origins of COVID-19 pandemic: A brief overview. Hao YJ, Wang YL, Wang MY, Zhou L, Shi JY, Cao JM, Wang DP. Transbound Emerg Dis 69 3181-3197 (2022)
  49. Evolution of the SARS-CoV-2 Omicron spike. Parsons RJ, Acharya P. Cell Rep 42 113444 (2023)
  50. Insights Into the Changing Landscape of Coronavirus Disease 2019. Escobedo RA, Kaushal D, Singh DK. Front Cell Infect Microbiol 11 761521 (2021)
  51. Nanoparticles for Coronavirus Control. Kianpour M, Akbarian M, Uversky VN. Nanomaterials (Basel) 12 1602 (2022)
  52. Peptides and peptidomimetics as therapeutic agents for Covid-19. Dahal A, Sonju JJ, Kousoulas KG, Jois SD. Pept Sci (Hoboken) 114 e24245 (2022)
  53. Structural insights into SARS-CoV-2 infection and therapeutics development. Sun G, Xue L, He Q, Zhao Y, Xu W, Wang Z. Stem Cell Res 52 102219 (2021)
  54. A snapshot of protein trafficking in SARS-CoV-2 infection. Prasad V, Bartenschlager R. Biol Cell 115 e2200073 (2023)
  55. COVID-19: Myths and Reality. Kordyukova LV, Shanko AV. Biochemistry (Mosc) 86 800-817 (2021)
  56. Clinical and Molecular Relationships between COVID-19 and Feline Infectious Peritonitis (FIP). Sweet AN, André NM, Stout AE, Licitra BN, Whittaker GR. Viruses 14 481 (2022)
  57. Jumping a Moving Train: SARS-CoV-2 Evolution in Real Time. Moustafa AM, Planet PJ. J Pediatric Infect Dis Soc 10 S96-S105 (2021)
  58. SARS-CoV-2 Spike Protein Extrapolation for COVID Diagnosis and Vaccine Development. Malik YS, Kumar P, Ansari MI, Hemida MG, El Zowalaty ME, Abdel-Moneim AS, Ganesh B, Salajegheh S, Natesan S, Sircar S, Safdar M, Vinodhkumar OR, Duarte PM, Patel SK, Klein J, Rahimi P, Dhama K. Front Mol Biosci 8 607886 (2021)
  59. Sensitivity of SARS-CoV-2 towards Alcohols: Potential for Alcohol-Related Toxicity in Humans. Basak D, Deb S. Life (Basel) 11 1334 (2021)
  60. Imaging and visualizing SARS-CoV-2 in a new era for structural biology. Leigh KE, Modis Y. Interface Focus 11 20210019 (2021)
  61. SARS-CoV-2 Portrayed against HIV: Contrary Viral Strategies in Similar Disguise. Duerr R, Crosse KM, Valero-Jimenez AM, Dittmann M. Microorganisms 9 1389 (2021)
  62. Advances in Targeting ACE2 for Developing COVID-19 Therapeutics. Suvarnapathaki S, Chauhan D, Nguyen A, Ramalingam M, Camci-Unal G. Ann Biomed Eng 50 1734-1749 (2022)
  63. COVID-19 status quo: Emphasis on gastrointestinal and liver manifestations. Bhurwal A, Minacapelli CD, Orosz E, Gupta K, Tait C, Dalal I, Zhang C, Zhao E, Rustgi VK. World J Gastroenterol 27 7969-7981 (2021)
  64. How helpful were molecular dynamics simulations in shaping our understanding of SARS-CoV-2 spike protein dynamics? Abduljalil JM, Elghareib AM, Samir A, Ezat AA, Elfiky AA. Int J Biol Macromol 242 125153 (2023)
  65. Natural Bioactive Molecules as Potential Agents Against SARS-CoV-2. Chen W, Wang Z, Wang Y, Li Y. Front Pharmacol 12 702472 (2021)
  66. Neuropilin-1 in the pathogenesis of preeclampsia, HIV-1, and SARS-CoV-2 infection: A review. Naidoo N, Moodley J, Khaliq OP, Naicker T. Virus Res 319 198880 (2022)
  67. The atomic portrait of SARS-CoV-2 as captured by cryo-electron microscopy. Fertig TE, Chitoiu L, Terinte-Balcan G, Peteu VE, Marta D, Gherghiceanu M. J Cell Mol Med 26 25-34 (2022)
  68. COVID-19 Spotlights Connections between Disease and Multiple Lifestyle Factors. Enichen E, Harvey C, Demmig-Adams B. Am J Lifestyle Med 17 231-257 (2023)
  69. Evolution of the SARS-CoV-2 Omicron Variants: Genetic Impact on Viral Fitness. Liu W, Huang Z, Xiao J, Wu Y, Xia N, Yuan Q. Viruses 16 184 (2024)
  70. Human Cell Organelles in SARS-CoV-2 Infection: An Up-to-Date Overview. Gorący A, Rosik J, Szostak B, Ustianowski Ł, Ustianowska K, Gorący J. Viruses 14 1092 (2022)
  71. Involvement of sialoglycans in SARS-COV-2 infection: Opportunities and challenges for glyco-based inhibitors. Kuhaudomlarp S, Imberty A. IUBMB Life 74 1253-1263 (2022)
  72. Main and papain-like proteases as prospective targets for pharmacological treatment of coronavirus SARS-CoV-2. Yevsieieva LV, Lohachova KO, Kyrychenko A, Kovalenko SM, Ivanov VV, Kalugin ON. RSC Adv 13 35500-35524 (2023)
  73. Material strategies and considerations for serologic testing of global infectious diseases. Manning JE, Duffy PE, Esposito D, Sadtler K. MRS Bull 46 854-858 (2021)
  74. The role of influenza-A virus and coronavirus viral glycoprotein cleavage in host adaptation. Heindl MR, Böttcher-Friebertshäuser E. Curr Opin Virol 58 101303 (2023)
  75. Does Covera-19 know 'when to hold 'em or 'when to fold 'em? A translational thought experiment. Griffin GD. Transl Med Commun 6 12 (2021)
  76. Evolution of Sequence and Structure of SARS-CoV-2 Spike Protein: A Dynamic Perspective. Sinha A, Sangeet S, Roy S. ACS Omega 8 23283-23304 (2023)
  77. Importance of Efferocytosis in COVID-19 Mortality. Erol A. Infect Drug Resist 15 995-1007 (2022)
  78. SARS-CoV-2-host cell surface interactions and potential antiviral therapies. Butnariu AB, Look A, Grillo M, Tabish TA, McGarvey MJ, Pranjol MZI. Interface Focus 12 20200081 (2022)
  79. Aprotinin (I): Understanding the Role of Host Proteases in COVID-19 and the Importance of Pharmacologically Regulating Their Function. Padín JF, Pérez-Ortiz JM, Redondo-Calvo FJ. Int J Mol Sci 25 7553 (2024)
  80. COVID-19, hydroxychloroquine and the importance of disease progression. Budny JA. Toxicol Res (Camb) 10 299-311 (2021)
  81. Insight into genomic organization of pathogenic coronaviruses, SARS-CoV-2: Implication for emergence of new variants, laboratory diagnosis and treatment options. Bedada FB, Gorfu G, Teng S, Neita ME. Front Mol Med 2 917201 (2022)
  82. Potential Effects of Hyperglycemia on SARS-CoV-2 Entry Mechanisms in Pancreatic Beta Cells. Michaels TM, Essop MF, Joseph DE. Viruses 16 1243 (2024)
  83. Rapidly Evolving SARS-CoV-2: A Brief Review Regarding the Variants and their Effects on Vaccine Efficacies. Nawaz S, Janiad S, Fatima A, Saleem M, Fatima U, Ali A. Infect Disord Drug Targets 24 58-66 (2024)
  84. Structural Requirements and Plasticity of Receptor-Binding Domain in Human Coronavirus Spike. Li Y, Zheng P, Liu T, Shi C, Wang B, Xu Y, Jin T. Front Mol Biosci 9 930931 (2022)

Articles citing this publication (208)

  1. Deep Mutational Scanning of SARS-CoV-2 Receptor Binding Domain Reveals Constraints on Folding and ACE2 Binding. Starr TN, Greaney AJ, Hilton SK, Ellis D, Crawford KHD, Dingens AS, Navarro MJ, Bowen JE, Tortorici MA, Walls AC, King NP, Veesler D, Bloom JD. Cell 182 1295-1310.e20 (2020)
  2. Genomics and epidemiology of the P.1 SARS-CoV-2 lineage in Manaus, Brazil. Faria NR, Mellan TA, Whittaker C, Claro IM, Candido DDS, Mishra S, Crispim MAE, Sales FCS, Hawryluk I, McCrone JT, Hulswit RJG, Franco LAM, Ramundo MS, de Jesus JG, Andrade PS, Coletti TM, Ferreira GM, Silva CAM, Manuli ER, Pereira RHM, Peixoto PS, Kraemer MUG, Gaburo N, Camilo CDC, Hoeltgebaum H, Souza WM, Rocha EC, de Souza LM, de Pinho MC, Araujo LJT, Malta FSV, de Lima AB, Silva JDP, Zauli DAG, Ferreira ACS, Schnekenberg RP, Laydon DJ, Walker PGT, Schlüter HM, Dos Santos ALP, Vidal MS, Del Caro VS, Filho RMF, Dos Santos HM, Aguiar RS, Proença-Modena JL, Nelson B, Hay JA, Monod M, Miscouridou X, Coupland H, Sonabend R, Vollmer M, Gandy A, Prete CA, Nascimento VH, Suchard MA, Bowden TA, Pond SLK, Wu CH, Ratmann O, Ferguson NM, Dye C, Loman NJ, Lemey P, Rambaut A, Fraiji NA, Carvalho MDPSS, Pybus OG, Flaxman S, Bhatt S, Sabino EC. Science 372 815-821 (2021)
  3. SARS-CoV-2 B.1.617.2 Delta variant replication and immune evasion. Mlcochova P, Kemp SA, Dhar MS, Papa G, Meng B, Ferreira IATM, Datir R, Collier DA, Albecka A, Singh S, Pandey R, Brown J, Zhou J, Goonawardane N, Mishra S, Whittaker C, Mellan T, Marwal R, Datta M, Sengupta S, Ponnusamy K, Radhakrishnan VS, Abdullahi A, Charles O, Chattopadhyay P, Devi P, Caputo D, Peacock T, Wattal C, Goel N, Satwik A, Vaishya R, Agarwal M, Indian SARS-CoV-2 Genomics Consortium (INSACOG), Genotype to Phenotype Japan (G2P-Japan) Consortium, CITIID-NIHR BioResource COVID-19 Collaboration, Mavousian A, Lee JH, Bassi J, Silacci-Fegni C, Saliba C, Pinto D, Irie T, Yoshida I, Hamilton WL, Sato K, Bhatt S, Flaxman S, James LC, Corti D, Piccoli L, Barclay WS, Rakshit P, Agrawal A, Gupta RK. Nature 599 114-119 (2021)
  4. N-terminal domain antigenic mapping reveals a site of vulnerability for SARS-CoV-2. McCallum M, De Marco A, Lempp FA, Tortorici MA, Pinto D, Walls AC, Beltramello M, Chen A, Liu Z, Zatta F, Zepeda S, di Iulio J, Bowen JE, Montiel-Ruiz M, Zhou J, Rosen LE, Bianchi S, Guarino B, Fregni CS, Abdelnabi R, Foo SC, Rothlauf PW, Bloyet LM, Benigni F, Cameroni E, Neyts J, Riva A, Snell G, Telenti A, Whelan SPJ, Virgin HW, Corti D, Pizzuto MS, Veesler D. Cell 184 2332-2347.e16 (2021)
  5. SARS-CoV-2 evolution during treatment of chronic infection. Kemp SA, Collier DA, Datir RP, Ferreira IATM, Gayed S, Jahun A, Hosmillo M, Rees-Spear C, Mlcochova P, Lumb IU, Roberts DJ, Chandra A, Temperton N, CITIID-NIHR BioResource COVID-19 Collaboration, COVID-19 Genomics UK (COG-UK) Consortium, Sharrocks K, Blane E, Modis Y, Leigh KE, Briggs JAG, van Gils MJ, Smith KGC, Bradley JR, Smith C, Doffinger R, Ceron-Gutierrez L, Barcenas-Morales G, Pollock DD, Goldstein RA, Smielewska A, Skittrall JP, Gouliouris T, Goodfellow IG, Gkrania-Klotsas E, Illingworth CJR, McCoy LE, Gupta RK. Nature 592 277-282 (2021)
  6. Preexisting and de novo humoral immunity to SARS-CoV-2 in humans. Ng KW, Faulkner N, Cornish GH, Rosa A, Harvey R, Hussain S, Ulferts R, Earl C, Wrobel AG, Benton DJ, Roustan C, Bolland W, Thompson R, Agua-Doce A, Hobson P, Heaney J, Rickman H, Paraskevopoulou S, Houlihan CF, Thomson K, Sanchez E, Shin GY, Spyer MJ, Joshi D, O'Reilly N, Walker PA, Kjaer S, Riddell A, Moore C, Jebson BR, Wilkinson M, Marshall LR, Rosser EC, Radziszewska A, Peckham H, Ciurtin C, Wedderburn LR, Beale R, Swanton C, Gandhi S, Stockinger B, McCauley J, Gamblin SJ, McCoy LE, Cherepanov P, Nastouli E, Kassiotis G. Science 370 1339-1343 (2020)
  7. Case Study: Prolonged Infectious SARS-CoV-2 Shedding from an Asymptomatic Immunocompromised Individual with Cancer. Avanzato VA, Matson MJ, Seifert SN, Pryce R, Williamson BN, Anzick SL, Barbian K, Judson SD, Fischer ER, Martens C, Bowden TA, de Wit E, Riedo FX, Munster VJ. Cell 183 1901-1912.e9 (2020)
  8. Loss of furin cleavage site attenuates SARS-CoV-2 pathogenesis. Johnson BA, Xie X, Bailey AL, Kalveram B, Lokugamage KG, Muruato A, Zou J, Zhang X, Juelich T, Smith JK, Zhang L, Bopp N, Schindewolf C, Vu M, Vanderheiden A, Winkler ES, Swetnam D, Plante JA, Aguilar P, Plante KS, Popov V, Lee B, Weaver SC, Suthar MS, Routh AL, Ren P, Ku Z, An Z, Debbink K, Diamond MS, Shi PY, Freiberg AN, Menachery VD. Nature 591 293-299 (2021)
  9. Potent SARS-CoV-2 neutralizing antibodies directed against spike N-terminal domain target a single supersite. Cerutti G, Guo Y, Zhou T, Gorman J, Lee M, Rapp M, Reddem ER, Yu J, Bahna F, Bimela J, Huang Y, Katsamba PS, Liu L, Nair MS, Rawi R, Olia AS, Wang P, Zhang B, Chuang GY, Ho DD, Sheng Z, Kwong PD, Shapiro L. Cell Host Microbe 29 819-833.e7 (2021)
  10. Virus-Receptor Interactions of Glycosylated SARS-CoV-2 Spike and Human ACE2 Receptor. Zhao P, Praissman JL, Grant OC, Cai Y, Xiao T, Rosenbalm KE, Aoki K, Kellman BP, Bridger R, Barouch DH, Brindley MA, Lewis NE, Tiemeyer M, Chen B, Woods RJ, Wells L. Cell Host Microbe 28 586-601.e6 (2020)
  11. Free fatty acid binding pocket in the locked structure of SARS-CoV-2 spike protein. Toelzer C, Gupta K, Yadav SKN, Borucu U, Davidson AD, Kavanagh Williamson M, Shoemark DK, Garzoni F, Staufer O, Milligan R, Capin J, Mulholland AJ, Spatz J, Fitzgerald D, Berger I, Schaffitzel C. Science 370 725-730 (2020)
  12. SARS-CoV-2 N protein promotes NLRP3 inflammasome activation to induce hyperinflammation. Pan P, Shen M, Yu Z, Ge W, Chen K, Tian M, Xiao F, Wang Z, Wang J, Jia Y, Wang W, Wan P, Zhang J, Chen W, Lei Z, Chen X, Luo Z, Zhang Q, Xu M, Li G, Li Y, Wu J. Nat Commun 12 4664 (2021)
  13. Conformational dynamics of SARS-CoV-2 trimeric spike glycoprotein in complex with receptor ACE2 revealed by cryo-EM. Xu C, Wang Y, Liu C, Zhang C, Han W, Hong X, Wang Y, Hong Q, Wang S, Zhao Q, Wang Y, Yang Y, Chen K, Zheng W, Kong L, Wang F, Zuo Q, Huang Z, Cong Y. Sci Adv 7 eabe5575 (2021)
  14. Cryo-EM Structures of SARS-CoV-2 Spike without and with ACE2 Reveal a pH-Dependent Switch to Mediate Endosomal Positioning of Receptor-Binding Domains. Zhou T, Tsybovsky Y, Gorman J, Rapp M, Cerutti G, Chuang GY, Katsamba PS, Sampson JM, Schön A, Bimela J, Boyington JC, Nazzari A, Olia AS, Shi W, Sastry M, Stephens T, Stuckey J, Teng IT, Wang P, Wang S, Zhang B, Friesner RA, Ho DD, Mascola JR, Shapiro L, Kwong PD. Cell Host Microbe 28 867-879.e5 (2020)
  15. Genetic and structural basis for SARS-CoV-2 variant neutralization by a two-antibody cocktail. Dong J, Zost SJ, Greaney AJ, Starr TN, Dingens AS, Chen EC, Chen RE, Case JB, Sutton RE, Gilchuk P, Rodriguez J, Armstrong E, Gainza C, Nargi RS, Binshtein E, Xie X, Zhang X, Shi PY, Logue J, Weston S, McGrath ME, Frieman MB, Brady T, Tuffy KM, Bright H, Loo YM, McTamney PM, Esser MT, Carnahan RH, Diamond MS, Bloom JD, Crowe JE. Nat Microbiol 6 1233-1244 (2021)
  16. TMPRSS2 expression dictates the entry route used by SARS-CoV-2 to infect host cells. Koch J, Uckeley ZM, Doldan P, Stanifer M, Boulant S, Lozach PY. EMBO J 40 e107821 (2021)
  17. Hydroxychloroquine-mediated inhibition of SARS-CoV-2 entry is attenuated by TMPRSS2. Ou T, Mou H, Zhang L, Ojha A, Choe H, Farzan M. PLoS Pathog 17 e1009212 (2021)
  18. The SARS-CoV-2 Spike protein has a broad tropism for mammalian ACE2 proteins. Conceicao C, Thakur N, Human S, Kelly JT, Logan L, Bialy D, Bhat S, Stevenson-Leggett P, Zagrajek AK, Hollinghurst P, Varga M, Tsirigoti C, Tully M, Chiu C, Moffat K, Silesian AP, Hammond JA, Maier HJ, Bickerton E, Shelton H, Dietrich I, Graham SC, Bailey D. PLoS Biol 18 e3001016 (2020)
  19. The SARS-CoV-2 Lambda variant exhibits enhanced infectivity and immune resistance. Kimura I, Kosugi Y, Wu J, Zahradnik J, Yamasoba D, Butlertanaka EP, Tanaka YL, Uriu K, Liu Y, Morizako N, Shirakawa K, Kazuma Y, Nomura R, Horisawa Y, Tokunaga K, Ueno T, Takaori-Kondo A, Schreiber G, Arase H, Genotype to Phenotype Japan (G2P-Japan) Consortium, Motozono C, Saito A, Nakagawa S, Sato K. Cell Rep 38 110218 (2022)
  20. Real-Time Conformational Dynamics of SARS-CoV-2 Spikes on Virus Particles. Lu M, Uchil PD, Li W, Zheng D, Terry DS, Gorman J, Shi W, Zhang B, Zhou T, Ding S, Gasser R, Prévost J, Beaudoin-Bussières G, Anand SP, Laumaea A, Grover JR, Liu L, Ho DD, Mascola JR, Finzi A, Kwong PD, Blanchard SC, Mothes W. Cell Host Microbe 28 880-891.e8 (2020)
  21. The structural basis of accelerated host cell entry by SARS-CoV-2†. Seyran M, Takayama K, Uversky VN, Lundstrom K, Palù G, Sherchan SP, Attrish D, Rezaei N, Aljabali AAA, Ghosh S, Pizzol D, Chauhan G, Adadi P, Mohamed Abd El-Aziz T, Soares AG, Kandimalla R, Tambuwala M, Hassan SS, Azad GK, Pal Choudhury P, Baetas-da-Cruz W, Serrano-Aroca Á, Brufsky AM, Uhal BD. FEBS J 288 5010-5020 (2021)
  22. The Polybasic Cleavage Site in SARS-CoV-2 Spike Modulates Viral Sensitivity to Type I Interferon and IFITM2. Winstone H, Lista MJ, Reid AC, Bouton C, Pickering S, Galao RP, Kerridge C, Doores KJ, Swanson CM, Neil SJD. J Virol 95 e02422-20 (2021)
  23. Proteolytic Activation of SARS-CoV-2 Spike at the S1/S2 Boundary: Potential Role of Proteases beyond Furin. Tang T, Jaimes JA, Bidon MK, Straus MR, Daniel S, Whittaker GR. ACS Infect Dis 7 264-272 (2021)
  24. SARS-CoV-2 entry into human airway organoids is serine protease-mediated and facilitated by the multibasic cleavage site. Mykytyn AZ, Breugem TI, Riesebosch S, Schipper D, van den Doel PB, Rottier RJ, Lamers MM, Haagmans BL. Elife 10 e64508 (2021)
  25. The SARS-CoV-2 Spike protein disrupts human cardiac pericytes function through CD147 receptor-mediated signalling: a potential non-infective mechanism of COVID-19 microvascular disease. Avolio E, Carrabba M, Milligan R, Kavanagh Williamson M, Beltrami AP, Gupta K, Elvers KT, Gamez M, Foster RR, Gillespie K, Hamilton F, Arnold D, Berger I, Davidson AD, Hill D, Caputo M, Madeddu P. Clin Sci (Lond) 135 2667-2689 (2021)
  26. Binding and molecular basis of the bat coronavirus RaTG13 virus to ACE2 in humans and other species. Liu K, Pan X, Li L, Yu F, Zheng A, Du P, Han P, Meng Y, Zhang Y, Wu L, Chen Q, Song C, Jia Y, Niu S, Lu D, Qiao C, Chen Z, Ma D, Ma X, Tan S, Zhao X, Qi J, Gao GF, Wang Q. Cell 184 3438-3451.e10 (2021)
  27. SARS-CoV-2 can recruit a heme metabolite to evade antibody immunity. Rosa A, Pye VE, Graham C, Muir L, Seow J, Ng KW, Cook NJ, Rees-Spear C, Parker E, Dos Santos MS, Rosadas C, Susana A, Rhys H, Nans A, Masino L, Roustan C, Christodoulou E, Ulferts R, Wrobel AG, Short CE, Fertleman M, Sanders RW, Heaney J, Spyer M, Kjær S, Riddell A, Malim MH, Beale R, MacRae JI, Taylor GP, Nastouli E, van Gils MJ, Rosenthal PB, Pizzato M, McClure MO, Tedder RS, Kassiotis G, McCoy LE, Doores KJ, Cherepanov P. Sci Adv 7 eabg7607 (2021)
  28. Structural basis for SARS-CoV-2 Delta variant recognition of ACE2 receptor and broadly neutralizing antibodies. Wang Y, Liu C, Zhang C, Wang Y, Hong Q, Xu S, Li Z, Yang Y, Huang Z, Cong Y. Nat Commun 13 871 (2022)
  29. A potent SARS-CoV-2 neutralising nanobody shows therapeutic efficacy in the Syrian golden hamster model of COVID-19. Huo J, Mikolajek H, Le Bas A, Clark JJ, Sharma P, Kipar A, Dormon J, Norman C, Weckener M, Clare DK, Harrison PJ, Tree JA, Buttigieg KR, Salguero FJ, Watson R, Knott D, Carnell O, Ngabo D, Elmore MJ, Fotheringham S, Harding A, Moynié L, Ward PN, Dumoux M, Prince T, Hall Y, Hiscox JA, Owen A, James W, Carroll MW, Stewart JP, Naismith JH, Owens RJ. Nat Commun 12 5469 (2021)
  30. SARS-CoV-2 and Three Related Coronaviruses Utilize Multiple ACE2 Orthologs and Are Potently Blocked by an Improved ACE2-Ig. Li Y, Wang H, Tang X, Fang S, Ma D, Du C, Wang Y, Pan H, Yao W, Zhang R, Zou X, Zheng J, Xu L, Farzan M, Zhong G. J Virol 94 e01283-20 (2020)
  31. The SARS-CoV-2 and other human coronavirus spike proteins are fine-tuned towards temperature and proteases of the human airways. Laporte M, Raeymaekers V, Van Berwaer R, Vandeput J, Marchand-Casas I, Thibaut HJ, Van Looveren D, Martens K, Hoffmann M, Maes P, Pöhlmann S, Naesens L, Stevaert A. PLoS Pathog 17 e1009500 (2021)
  32. Selection Analysis Identifies Clusters of Unusual Mutational Changes in Omicron Lineage BA.1 That Likely Impact Spike Function. Martin DP, Lytras S, Lucaci AG, Maier W, Grüning B, Shank SD, Weaver S, MacLean OA, Orton RJ, Lemey P, Boni MF, Tegally H, Harkins GW, Scheepers C, Bhiman JN, Everatt J, Amoako DG, San JE, Giandhari J, Sigal A, NGS-SA, Williamson C, Hsiao NY, von Gottberg A, De Klerk A, Shafer RW, Robertson DL, Wilkinson RJ, Sewell BT, Lessells R, Nekrutenko A, Greaney AJ, Starr TN, Bloom JD, Murrell B, Wilkinson E, Gupta RK, de Oliveira T, Kosakovsky Pond SL. Mol Biol Evol 39 msac061 (2022)
  33. Tissue-specific and interferon-inducible expression of nonfunctional ACE2 through endogenous retroelement co-option. Ng KW, Attig J, Bolland W, Young GR, Major J, Wrobel AG, Gamblin S, Wack A, Kassiotis G. Nat Genet 52 1294-1302 (2020)
  34. Bat and pangolin coronavirus spike glycoprotein structures provide insights into SARS-CoV-2 evolution. Zhang S, Qiao S, Yu J, Zeng J, Shan S, Tian L, Lan J, Zhang L, Wang X. Nat Commun 12 1607 (2021)
  35. Letter Structural basis for the different states of the spike protein of SARS-CoV-2 in complex with ACE2. Yan R, Zhang Y, Li Y, Ye F, Guo Y, Xia L, Zhong X, Chi X, Zhou Q. Cell Res 31 717-719 (2021)
  36. Development and structural basis of a two-MAb cocktail for treating SARS-CoV-2 infections. Zhang C, Wang Y, Zhu Y, Liu C, Gu C, Xu S, Wang Y, Zhou Y, Wang Y, Han W, Hong X, Yang Y, Zhang X, Wang T, Xu C, Hong Q, Wang S, Zhao Q, Qiao W, Zang J, Kong L, Wang F, Wang H, Qu D, Lavillette D, Tang H, Deng Q, Xie Y, Cong Y, Huang Z. Nat Commun 12 264 (2021)
  37. Characterising proteolysis during SARS-CoV-2 infection identifies viral cleavage sites and cellular targets with therapeutic potential. Meyer B, Chiaravalli J, Gellenoncourt S, Brownridge P, Bryne DP, Daly LA, Grauslys A, Walter M, Agou F, Chakrabarti LA, Craik CS, Eyers CE, Eyers PA, Gambin Y, Jones AR, Sierecki E, Verdin E, Vignuzzi M, Emmott E. Nat Commun 12 5553 (2021)
  38. Angiotensin-converting enzyme 2 (ACE2) expression increases with age in patients requiring mechanical ventilation. Baker SA, Kwok S, Berry GJ, Montine TJ. PLoS One 16 e0247060 (2021)
  39. Identification of immunodominant linear epitopes from SARS-CoV-2 patient plasma. Farrera-Soler L, Daguer JP, Barluenga S, Vadas O, Cohen P, Pagano S, Yerly S, Kaiser L, Vuilleumier N, Winssinger N. PLoS One 15 e0238089 (2020)
  40. Insights on the mutational landscape of the SARS-CoV-2 Omicron variant receptor-binding domain. Miller NL, Clark T, Raman R, Sasisekharan R. Cell Rep Med 3 100527 (2022)
  41. In silico comparison of SARS-CoV-2 spike protein-ACE2 binding affinities across species and implications for virus origin. Piplani S, Singh PK, Winkler DA, Petrovsky N. Sci Rep 11 13063 (2021)
  42. Site-Specific O-Glycosylation Analysis of SARS-CoV-2 Spike Protein Produced in Insect and Human Cells. Bagdonaite I, Thompson AJ, Wang X, Søgaard M, Fougeroux C, Frank M, Diedrich JK, Yates JR, Salanti A, Vakhrushev SY, Paulson JC, Wandall HH. Viruses 13 551 (2021)
  43. Immunogenicity and efficacy of mRNA COVID-19 vaccine MRT5500 in preclinical animal models. Kalnin KV, Plitnik T, Kishko M, Zhang J, Zhang D, Beauvais A, Anosova NG, Tibbitts T, DiNapoli J, Ulinski G, Piepenhagen P, Cummings SM, Bangari DS, Ryan S, Huang PD, Huleatt J, Vincent D, Fries K, Karve S, Goldman R, Gopani H, Dias A, Tran K, Zacharia M, Gu X, Boeglin L, Abysalh J, Vargas J, Beaulieu A, Shah M, Jeannotte T, Gillis K, Chivukula S, Swearingen R, Landolfi V, Fu TM, DeRosa F, Casimiro D. NPJ Vaccines 6 61 (2021)
  44. Structure and binding properties of Pangolin-CoV spike glycoprotein inform the evolution of SARS-CoV-2. Wrobel AG, Benton DJ, Xu P, Calder LJ, Borg A, Roustan C, Martin SR, Rosenthal PB, Skehel JJ, Gamblin SJ. Nat Commun 12 837 (2021)
  45. Fine-tuning the spike: role of the nature and topology of the glycan shield in the structure and dynamics of the SARS-CoV-2 S. Harbison AM, Fogarty CA, Phung TK, Satheesan A, Schulz BL, Fadda E. Chem Sci 13 386-395 (2022)
  46. A selective sweep in the Spike gene has driven SARS-CoV-2 human adaptation. Kang L, He G, Sharp AK, Wang X, Brown AM, Michalak P, Weger-Lucarelli J. Cell 184 4392-4400.e4 (2021)
  47. A single intranasal dose of a live-attenuated parainfluenza virus-vectored SARS-CoV-2 vaccine is protective in hamsters. Liu X, Luongo C, Matsuoka Y, Park HS, Santos C, Yang L, Moore IN, Afroz S, Johnson RF, Lafont BAP, Martens C, Best SM, Munster VJ, Hollý J, Yewdell JW, Le Nouën C, Munir S, Buchholz UJ. Proc Natl Acad Sci U S A 118 e2109744118 (2021)
  48. Coagulation factors directly cleave SARS-CoV-2 spike and enhance viral entry. Kastenhuber ER, Mercadante M, Nilsson-Payant B, Johnson JL, Jaimes JA, Muecksch F, Weisblum Y, Bram Y, Chandar V, Whittaker GR, tenOever BR, Schwartz RE, Cantley L. Elife 11 e77444 (2022)
  49. TMEM106B is a receptor mediating ACE2-independent SARS-CoV-2 cell entry. Baggen J, Jacquemyn M, Persoons L, Vanstreels E, Pye VE, Wrobel AG, Calvaresi V, Martin SR, Roustan C, Cronin NB, Reading E, Thibaut HJ, Vercruysse T, Maes P, De Smet F, Yee A, Nivitchanyong T, Roell M, Franco-Hernandez N, Rhinn H, Mamchak AA, Ah Young-Chapon M, Brown E, Cherepanov P, Daelemans D. Cell 186 3427-3442.e22 (2023)
  50. Novel cleavage sites identified in SARS-CoV-2 spike protein reveal mechanism for cathepsin L-facilitated viral infection and treatment strategies. Zhao MM, Zhu Y, Zhang L, Zhong G, Tai L, Liu S, Yin G, Lu J, He Q, Li MJ, Zhao RX, Wang H, Huang W, Fan C, Shuai L, Wen Z, Wang C, He X, Chen Q, Liu B, Xiong X, Bu Z, Wang Y, Sun F, Yang JK. Cell Discov 8 53 (2022)
  51. D614G mutation in the SARS-CoV-2 spike protein enhances viral fitness by desensitizing it to temperature-dependent denaturation. Yang TJ, Yu PY, Chang YC, Hsu SD. J Biol Chem 297 101238 (2021)
  52. Evolution of the SARS-CoV-2 spike protein in the human host. Wrobel AG, Benton DJ, Roustan C, Borg A, Hussain S, Martin SR, Rosenthal PB, Skehel JJ, Gamblin SJ. Nat Commun 13 1178 (2022)
  53. Letter Rapid development of an updated mRNA vaccine against the SARS-CoV-2 Omicron variant. Zhang NN, Zhang RR, Zhang YF, Ji K, Xiong XC, Qin QS, Gao P, Lu XS, Zhou HY, Song HF, Ying B, Qin CF. Cell Res 32 401-403 (2022)
  54. Essential role of TMPRSS2 in SARS-CoV-2 infection in murine airways. Iwata-Yoshikawa N, Kakizaki M, Shiwa-Sudo N, Okura T, Tahara M, Fukushi S, Maeda K, Kawase M, Asanuma H, Tomita Y, Takayama I, Matsuyama S, Shirato K, Suzuki T, Nagata N, Takeda M. Nat Commun 13 6100 (2022)
  55. Pathogenesis, Symptomatology, and Transmission of SARS-CoV-2 through Analysis of Viral Genomics and Structure. Rando HM, MacLean AL, Lee AJ, Lordan R, Ray S, Bansal V, Skelly AN, Sell E, Dziak JJ, Shinholster L, D'Agostino McGowan L, Ben Guebila M, Wellhausen N, Knyazev S, Boca SM, Capone S, Qi Y, Park Y, Mai D, Sun Y, Boerckel JD, Brueffer C, Byrd JB, Kamil JP, Wang J, Velazquez R, Szeto GL, Barton JP, Goel RR, Mangul S, Lubiana T, COVID-19 Review Consortium Vikas Bansal, John P. Barton, Simina M. Boca, Joel D. Boerckel, Christian Brueffer, James Brian Byrd, Stephen Capone, Shikta Das, Anna Ada Dattoli, John J. Dziak, Jeffrey M. Field, Soumita Ghosh, Anthony Gitter, Rishi Raj Goel, Casey S. Greene, Marouen Ben Guebila, Daniel S. Himmelstein, Fengling Hu, Nafisa M. Jadavji, Jeremy P. Kamil, Sergey Knyazev, Likhitha Kolla, Alexandra J. Lee, Ronan Lordan, Tiago Lubiana, Temitayo Lukan, Adam L. MacLean, David Mai, Serghei Mangul, David Manheim, Lucy D’Agostino McGowan, Amruta Naik, YoSon Park, Dimitri Perrin, Yanjun Qi, Diane N. Rafizadeh, Bharath Ramsundar, Halie M. Rando, Sandipan Ray, Michael P. Robson, Vincent Rubinetti, Elizabeth Sell, Lamonica Shinholster, Ashwin N. Skelly, Yuchen Sun, Yusha Sun, Gregory L. Szeto, Ryan Velazquez, Jinhui Wang, Nils Wellhausen,, Gitter A, Greene CS. mSystems 6 e0009521 (2021)
  56. Antibody-mediated disruption of the SARS-CoV-2 spike glycoprotein. Wrobel AG, Benton DJ, Hussain S, Harvey R, Martin SR, Roustan C, Rosenthal PB, Skehel JJ, Gamblin SJ. Nat Commun 11 5337 (2020)
  57. The inherent flexibility of receptor binding domains in SARS-CoV-2 spike protein. Dokainish HM, Re S, Mori T, Kobayashi C, Jung J, Sugita Y. Elife 11 e75720 (2022)
  58. D614G Substitution of SARS-CoV-2 Spike Protein Increases Syncytium Formation and Virus Titer via Enhanced Furin-Mediated Spike Cleavage. Cheng YW, Chao TL, Li CL, Wang SH, Kao HC, Tsai YM, Wang HY, Hsieh CL, Lin YY, Chen PJ, Chang SY, Yeh SH. mBio 12 e0058721 (2021)
  59. Computational screening of 645 antiviral peptides against the receptor-binding domain of the spike protein in SARS-CoV-2. Sakib MMH, Nishat AA, Islam MT, Raihan Uddin MA, Iqbal MS, Bin Hossen FF, Ahmed MI, Bashir MS, Hossain T, Tohura US, Saif SI, Jui NR, Alam M, Islam MA, Hasan MM, Sufian MA, Ali MA, Islam R, Hossain MA, Halim MA. Comput Biol Med 136 104759 (2021)
  60. High-resolution epitope mapping and characterization of SARS-CoV-2 antibodies in large cohorts of subjects with COVID-19. Haynes WA, Kamath K, Bozekowski J, Baum-Jones E, Campbell M, Casanovas-Massana A, Daugherty PS, Dela Cruz CS, Dhal A, Farhadian SF, Fitzgibbons L, Fournier J, Jhatro M, Jordan G, Klein J, Lucas C, Kessler D, Luchsinger LL, Martinez B, Catherine Muenker M, Pischel L, Reifert J, Sawyer JR, Waitz R, Wunder EA, Zhang M, Yale IMPACT Team, Iwasaki A, Ko A, Shon JC. Commun Biol 4 1317 (2021)
  61. In vitro evolution predicts emerging SARS-CoV-2 mutations with high affinity for ACE2 and cross-species binding. Bate N, Savva CG, Moody PCE, Brown EA, Evans SE, Ball JK, Schwabe JWR, Sale JE, Brindle NPJ. PLoS Pathog 18 e1010733 (2022)
  62. Characterization of an attenuated SARS-CoV-2 variant with a deletion at the S1/S2 junction of the spike protein. Wang P, Lau SY, Deng S, Chen P, Mok BW, Zhang AJ, Lee AC, Chan KH, Tam RC, Xu H, Zhou R, Song W, Liu L, To KK, Chan JF, Chen Z, Yuen KY, Chen H. Nat Commun 12 2790 (2021)
  63. Spike residue 403 affects binding of coronavirus spikes to human ACE2. Zech F, Schniertshauer D, Jung C, Herrmann A, Cordsmeier A, Xie Q, Nchioua R, Prelli Bozzo C, Volcic M, Koepke L, Müller JA, Krüger J, Heller S, Stenger S, Hoffmann M, Pöhlmann S, Kleger A, Jacob T, Conzelmann KK, Ensser A, Sparrer KMJ, Kirchhoff F. Nat Commun 12 6855 (2021)
  64. Two-Component Nanoparticle Vaccine Displaying Glycosylated Spike S1 Domain Induces Neutralizing Antibody Response against SARS-CoV-2 Variants. van Oosten L, Altenburg JJ, Fougeroux C, Geertsema C, van den End F, Evers WAC, Westphal AH, Lindhoud S, van den Berg W, Swarts DC, Deurhof L, Suhrbier A, Le TT, Torres Morales S, Myeni SK, Kikkert M, Sander AF, de Jongh WA, Dagil R, Nielsen MA, Salanti A, Søgaard M, Keijzer TMP, Weijers D, Eppink MHM, Wijffels RH, van Oers MM, Martens DE, Pijlman GP. mBio 12 e0181321 (2021)
  65. Uncovering cryptic pockets in the SARS-CoV-2 spike glycoprotein. Zuzic L, Samsudin F, Shivgan AT, Raghuvamsi PV, Marzinek JK, Boags A, Pedebos C, Tulsian NK, Warwicker J, MacAry P, Crispin M, Khalid S, Anand GS, Bond PJ. Structure 30 1062-1074.e4 (2022)
  66. A neutralizing epitope on the SD1 domain of SARS-CoV-2 spike targeted following infection and vaccination. Seow J, Khan H, Rosa A, Calvaresi V, Graham C, Pickering S, Pye VE, Cronin NB, Huettner I, Malim MH, Politis A, Cherepanov P, Doores KJ. Cell Rep 40 111276 (2022)
  67. Analysis of Glycosylation and Disulfide Bonding of Wild-Type SARS-CoV-2 Spike Glycoprotein. Zhang S, Go EP, Ding H, Anang S, Kappes JC, Desaire H, Sodroski JG. J Virol 96 e0162621 (2022)
  68. Cooperative multivalent receptor binding promotes exposure of the SARS-CoV-2 fusion machinery core. Pak AJ, Yu A, Ke Z, Briggs JAG, Voth GA. Nat Commun 13 1002 (2022)
  69. Preclinical evaluation of a SARS-CoV-2 mRNA vaccine PTX-COVID19-B. Liu J, Budylowski P, Samson R, Griffin BD, Babuadze G, Rathod B, Colwill K, Abioye JA, Schwartz JA, Law R, Yip L, Ahn SK, Chau S, Naghibosadat M, Arita Y, Hu Q, Yue FY, Banerjee A, Hardy WR, Mossman K, Mubareka S, Kozak RA, Pollanen MS, Martin Orozco N, Gingras AC, Marcusson EG, Ostrowski MA. Sci Adv 8 eabj9815 (2022)
  70. SARS-CoV-2 Genomic Variation in Space and Time in Hospitalized Patients in Philadelphia. Everett J, Hokama P, Roche AM, Reddy S, Hwang Y, Kessler L, Glascock A, Li Y, Whelan JN, Weiss SR, Sherrill-Mix S, McCormick K, Whiteside SA, Graham-Wooten J, Khatib LA, Fitzgerald AS, Collman RG, Bushman F. mBio 12 e03456-20 (2021)
  71. Editorial Viewpoint: Origin of SARS-CoV-2. Lundstrom K, Seyran M, Pizzol D, Adadi P, Mohamed Abd El-Aziz T, Hassan SS, Soares A, Kandimalla R, Tambuwala MM, Aljabali AAA, Kumar Azad G, Pal Choudhury P, Uversky VN, Sherchan SP, Uhal BD, Rezaei N, Brufsky AM. Viruses 12 E1203 (2020)
  72. Expanded ACE2 dependencies of diverse SARS-like coronavirus receptor binding domains. Roelle SM, Shukla N, Pham AT, Bruchez AM, Matreyek KA. PLoS Biol 20 e3001738 (2022)
  73. Millisecond dynamic of SARS-CoV-2 spike and its interaction with ACE2 receptor and small extracellular vesicles. Lim K, Nishide G, Yoshida T, Watanabe-Nakayama T, Kobayashi A, Hazawa M, Hanayama R, Ando T, Wong RW. J Extracell Vesicles 10 e12170 (2021)
  74. Structural dynamics in the evolution of SARS-CoV-2 spike glycoprotein. Calvaresi V, Wrobel AG, Toporowska J, Hammerschmid D, Doores KJ, Bradshaw RT, Parsons RB, Benton DJ, Roustan C, Reading E, Malim MH, Gamblin SJ, Politis A. Nat Commun 14 1421 (2023)
  75. Multivalent 9-O-Acetylated-sialic acid glycoclusters as potent inhibitors for SARS-CoV-2 infection. Petitjean SJL, Chen W, Koehler M, Jimmidi R, Yang J, Mohammed D, Juniku B, Stanifer ML, Boulant S, Vincent SP, Alsteens D. Nat Commun 13 2564 (2022)
  76. Probing the biophysical constraints of SARS-CoV-2 spike N-terminal domain using deep mutational scanning. Ouyang WO, Tan TJC, Lei R, Song G, Kieffer C, Andrabi R, Matreyek KA, Wu NC. Sci Adv 8 eadd7221 (2022)
  77. The Rhinolophus affinis bat ACE2 and multiple animal orthologs are functional receptors for bat coronavirus RaTG13 and SARS-CoV-2. Li P, Guo R, Liu Y, Zhang Y, Hu J, Ou X, Mi D, Chen T, Mu Z, Han Y, Chen Z, Cui Z, Zhang L, Wang X, Wu Z, Wang J, Jin Q, Qian Z. Sci Bull (Beijing) 66 1215-1227 (2021)
  78. The free fatty acid-binding pocket is a conserved hallmark in pathogenic β-coronavirus spike proteins from SARS-CoV to Omicron. Toelzer C, Gupta K, Yadav SKN, Hodgson L, Williamson MK, Buzas D, Borucu U, Powers K, Stenner R, Vasileiou K, Garzoni F, Fitzgerald D, Payré C, Gautam G, Lambeau G, Davidson AD, Verkade P, Frank M, Berger I, Schaffitzel C. Sci Adv 8 eadc9179 (2022)
  79. A 3D structural SARS-CoV-2-human interactome to explore genetic and drug perturbations. Wierbowski SD, Liang S, Liu Y, Chen Y, Gupta S, Andre NM, Lipkin SM, Whittaker GR, Yu H. Nat Methods 18 1477-1488 (2021)
  80. Binding and structural basis of equine ACE2 to RBDs from SARS-CoV, SARS-CoV-2 and related coronaviruses. Xu Z, Kang X, Han P, Du P, Li L, Zheng A, Deng C, Qi J, Zhao X, Wang Q, Liu K, Gao GF. Nat Commun 13 3547 (2022)
  81. COVID-19 vaccines uptake: Public knowledge, awareness, perception and acceptance among adult Africans. Ahiakpa JK, Cosmas NT, Anyiam FE, Enalume KO, Lawan I, Gabriel IB, Oforka CL, Dahir HG, Fausat ST, Nwobodo MA, Massawe GP, Obagha AS, Okeh DU, Karikari B, Aderonke ST, Awoyemi OM, Aneyo IA, Doherty FV. PLoS One 17 e0268230 (2022)
  82. Comparative Immunomodulatory Evaluation of the Receptor Binding Domain of the SARS-CoV-2 Spike Protein; a Potential Vaccine Candidate Which Imparts Potent Humoral and Th1 Type Immune Response in a Mouse Model. Shrivastava T, Singh B, Rizvi ZA, Verma R, Goswami S, Vishwakarma P, Jakhar K, Sonar S, Mani S, Bhattacharyya S, Awasthi A, Surjit M. Front Immunol 12 641447 (2021)
  83. EMDA: A Python package for Electron Microscopy Data Analysis. Warshamanage R, Yamashita K, Murshudov GN. J Struct Biol 214 107826 (2022)
  84. Longitudinal analysis of SARS-CoV-2 spike and RNA-dependent RNA polymerase protein sequences reveals the emergence and geographic distribution of diverse mutations. Showers WM, Leach SM, Kechris K, Strong M. Infect Genet Evol 97 105153 (2022)
  85. TMPRSS2 promotes SARS-CoV-2 evasion from NCOA7-mediated restriction. Khan H, Winstone H, Jimenez-Guardeño JM, Graham C, Doores KJ, Goujon C, Matthews DA, Davidson AD, Rihn SJ, Palmarini M, Neil SJD, Malim MH. PLoS Pathog 17 e1009820 (2021)
  86. Allosteric perspective on the mutability and druggability of the SARS-CoV-2 Spike protein. Tan ZW, Tee WV, Samsudin F, Guarnera E, Bond PJ, Berezovsky IN. Structure 30 590-607.e4 (2022)
  87. Mapping cross-variant neutralizing sites on the SARS-CoV-2 spike protein. Xu S, Wang Y, Wang Y, Zhang C, Hong Q, Gu C, Xu R, Wang T, Yang Y, Zang J, Zhou Y, Li Z, Liu Q, Zhou B, Bai L, Zhu Y, Deng Q, Wang H, Lavillette D, Wong G, Xie Y, Cong Y, Huang Z, Huang Z. Emerg Microbes Infect 11 351-367 (2022)
  88. Structural insights in cell-type specific evolution of intra-host diversity by SARS-CoV-2. Gupta K, Toelzer C, Williamson MK, Shoemark DK, Oliveira ASF, Oliveira ASF, Matthews DA, Almuqrin A, Staufer O, Yadav SKN, Borucu U, Garzoni F, Fitzgerald D, Spatz J, Mulholland AJ, Davidson AD, Schaffitzel C, Berger I. Nat Commun 13 222 (2022)
  89. A Bispecific Antibody Targeting RBD and S2 Potently Neutralizes SARS-CoV-2 Omicron and Other Variants of Concern. Yuan M, Chen X, Zhu Y, Dong X, Liu Y, Qian Z, Ye L, Liu P. J Virol 96 e0077522 (2022)
  90. Editorial Should we discount the laboratory origin of COVID-19? Segreto R, Deigin Y, McCairn K, Sousa A, Sirotkin D, Sirotkin K, Couey JJ, Jones A, Zhang D. Environ Chem Lett 19 2743-2757 (2021)
  91. Structural changes in the SARS-CoV-2 spike E406W mutant escaping a clinical monoclonal antibody cocktail. Addetia A, Park YJ, Starr T, Greaney AJ, Sprouse KR, Bowen JE, Tiles SW, Van Voorhis WC, Bloom JD, Corti D, Walls AC, Veesler D. Cell Rep 42 112621 (2023)
  92. The PRRA insert at the S1/S2 site modulates cellular tropism of SARS-CoV-2 and ACE2 usage by the closely related Bat RaTG13. Liu S, Selvaraj P, Lien CZ, Nunez IA, Wu WW, Chou CK, Wang TT. J Virol 95 JVI.01751-20 (2021)
  93. Variant-driven early warning via unsupervised machine learning analysis of spike protein mutations for COVID-19. de Hoffer A, Vatani S, Cot C, Cacciapaglia G, Chiusano ML, Cimarelli A, Conventi F, Giannini A, Hohenegger S, Sannino F. Sci Rep 12 9275 (2022)
  94. Computational Analysis of SARS-CoV-2 and SARS-Like Coronavirus Diversity in Human, Bat and Pangolin Populations. Dimonaco NJ, Salavati M, Shih BB. Viruses 13 E49 (2020)
  95. The Spike Protein of SARS-CoV-2 Is Adapting Because of Selective Pressures. López-Cortés GI, Palacios-Pérez M, Veledíaz HF, Hernández-Aguilar M, López-Hernández GR, Zamudio GS, José MV. Vaccines (Basel) 10 864 (2022)
  96. A rigorous framework for detecting SARS-CoV-2 spike protein mutational ensemble from genomic and structural features. Fatihi S, Rathore S, Pathak AK, Gahlot D, Mukerji M, Jatana N, Thukral L. Curr Res Struct Biol 3 290-300 (2021)
  97. Antibody Mediated Immunity to SARS-CoV-2 and Human Coronaviruses: Multiplex Beads Assay and Volumetric Absorptive Microsampling to Generate Immune Repertoire Cartography. Wang J, Li D, Zhou Q, Wiltse A, Zand MS. Front Immunol 12 696370 (2021)
  98. Molecular Dynamics Simulation Study of the Interaction between Human Angiotensin Converting Enzyme 2 and Spike Protein Receptor Binding Domain of the SARS-CoV-2 B.1.617 Variant. Antony P, Vijayan R. Biomolecules 11 1244 (2021)
  99. Rapid identification of neutralizing antibodies against SARS-CoV-2 variants by mRNA display. Tanaka S, Olson CA, Barnes CO, Higashide W, Gonzalez M, Taft J, Richardson A, Martin-Fernandez M, Bogunovic D, Gnanapragasam PNP, Bjorkman PJ, Spilman P, Niazi K, Rabizadeh S, Soon-Shiong P. Cell Rep 38 110348 (2022)
  100. Letter Are the emerging SARS-COV-2 mutations friend or foe? Erol A. Immunol Lett 230 63-64 (2021)
  101. Broad-spectrum antiviral activity of Spatholobus suberectus Dunn against SARS-CoV-2, SARS-CoV-1, H5N1, and other enveloped viruses. Liu Q, Kwan KY, Cao T, Yan B, Ganesan K, Jia L, Zhang F, Lim C, Wu Y, Feng Y, Chen Z, Liu L, Chen J. Phytother Res 36 3232-3247 (2022)
  102. Engineered disulfide reveals structural dynamics of locked SARS-CoV-2 spike. Qu K, Chen Q, Ciazynska KA, Liu B, Zhang X, Wang J, He Y, Guan J, He J, Liu T, Zhang X, Carter AP, Xiong X, Briggs JAG. PLoS Pathog 18 e1010583 (2022)
  103. A Retinol Derivative Inhibits SARS-CoV-2 Infection by Interrupting Spike-Mediated Cellular Entry. Tong L, Wang L, Liao S, Xiao X, Qu J, Wu C, Zhu Y, Tai W, Huang Y, Wang P, Li L, Zhang R, Xiang Y, Cheng G. mBio 13 e0148522 (2022)
  104. Effective virus-neutralizing activities in antisera from the first wave of survivors of severe COVID-19. Han Y, Liu P, Qiu Y, Zhou J, Liu Y, Hu X, Yang Q, Huang R, Wen X, Song H, Yu P, Yang M, Zhang J, Liu WJ, Peng K, Wu G, Zhang D, Zhou X, Wu Y. JCI Insight 6 146267 (2021)
  105. Global Diversification and Distribution of Coronaviruses With Furin Cleavage Sites. Liu X, Wu Q, Zhang Z. Front Microbiol 12 649314 (2021)
  106. SARS-CoV-2 omicron variants harbor spike protein mutations responsible for their attenuated fusogenic phenotype. Park SB, Khan M, Chiliveri SC, Hu X, Irvin P, Leek M, Grieshaber A, Hu Z, Jang ES, Bax A, Liang TJ. Commun Biol 6 556 (2023)
  107. Effective chimeric antigen receptor T cells against SARS-CoV-2. Guo X, Kazanova A, Thurmond S, Saragovi HU, Rudd CE. iScience 24 103295 (2021)
  108. High-resolution mapping reveals the mechanism and contribution of genome insertions and deletions to RNA virus evolution. Aguilar Rangel M, Dolan PT, Taguwa S, Xiao Y, Andino R, Frydman J. Proc Natl Acad Sci U S A 120 e2304667120 (2023)
  109. Modeling in the Time of COVID-19: Statistical and Rule-based Mesoscale Models. Nguyen N, Strnad O, Klein T, Luo D, Alharbi R, Wonka P, Maritan M, Mindek P, Autin L, Goodsell DS, Viola I. IEEE Trans Vis Comput Graph 27 722-732 (2021)
  110. O-Linked Sialoglycans Modulate the Proteolysis of SARS-CoV-2 Spike and Likely Contribute to the Mutational Trajectory in Variants of Concern. Gonzalez-Rodriguez E, Zol-Hanlon M, Bineva-Todd G, Marchesi A, Skehel M, Mahoney KE, Roustan C, Borg A, Di Vagno L, Kjær S, Wrobel AG, Benton DJ, Nawrath P, Flitsch SL, Joshi D, González-Ramírez AM, Wilkinson KA, Wilkinson RJ, Wall EC, Hurtado-Guerrero R, Malaker SA, Schumann B. ACS Cent Sci 9 393-404 (2023)
  111. Proviral role of human respiratory epithelial cell-derived small extracellular vesicles in SARS-CoV-2 infection. Berry F, Morin-Dewaele M, Majidipur A, Jamet T, Bartier S, Ignjatovic E, Toniutti D, Gaspar Lopes J, Soyeux-Porte P, Maillé P, Saldana C, Brillet R, Ahnou N, Softic L, Couturaud B, Huet É, Ahmed-Belkacem A, Fourati S, Louis B, Coste A, Béquignon É, de la Taille A, Destouches D, Vacherot F, Pawlotsky JM, Firlej V, Bruscella P. J Extracell Vesicles 11 e12269 (2022)
  112. Targeting the Spike Receptor Binding Domain Class V Cryptic Epitope by an Antibody with Pan-Sarbecovirus Activity. Jensen JL, Sankhala RS, Dussupt V, Bai H, Hajduczki A, Lal KG, Chang WC, Martinez EJ, Peterson CE, Golub ES, Rees PA, Mendez-Rivera L, Zemil M, Kavusak E, Mayer SV, Wieczorek L, Kannan S, Doranz BJ, Davidson E, Yang ES, Zhang Y, Chen M, Choe M, Wang L, Gromowski GD, Koup RA, Michael NL, Polonis VR, Rolland M, Modjarrad K, Krebs SJ, Joyce MG. J Virol 97 e0159622 (2023)
  113. 3044 Cases reveal important prognosis signatures of COVID-19 patients. Qin S, Li W, Shi X, Wu Y, Wang C, Shen J, Pang R, He B, Zhao J, Qiao Q, Luo T, Guo Y, Yang Y, Han Y, Wu Q, Wu J, Dai W, Zhang L, Chen L, Xue C, Jin P, Gan Z, Ma F, Xia X. Comput Struct Biotechnol J 19 1163-1175 (2021)
  114. A highly immunogenic live-attenuated vaccine candidate prevents SARS-CoV-2 infection and transmission in hamsters. Li XF, Cui Z, Fan H, Chen Q, Cao L, Qiu HY, Zhang NN, Xu YP, Zhang RR, Zhou C, Ye Q, Deng YQ, Guo Y, Qin S, Fan K, Wang L, Jia Z, Cui Y, Wang X, Qin CF. Innovation (Camb) 3 100221 (2022)
  115. Cryo-EM reveals binding of linoleic acid to SARS-CoV-2 spike glycoprotein, suggesting an antiviral treatment strategy. Toelzer C, Gupta K, Berger I, Schaffitzel C. Acta Crystallogr D Struct Biol 79 111-121 (2023)
  116. Genomic screening of 16 UK native bat species through conservationist networks uncovers coronaviruses with zoonotic potential. Tan CCS, Trew J, Peacock TP, Mok KY, Hart C, Lau K, Ni D, Orme CDL, Ransome E, Pearse WD, Coleman CM, Bailey D, Thakur N, Quantrill JL, Sukhova K, Richard D, Kahane L, Woodward G, Bell T, Worledge L, Nunez-Mino J, Barclay W, van Dorp L, Balloux F, Savolainen V. Nat Commun 14 3322 (2023)
  117. Haplotype distribution of SARS-CoV-2 variants in low and high vaccination rate countries during ongoing global COVID-19 pandemic in early 2021. Bui NN, Lin YT, Huang SH, Lin CW. Infect Genet Evol 97 105164 (2022)
  118. HiSpike Method for High-Throughput Cost Effective Sequencing of the SARS-CoV-2 Spike Gene. Fass E, Zizelski Valenci G, Rubinstein M, Freidlin PJ, Rosencwaig S, Kutikov I, Werner R, Ben-Tovim N, Bucris E, Erster O, Zuckerman NS, Mor O, Mendelson E, Dveyrin Z, Rorman E, Nissan I. Front Med (Lausanne) 8 798130 (2021)
  119. Host range, transmissibility and antigenicity of a pangolin coronavirus. Hou YJ, Chiba S, Leist SR, Meganck RM, Martinez DR, Schäfer A, Catanzaro NJ, Sontake V, West A, Edwards CE, Yount B, Lee RE, Gallant SC, Zost SJ, Powers J, Adams L, Kong EF, Mattocks M, Tata A, Randell SH, Tata PR, Halfmann P, Crowe JE, Kawaoka Y, Baric RS. Nat Microbiol 8 1820-1833 (2023)
  120. Limited cross-species virus transmission in a spatially restricted coral reef fish community. Costa VA, Bellwood DR, Mifsud JCO, Van Brussel K, Geoghegan JL, Holmes EC, Harvey E. Virus Evol 9 vead011 (2023)
  121. Population immunity predicts evolutionary trajectories of SARS-CoV-2. Meijers M, Ruchnewitz D, Eberhardt J, Łuksza M, Lässig M. Cell 186 5151-5164.e13 (2023)
  122. SARS-CoV-2 gained a novel spike protein S1-N-Terminal Domain (S1-NTD). Desingu PA, Nagarajan K, Dhama K. Environ Res 211 113047 (2022)
  123. Alpha-Soluble NSF Attachment Protein Prevents the Cleavage of the SARS-CoV-2 Spike Protein by Functioning as an Interferon-Upregulated Furin Inhibitor. Wang J, Luo J, Wen Z, Wang X, Shuai L, Zhong G, Wang C, Sun Z, Chen W, Ge J, Liu R, Wang X, Bu Z. mBio 13 e0244321 (2022)
  124. Correlation between the binding affinity and the conformational entropy of nanobody SARS-CoV-2 spike protein complexes. Mikolajek H, Weckener M, Brotzakis ZF, Huo J, Dalietou EV, Le Bas A, Sormanni P, Harrison PJ, Ward PN, Truong S, Moynie L, Clare DK, Dumoux M, Dormon J, Norman C, Hussain N, Vogirala V, Owens RJ, Vendruscolo M, Naismith JH. Proc Natl Acad Sci U S A 119 e2205412119 (2022)
  125. Electron cryotomography of SARS-CoV-2 virions reveals cylinder-shaped particles with a double layer RNP assembly. Calder LJ, Calcraft T, Hussain S, Harvey R, Rosenthal PB. Commun Biol 5 1210 (2022)
  126. Evaluation of protein descriptors in computer-aided rational protein engineering tasks and its application in property prediction in SARS-CoV-2 spike glycoprotein. Lim H, Jeon HN, Lim S, Jang Y, Kim T, Cho H, Pan JG, No KT. Comput Struct Biotechnol J 20 788-798 (2022)
  127. Lysozyme Protects Against Severe Acute Respiratory Syndrome Coronavirus 2 Infection and Inflammation in Human Corneal Epithelial Cells. Song Y, Zhang H, Zhu Y, Zhao X, Lei Y, Zhou W, Yu J, Dong X, Wang X, Du M, Yan H. Invest Ophthalmol Vis Sci 63 16 (2022)
  128. Mechanistic Origin of Different Binding Affinities of SARS-CoV and SARS-CoV-2 Spike RBDs to Human ACE2. Zhang ZB, Xia YL, Shen JX, Du WW, Fu YX, Liu SQ. Cells 11 1274 (2022)
  129. Occurrence of a substitution or deletion of SARS-CoV-2 spike amino acid 677 in various lineages in Marseille, France. Colson P, Delerce J, Burel E, Beye M, Fournier PE, Levasseur A, Lagier JC, Raoult D. Virus Genes 58 53-58 (2022)
  130. Profiling COVID-19 Genetic Research: A Data-Driven Study Utilizing Intelligent Bibliometrics. Wu M, Zhang Y, Grosser M, Tipper S, Venter D, Lin H, Lu J. Front Res Metr Anal 6 683212 (2021)
  131. Progressive membrane-binding mechanism of SARS-CoV-2 variant spike proteins. Overduin M, Kervin TA, Tran A. iScience 25 104722 (2022)
  132. Pseudotyped Bat Coronavirus RaTG13 is efficiently neutralised by convalescent sera from SARS-CoV-2 infected patients. Cantoni D, Mayora-Neto M, Thakur N, Elrefaey AME, Newman J, Vishwanath S, Nadesalingam A, Chan A, Smith P, Castillo-Olivares J, Baxendale H, Charleston B, Heeney J, Bailey D, Temperton N. Commun Biol 5 409 (2022)
  133. Myotis fimbriatus Virome, a Window to Virus Diversity and Evolution in the Genus Myotis. Armero A, Li R, Bienes KM, Chen X, Li J, Xu S, Chen Y, Hughes AC, Berthet N, Wong G. Viruses 14 1899 (2022)
  134. Carbohydrate-binding protein from stinging nettle as fusion inhibitor for SARS-CoV-2 variants of concern. Vanhulle E, D'huys T, Provinciael B, Stroobants J, Camps A, Noppen S, Schols D, Van Damme EJM, Maes P, Stevaert A, Vermeire K. Front Cell Infect Microbiol 12 989534 (2022)
  135. Disulfide stabilization reveals conserved dynamic features between SARS-CoV-1 and SARS-CoV-2 spikes. Zhang X, Li Z, Zhang Y, Liu Y, Wang J, Liu B, Chen Q, Wang Q, Fu L, Wang P, Zhong X, Jin L, Yan Q, Chen L, He J, Zhao J, Xiong X. Life Sci Alliance 6 e202201796 (2023)
  136. Effect of polymorphism in Rhinolophus affinis ACE2 on entry of SARS-CoV-2 related bat coronaviruses. Li P, Hu J, Liu Y, Ou X, Mu Z, Lu X, Zan F, Cao M, Tan L, Dong S, Zhou Y, Lu J, Jin Q, Wang J, Wu Z, Zhang Y, Qian Z. PLoS Pathog 19 e1011116 (2023)
  137. Host susceptibility and structural and immunological insight of S proteins of two SARS-CoV-2 closely related bat coronaviruses. Ou X, Xu G, Li P, Liu Y, Zan F, Liu P, Hu J, Lu X, Dong S, Zhou Y, Mu Z, Wu Z, Wang J, Jin Q, Liu P, Lu J, Wang X, Qian Z. Cell Discov 9 78 (2023)
  138. In Silico Protein Folding Prediction of COVID-19 Mutations and Variants. Bhowmick S, Jing T, Wang W, Zhang EY, Zhang F, Yang Y. Biomolecules 12 1665 (2022)
  139. Intranasal immunization with avian paramyxovirus type 3 expressing SARS-CoV-2 spike protein protects hamsters against SARS-CoV-2. Park HS, Matsuoka Y, Luongo C, Yang L, Santos C, Liu X, Ahlers LRH, Moore IN, Afroz S, Johnson RF, Lafont BAP, Dorward DW, Fischer ER, Martens C, Samal SK, Munir S, Buchholz UJ, Le Nouën C. NPJ Vaccines 7 72 (2022)
  140. Network analysis uncovers the communication structure of SARS-CoV-2 spike protein identifying sites for immunogen design. Manrique PD, Chakraborty S, Henderson R, Edwards RJ, Mansbach R, Nguyen K, Stalls V, Saunders C, Mansouri K, Acharya P, Korber B, Gnanakaran S. iScience 26 105855 (2023)
  141. Structural effects of spike protein D614G mutation in SARS-CoV-2. Dokainish HM, Sugita Y. Biophys J 122 2910-2920 (2023)
  142. The Possible Role of Microbial Proteases in Facilitating SARS-CoV-2 Brain Invasion. Mjokane N, Folorunso OS, Ogundeji AO, Sebolai OM. Biology (Basel) 10 966 (2021)
  143. Total escape of SARS-CoV-2 from dual monoclonal antibody therapy in an immunocompromised patient. Jaki L, Weigang S, Kern L, Kramme S, Wrobel AG, Grawitz AB, Nawrath P, Martin SR, Dähne T, Beer J, Disch M, Kolb P, Gutbrod L, Reuter S, Warnatz K, Schwemmle M, Gamblin SJ, Neumann-Haefelin E, Schnepf D, Welte T, Kochs G, Huzly D, Panning M, Fuchs J. Nat Commun 14 1999 (2023)
  144. Uncovering the Role of N-Glycan Occupancy on the Cooperative Assembly of Spike and Angiotensin Converting Enzyme 2 Complexes: Insights from Glycoengineering and Native Mass Spectrometry. El-Baba TJ, Lutomski CA, Burnap SA, Bolla JR, Baker LA, Baldwin AJ, Struwe WB, Robinson CV. J Am Chem Soc 145 8021-8032 (2023)
  145. Vaccinia Virus Strain MVA Expressing a Prefusion-Stabilized SARS-CoV-2 Spike Glycoprotein Induces Robust Protection and Prevents Brain Infection in Mouse and Hamster Models. Lorenzo MM, Marín-López A, Chiem K, Jimenez-Cabello L, Ullah I, Utrilla-Trigo S, Calvo-Pinilla E, Lorenzo G, Moreno S, Ye C, Park JG, Matía A, Brun A, Sánchez-Puig JM, Nogales A, Mothes W, Uchil PD, Kumar P, Ortego J, Fikrig E, Martinez-Sobrido L, Blasco R. Vaccines (Basel) 11 1006 (2023)
  146. Antibody targeting of conserved sites of vulnerability on the SARS-CoV-2 spike receptor-binding domain. Sankhala RS, Dussupt V, Chen WH, Bai H, Martinez EJ, Jensen JL, Rees PA, Hajduczki A, Chang WC, Choe M, Yan L, Sterling SL, Swafford I, Kuklis C, Soman S, King J, Corbitt C, Zemil M, Peterson CE, Mendez-Rivera L, Townsley SM, Donofrio GC, Lal KG, Tran U, Green EC, Smith C, de Val N, Laing ED, Broder CC, Currier JR, Gromowski GD, Wieczorek L, Rolland M, Paquin-Proulx D, van Dyk D, Britton Z, Rajan S, Loo YM, McTamney PM, Esser MT, Polonis VR, Michael NL, Krebs SJ, Modjarrad K, Joyce MG. Structure 32 131-147.e7 (2024)
  147. Conformational stability of SARS-CoV-2 glycoprotein spike variants. Arruda HRS, Lima TM, Alvim RGF, Victorio FBA, Abreu DPB, Marsili FF, Cruz KD, Marques MA, Sosa-Acosta P, Quinones-Vega M, de S Guedes J, Nogueira FCS, Silva JL, Castilho LR, de Oliveira GAP. iScience 26 105696 (2023)
  148. Molecular dynamics simulations explore effects of electric field orientations on spike proteins of SARS-CoV-2 virions. Kuang Z, Luginsland J, Thomas RJ, Dennis PB, Kelley-Loughnane N, Roach WP, Naik RR. Sci Rep 12 12986 (2022)
  149. Multifaceted membrane binding head of the SARS-CoV-2 spike protein. Tran A, Kervin TA, Overduin M. Curr Res Struct Biol 4 146-157 (2022)
  150. Mutagenic Distinction between the Receptor-Binding and Fusion Subunits of the SARS-CoV-2 Spike Glycoprotein and Its Upshot. Penner RC. Vaccines (Basel) 9 1509 (2021)
  151. Viral and Host Attributes Underlying the Origins of Zoonotic Coronaviruses in Bats. Stout AE, Guo Q, Millet JK, Whittaker GR. Comp Med 71 442-450 (2021)
  152. Chronic shedding of a SARS-CoV-2 Alpha variant in wastewater. Conway MJ, Yang H, Revord LA, Novay MP, Lee RJ, Ward AS, Abel JD, Williams MR, Uzarski RL, Alm EW. BMC Genomics 25 59 (2024)
  153. Determinants of species-specific utilization of ACE2 by human and animal coronaviruses. Wang Q, Noettger S, Xie Q, Pastorio C, Seidel A, Müller JA, Jung C, Jacob T, Sparrer KMJ, Zech F, Kirchhoff F. Commun Biol 6 1051 (2023)
  154. Evaluating the effect of SARS-CoV-2 spike mutations with a linear doubly robust learner. Wang X, Hu M, Liu B, Xu H, Jin Y, Wang B, Zhao Y, Wu J, Yue J, Ren H. Front Cell Infect Microbiol 13 1161445 (2023)
  155. Host and viral determinants of airborne transmission of SARS-CoV-2 in the Syrian hamster. Port JR, Morris DH, Riopelle JC, Yinda CK, Avanzato VA, Holbrook MG, Bushmaker T, Schulz JE, Saturday TA, Barbian K, Russell CA, Perry-Gottschalk R, Shaia C, Martens C, Lloyd-Smith JO, Fischer RJ, Munster VJ. Elife 12 RP87094 (2024)
  156. Natural selection plays a significant role in governing the codon usage bias in the novel SARS-CoV-2 variants of concern (VOC). Tyagi N, Sardar R, Gupta D. PeerJ 10 e13562 (2022)
  157. SARS-CoV-2 S Mutations: A Lesson from the Viral World to Understand How Human Furin Works. Cassari L, Pavan A, Zoia G, Chinellato M, Zeni E, Grinzato A, Rothenberger S, Cendron L, Dettin M, Pasquato A. Int J Mol Sci 24 4791 (2023)
  158. SARS-CoV-2 spike variants differ in their allosteric responses to linoleic acid. Oliveira ASF, Shoemark DK, Davidson AD, Berger I, Schaffitzel C, Mulholland AJ. J Mol Cell Biol 15 mjad021 (2023)
  159. Subgenomic RNA profiling suggests novel mechanism in coronavirus gene regulation and host adaption. Lyu L, Feng R, Zhang M, Xie X, Liao Y, Zhou Y, Guo X, Su B, Dorsett Y, Chen L. Life Sci Alliance 5 e202101347 (2022)
  160. Through an ecological lens: An ecosystem-based approach to zoonotic risk assessment: An ecosystem-based approach to zoonotic risk assessment. Petrone ME, Holmes EC, Harvey E. EMBO Rep 24 e56578 (2023)
  161. A pangolin-origin SARS-CoV-2-related coronavirus: infectivity, pathogenicity, and cross-protection by preexisting immunity. Huang XY, Chen Q, Sun MX, Zhou HY, Ye Q, Chen W, Peng JY, Qi YN, Zhai JQ, Tian Y, Liu ZX, Huang YJ, Deng YQ, Li XF, Wu A, Yang X, Yang G, Shen Y, Qin CF. Cell Discov 9 59 (2023)
  162. Biophysical investigation of interactions between SARS-CoV-2 spike protein and neuropilin-1. Hou D, Cao W, Kim S, Cui X, Ziarnik M, Im W, Zhang XF. Protein Sci 32 e4773 (2023)
  163. Commentary: Lethal Pneumonia Cases in Mojiang Miners (2012) and the Mineshaft Could Provide Important Clues to the Origin of SARS-CoV-2. Speciale AC. Front Public Health 9 702199 (2021)
  164. Computational modeling of protein conformational changes - Application to the opening SARS-CoV-2 spike. Kucherova A, Strango S, Sukenik S, Theillard M. J Comput Phys 444 110591 (2021)
  165. Effect of the Graphene Nanosheet on Functions of the Spike Protein in Open and Closed States: Comparison between SARS-CoV-2 Wild Type and the Omicron Variant. Yan ZS, Li XL, Ma YQ, Ding HM. Langmuir 38 13972-13982 (2022)
  166. Epitope-directed anti-SARS-CoV-2 scFv engineered against the key spike protein region could block membrane fusion. Jaiswal D, Kumar U, Gaur V, Salunke DM. Protein Sci 32 e4575 (2023)
  167. Establishment of angiotensin-converting enzyme 2 and cluster of differentiation 147 dual target cell membrane chromatography based on SNAP-tag technology for screening anti severe acute respiratory syndrome coronavirus 2 active components. Wang H, Jia Q, Feng J, Miao C, Ding Y, Liu S, Feng C, Lv Y, Huang J, Han S. J Chromatogr A 1693 463903 (2023)
  168. Genome characterization based on the Spike-614 and NS8-84 loci of SARS-CoV-2 reveals two major possible onsets of the COVID-19 pandemic. Hu X, Mu Y, Deng R, Yi G, Yao L, Zhang J. PLoS One 18 e0279221 (2023)
  169. Genomic Cues From Beta-Coronaviruses and Mammalian Hosts Sheds Light on Probable Origins and Infectivity of SARS-CoV-2 Causing COVID-19. Narh CA. Front Genet 11 902 (2020)
  170. Genomic Determinants Potentially Associated with Clinical Manifestations of Human-Pathogenic Tick-Borne Flaviviruses. Bondaryuk AN, Kulakova NV, Potapova UV, Belykh OI, Yudinceva AV, Bukin YS. Int J Mol Sci 23 13404 (2022)
  171. Heme binding to the SARS-CoV-2 spike glycoprotein. Freeman SL, Oliveira ASF, Gallio AE, Rosa A, Simitakou MK, Arthur CJ, Mulholland AJ, Cherepanov P, Raven EL. J Biol Chem 299 105014 (2023)
  172. Lys417 acts as a molecular switch that regulates the conformation of SARS-CoV-2 spike protein. Geng Q, Wan Y, Hsueh FC, Shang J, Ye G, Bu F, Herbst M, Wilkens R, Liu B, Li F. Elife 12 e74060 (2023)
  173. Persistent cross-species SARS-CoV-2 variant infectivity predicted via comparative molecular dynamics simulation. Rajendran M, Babbitt GA. R Soc Open Sci 9 220600 (2022)
  174. Recombinant Decoy Exhibits Broad Protection against Omicron and Resistance Potential to Future Variants. Tang H, Ke Y, Wang L, Wu M, Sun T, Zhu J. Pharmaceuticals (Basel) 15 1002 (2022)
  175. Spike N354 glycosylation augments SARS-CoV-2 fitness for human adaptation through structural plasticity. Liu P, Yue C, Meng B, Xiao T, Yang S, Liu S, Jian F, Zhu Q, Yu Y, Ren Y, Wang P, Li Y, Wang J, Mao X, Shao F, Wang Y, Gupta RK, Cao Y, Wang X. Natl Sci Rev 11 nwae206 (2024)
  176. Study of protease-mediated processes initiating viral infection and cell-cell viral spreading of SARS-CoV-2. Thaingtamtanha T, Baeurle SA. J Mol Model 28 224 (2022)
  177. The high mutation rate at the D614G hotspot-furin cleavage site region increases the priming efficiency of the Spike protein by furin protease: analysis of Indonesian SARS-CoV-2 G614 variants obtained during the early COVID-19 pandemic. Gazali FM, Wijayanti N, Hakim MS, Supriyati E, Arguni E, Daniwijaya MEW, Nuryastuti T, Nuhamunada M, Nabilla R, Haryana SM, Wibawa T. Virusdisease 1-10 (2023)
  178. Topological data analysis of protein structure and inter/intra-molecular interaction changes attributable to amino acid mutations. Koseki J, Hayashi S, Kojima Y, Hirose H, Shimamura T. Comput Struct Biotechnol J 21 2950-2959 (2023)
  179. Understanding the role of conserved proline and serine residues in the SARS-CoV-2 spike cleavage sites in the virus entry, fusion, and infectivity. Khatri R, Lohiya B, Kaur G, Maithil V, Goswami A, Sarmadhikari D, Asthana S, Samal S. 3 Biotech 13 323 (2023)
  180. Altered hACE2 binding affinity and S1/S2 cleavage efficiency of SARS-CoV-2 spike protein mutants affect viral cell entry. Wang K, Pan Y, Wang D, Yuan Y, Li M, Chen Y, Bi L, Zhang XE. Virol Sin 38 595-605 (2023)
  181. Computational Modeling of T Cell Hypersensitivity during Coronavirus Infections Leading to Autoimmunity and Lethality. Celebi AT, Uzel G, Oylumlu E, Baykasoglu C, Mugan A, Joly S, Ciraci C. Comput Math Methods Med 2022 9444502 (2022)
  182. Conformational variability of loops in the SARS-CoV-2 spike protein. Wong SWK, Liu Z. Proteins 90 691-703 (2022)
  183. Cross-Neutralization of SARS-CoV-2-Specific Antibodies in Convalescent and Immunized Human Sera against the Bat and Pangolin Coronaviruses. Srisutthisamphan K, Saenboonrueng J, Wanitchang A, Viriyakitkosol R, Jongkaewwattana A. Viruses 14 1793 (2022)
  184. Discovering covalent inhibitors of protein-protein interactions from trillions of sulfur(VI) fluoride exchange-modified oligonucleotides. Qin Z, Zhang K, He P, Zhang X, Xie M, Fu Y, Gu C, Zhu Y, Tong A, Wei H, Zhang C, Xiang Y. Nat Chem 15 1705-1714 (2023)
  185. Heparin Inhibits SARS-CoV-2 Replication in Human Nasal Epithelial Cells. Lee LYY, Suryadinata R, McCafferty C, Ignjatovic V, Purcell DFJ, Robinson P, Morton CJ, Parker MW, Anderson GP, Monagle P, Subbarao K, Neil JA. Viruses 14 2620 (2022)
  186. Methotrexate inhibition of SARS-CoV-2 entry, infection and inflammation revealed by bioinformatics approach and a hamster model. Chen YT, Chang YH, Pathak N, Tzou SC, Luo YC, Hsu YC, Li TN, Lee JY, Chen YC, Huang YW, Yang HJ, Hsu NY, Tsai HP, Chang TY, Hsu SC, Liu PC, Chin YF, Lin WC, Yang CM, Wu HL, Lee CY, Hsu HL, Liu YC, Chu JW, Wang LH, Wang JY, Huang CH, Lin CH, Hsieh PS, Wu Lee YH, Hung YJ, Yang JM. Front Immunol 13 1080897 (2022)
  187. Neuropilin-1 Protein May Serve as a Receptor for SARS-CoV-2 Infection: Evidence from Molecular Dynamics Simulations. Nguyen HL, Hieu HK, Nguyen TQ, Nhung NTA, Li MS. J Phys Chem B 128 7141-7147 (2024)
  188. SARS-CoV-2 spike protein reduces burst activities in neurons measured by micro-electrode arrays. Salvador M, Tseng N, Park C, Williams G, Vethan A, Thomas G, Baker J, Hemry J, Hammond E, Freeburg P, Chou GW, Taylor N, Lu YF. Ann Med Surg (Lond) 85 3469-3476 (2023)
  189. Stabilization of the Metastable Pre-Fusion Conformation of the SARS-CoV-2 Spike Glycoprotein through N-Linked Glycosylation of the S2 Subunit. Zan F, Zhou Y, Chen T, Chen Y, Mu Z, Qian Z, Ou X. Viruses 16 223 (2024)
  190. Structural and functional characterization of nanobodies that neutralize Omicron variants of SARS-CoV-2. Cornish K, Huo J, Jones L, Sharma P, Thrush JW, Abdelkarim S, Kipar A, Ramadurai S, Weckener M, Mikolajek H, Liu S, Buckle I, Bentley E, Kirby A, Han X, Laidlaw SM, Hill M, Eyssen L, Norman C, Le Bas A, Clarke J, James W, Stewart JP, Carroll M, Naismith JH, Owens RJ. Open Biol 14 230252 (2024)
  191. Temporal-Geographical Dispersion of SARS-CoV-2 Spike Glycoprotein Variant Lineages and Their Functional Prediction Using in Silico Approach. Boon SS, Xia C, Wang MH, Yip KL, Luk HY, Li S, Ng RWY, Lai CKC, Chan PKS, Chen Z. mBio 12 e0268721 (2021)
  192. The Local Topological Free Energy of the SARS-CoV-2 Spike Protein. Baldwin Q, Sumpter B, Panagiotou E. Polymers (Basel) 14 3014 (2022)
  193. Differential Ability of Spike Protein of SARS-CoV-2 Variants to Downregulate ACE2. Maeda Y, Toyoda M, Kuwata T, Terasawa H, Tokugawa U, Monde K, Sawa T, Ueno T, Matsushita S. Int J Mol Sci 25 1353 (2024)
  194. Evolution of SARS-CoV-2 in the murine central nervous system drives viral diversification. Class J, Simons LM, Lorenzo-Redondo R, Achi JG, Cooper L, Dangi T, Penaloza-MacMaster P, Ozer EA, Lutz SE, Rong L, Hultquist JF, Richner JM. Nat Microbiol 9 2383-2394 (2024)
  195. Expression of TMPRSS2 is up-regulated by bacterial flagellin, LPS, and Pam3Cys in human airway cells. Schwerdtner M, Skalik A, Limburg H, Bierwagen J, Jung AL, Dorna J, Kaufmann A, Bauer S, Schmeck B, Böttcher-Friebertshäuser E. Life Sci Alliance 6 e202201813 (2023)
  196. Host Manipulation Mechanisms of SARS-CoV-2. Massey SE. Acta Biotheor 70 4 (2021)
  197. Identification of Leading Compounds from Euphorbia neriifolia (Dudsor) Extracts as a Potential Inhibitor of SARS-CoV-2 ACE2-RBDS1 Receptor Complex: An Insight from Molecular Docking ADMET Profiling and MD-simulation Studies. Islam MN, Pramanik MEA, Hossain MA, Rahman MH, Hossen MS, Islam MA, Miah MMZ, Ahmed I, Hossain AM, Haque MJ, Islam AM, Ali MN, Jahan RA, Haque ME, Rahman MM, Hasan MS, Rahman MM, Kabir MM, Basak PM, Sarkar MAM, Islam MS, Rahman MR, Prodhan AA, Mosaddik A, Haque H, Fahmin F, Das HS, Islam MM, Emtia C, Gofur MR, Liang A, Akbar SMF. Euroasian J Hepatogastroenterol 13 89-107 (2023)
  198. Insight into the origin of SARS-CoV-2 through structural analysis of receptor recognition: a molecular simulation study. Sun J, Liu M, Yang N. RSC Adv 11 8718-8729 (2021)
  199. Mapping the Evolutionary Space of SARS-CoV-2 Variants to Anticipate Emergence of Subvariants Resistant to COVID-19 Therapeutics. Rojas Chávez RA, Fili M, Han C, Rahman SA, Bicar IGL, Gregory S, Helverson A, Hu G, Darbro BW, Das J, Brown GD, Haim H. PLoS Comput Biol 20 e1012215 (2024)
  200. Personal observations on COVID-19 and the conduct and application of biomedical science. Smith JC, Goodhew DW. Interface Focus 11 20210053 (2021)
  201. Recombination-aware phylogenetic analysis sheds light on the evolutionary origin of SARS-CoV-2. Esquivel Gomez LR, Weber A, Kocher A, Kühnert D. Sci Rep 14 541 (2024)
  202. SARS-CoV-2 host prediction based on virus-host genetic features. Kawashima IY, Lopez MCN, Cunha MDP, Hashimoto RF. Sci Rep 12 4576 (2022)
  203. Sequential glycosylations at the multibasic cleavage site of SARS-CoV-2 spike protein regulate viral activity. Wang S, Ran W, Sun L, Fan Q, Zhao Y, Wang B, Yang J, He Y, Wu Y, Wang Y, Chen L, Chuchuay A, You Y, Zhu X, Wang X, Chen Y, Wang Y, Chen YQ, Yuan Y, Zhao J, Mao Y. Nat Commun 15 4162 (2024)
  204. Some mechanistic underpinnings of molecular adaptations of SARS-COV-2 spike protein by integrating candidate adaptive polymorphisms with protein dynamics. Ose NJ, Campitelli P, Modi T, Kazan IC, Kumar S, Ozkan SB. Elife 12 RP92063 (2024)
  205. Structural determinants of spike infectivity in bat SARS-like coronaviruses RsSHC014 and WIV1. Qiao S, Wang X. J Virol 98 e0034224 (2024)
  206. The Cellular Characterization of SARS-CoV-2 Spike Protein in Virus-Infected Cells Using the Receptor Binding Domain Binding Specific Human Monoclonal Antibodies. Chan CE, Ng CG, Lim AP, Seah SL, Chye DH, Wong SK, Lim JH, Lim VZ, Lai SK, Wong PS, Leong KM, Liu YC, Sugrue RJ, Tan BH. J Virol 96 e0045522 (2022)
  207. The SARS-CoV-2 Spike Protein Mutation Explorer: using an interactive application to improve the public understanding of SARS-CoV-2 variants of concern. Iannucci S, Harvey WT, Hughes J, Robertson DL, Poyade M, Hutchinson E. J Vis Commun Med 46 122-132 (2023)
  208. Variation in structural motifs within SARS-related coronavirus spike proteins. Hills FR, Eruera AR, Hodgkinson-Bean J, Jorge F, Easingwood R, Brown SHJ, Bouwer JC, Li YP, Burga LN, Bostina M. PLoS Pathog 20 e1012158 (2024)