Structures and functions of coronavirus replication–transcription complexes and their relevance for SARS-CoV-2 drug design

B Malone, N Urakova, EJ Snijder… - … Reviews Molecular Cell …, 2022 - nature.com
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has killed millions of
people and continues to cause massive global upheaval. Coronaviruses are positive-strand …

Insertions and deletions (indels): a missing piece of the protein engineering jigsaw

CM Miton, N Tokuriki - Biochemistry, 2022 - ACS Publications
Over the years, protein engineers have studied nature and borrowed its tricks to accelerate
protein evolution in the test tube. While there have been considerable advances, our ability …

High-resolution mapping reveals the mechanism and contribution of genome insertions and deletions to RNA virus evolution

M Aguilar Rangel, PT Dolan… - Proceedings of the …, 2023 - National Acad Sciences
RNA viruses rapidly adapt to selective conditions due to the high intrinsic mutation rates of
their RNA-dependent RNA polymerases (RdRps). Insertions and deletions (indels) in viral …

Omicron variant of SARS-CoV-2 harbors a unique insertion mutation of putative viral or human genomic origin

AJ Venkatakrishnan, P Anand, P Lenehan, R Suratekar… - 2021 - osf.io
The emergence of a heavily mutated SARS-CoV-2 variant (B. 1.1. 529, Omicron) and it's
spread to 6 continents within a week of initial discovery has set off a global public health …

Template switching and duplications in SARS-CoV-2 genomes give rise to insertion variants that merit monitoring

SK Garushyants, IB Rogozin, EV Koonin - Communications biology, 2021 - nature.com
The appearance of multiple new SARS-CoV-2 variants during the COVID-19 pandemic is a
matter of grave concern. Some of these variants, such as B. 1.617. 2, B. 1.1. 7, and B. 1.351 …

Emergence of a recurrent insertion in the N-terminal domain of the SARS-CoV-2 spike glycoprotein

M Gerdol, K Dishnica, A Giorgetti - Virus research, 2022 - Elsevier
Tracking the evolution of the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-
2) through genomic surveillance programs is undoubtedly one of the key priorities in the …

Correlated substitutions reveal SARS-like coronaviruses recombine frequently with a diverse set of structured gene pools

A Preska Steinberg, OK Silander… - Proceedings of the …, 2023 - National Acad Sciences
Quantifying SARS-like coronavirus (SL-CoV) evolution is critical to understanding the origins
of SARS-CoV-2 and the molecular processes that could underlie future epidemic viruses …

[HTML][HTML] The mutational dynamics of the SARS-CoV-2 virus in serial passages in vitro

ST Sonnleitner, S Sonnleitner, E Hinterbichler… - Virologica Sinica, 2022 - Elsevier
Since its outbreak in 2019, Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-
2) keeps surprising the medical community by evolving diverse immune escape mutations in …

Lessons learned and yet-to-Be learned on the importance of RNA structure in SARS-CoV-2 replication

M Bassett, M Salemi, B Rife Magalis - Microbiology and Molecular …, 2022 - Am Soc Microbiol
SUMMARY SARS-CoV-2, the etiological agent responsible for the COVID-19 pandemic, is a
member of the virus family Coronaviridae, known for relatively extensive (~ 30-kb) RNA …

On the origins of omicron's unique spike gene insertion

AJ Venkatakrishnan, P Anand, PJ Lenehan… - Vaccines, 2022 - mdpi.com
The emergence of a heavily mutated SARS-CoV-2 variant (Omicron; Pango lineage B. 1.1.
529 and BA sublineages) and its rapid spread to over 75 countries raised a global public …