SARS-CoV-2 evolution in the Omicron era

C Roemer, DJ Sheward, R Hisner, F Gueli… - Nature …, 2023 - nature.com
Abstract Since SARS-CoV-2 BA. 5 (Omicron) emerged and spread in 2022, Omicron
lineages have markedly diversified. Here we review the evolutionary trajectories and …

The rapid rise of SARS‐CoV‐2 Omicron subvariants with immune evasion properties: XBB. 1.5 and BQ. 1.1 subvariants

D Ao, X He, W Hong, X Wei - MedComm, 2023 - Wiley Online Library
As the fifth variant of concern of the SARS‐CoV‐2 virus, the Omicron variant (B. 1.1. 529)
has quickly become the dominant type among the previous circulating variants worldwide …

Immune evasion and ACE2 binding affinity contribute to SARS-CoV-2 evolution

W Ma, H Fu, F Jian, Y Cao, M Li - Nature Ecology & Evolution, 2023 - nature.com
Mutations in the SARS-CoV-2 genome could confer resistance to pre-existing antibodies
and/or increased transmissibility. The recently emerged Omicron subvariants exhibit a …

Analysis of SARS-CoV-2 mutations associated with resistance to therapeutic monoclonal antibodies that emerge after treatment.

D Focosi, S McConnell, DJ Sullivan… - Drug Resistance Updates, 2023 - Elsevier
The mutation rate of the Omicron sublineage has led to baseline resistance against all
previously authorized anti-Spike monoclonal antibodies (mAbs). Nevertheless, in case more …

[HTML][HTML] Using big sequencing data to identify chronic SARS-Coronavirus-2 infections

S Harari, D Miller, S Fleishon, D Burstein… - Nature …, 2024 - nature.com
The evolution of SARS-Coronavirus-2 (SARS-CoV-2) has been characterized by the
periodic emergence of highly divergent variants. One leading hypothesis suggests these …

[HTML][HTML] Molnupiravir, nirmatrelvir/ritonavir, or sotrovimab for high-risk COVID-19 patients infected by the omicron variant: hospitalization, mortality, and time until …

L Cegolon, R Pol, O Simonetti, F Larese Filon… - Pharmaceuticals, 2023 - mdpi.com
Background. Several drugs which are easy to administer in outpatient settings have been
authorized and endorsed for high-risk COVID-19 patients with mild–moderate disease to …

[HTML][HTML] Divergent trajectory of replication and intrinsic pathogenicity of SARS-CoV-2 Omicron post-BA. 2/5 subvariants in the upper and lower respiratory tract

B Hu, JFW Chan, Y Liu, H Liu, YX Chen, H Shuai… - …, 2024 - thelancet.com
Summary Background Earlier Omicron subvariants including BA. 1, BA. 2, and BA. 5
emerged in waves, with a subvariant replacing the previous one every few months. More …

[HTML][HTML] Balancing functional tradeoffs between protein stability and ACE2 binding in the SARS-CoV-2 omicron BA. 2, BA. 2.75 and XBB lineages: dynamics-based …

G Verkhivker, M Alshahrani, G Gupta - Viruses, 2023 - mdpi.com
Evolutionary and functional studies suggested that the emergence of the Omicron variants
can be determined by multiple fitness trade-offs including the immune escape, binding …

[HTML][HTML] The mutational landscape of SARS-CoV-2

B Saldivar-Espinoza, P Garcia-Segura… - International Journal of …, 2023 - mdpi.com
Mutation research is crucial for detecting and treating SARS-CoV-2 and developing
vaccines. Using over 5,300,000 sequences from SARS-CoV-2 genomes and custom Python …

Markov State Models and Perturbation-Based Approaches Reveal Distinct Dynamic Signatures and Hidden Allosteric Pockets in the Emerging SARS-Cov-2 Spike …

S Xiao, M Alshahrani, G Gupta, P Tao… - Journal of Chemical …, 2023 - ACS Publications
The new generation of SARS-CoV-2 Omicron variants displayed a significant growth
advantage and increased viral fitness by acquiring convergent mutations, suggesting that …