• Corpus ID: 237267086

Mutational signatures and transmissibility of SARS-CoV-2 Gamma and Lambda variants

@inproceedings{Orostica2021MutationalSA,
  title={Mutational signatures and transmissibility of SARS-CoV-2 Gamma and Lambda variants},
  author={Karen Y. Or'ostica and Sebasti{\'a}n Contreras and Sebastian B. Mohr and Jonas Dehning and Simone Bauer and David Medina-Ortiz and Emil N Iftekhar and Karen Mujica and Paulo C. Covarrubias and Soledad Ulloa and Andr{\'e}s E. Castillo and Ricardo A. Verdugo and Jorge Mozo Fern'andez and 'Alvaro Olivera-Nappa and Viola Priesemann},
  year={2021}
}
The emergence of SARS-CoV-2 variants of concern endangers the long-term control of COVID-19, especially in countries with limited genomic surveillance. In this work, we explored genomic drivers of contagion in Chile. We sequenced 3443 SARS-CoV-2 genomes collected between January and July 2021, where the Gamma (P.1), Lambda (C.37), Alpha (B.1.1.7), B.1.1.348, and B.1.1 lineages were predominant. Using a Bayesian model tailored for limited genomic surveillance, we found that Lambda and Gamma… 

Figures from this paper

Biological Properties of SARS-CoV-2 Variants: Epidemiological Impact and Clinical Consequences

Key information is examined and provided on SARS-CoV-2 VOCs, including their transmissibility, infectivity rate, disease severity, affinity for angiotensin-converting enzyme 2 (ACE2) receptors, viral load, reproduction number, vaccination effectiveness, and vaccine breakthrough.

Model-based assessment of sampling protocols for infectious disease genomic surveillance

Spike protein of SARS-CoV-2 variants: a brief review and practical implications

The present review highlights the most recent knowledge about COVID-19 and vaccines, emphasizing the different spike protein structures of SARS-CoV-2 and updating the reader about the emerging viral variants and their classifications, the more common viral mutations described and their distribution in Brazil.

Describing a landscape we are yet discovering

At the beginning of the COVID-19 pandemic, very little was known about both the disease and the virus that caused it. As more information became available, the public awareness reached unprecedented

The winter dilemma

To demonstrate the wickedness of the winter dilemma, a standard susceptible-exposed-infectedrecovered (SEIR) model is used with explicit compartments for fatalities, ICUs, and vaccination, and also waning immunity and seasonality is used.

Has Omicron Changed the Evolution of the Pandemic?

At the population level, the Omicron outbreaks occurred more quickly and with larger magnitude, despite substantial increases in vaccinations and prior infections, which should have otherwise reduced susceptibility to new infections.

References

SHOWING 1-10 OF 63 REFERENCES

Estimated transmissibility and impact of SARS-CoV-2 lineage B.1.1.7 in England

The rapid spread of VOC 202012/01 suggests that it transmits more efficiently from person to person than preexisting variants of SARS-CoV-2, which could lead to global surges in COVID-19 hospitalizations and deaths, so there is an urgent need to estimate how much more quickly this variant spreads.

Geographical Distribution of Genetic Variants and Lineages of SARS-CoV-2 in Chile

This work presents the occurrence of genetic variants and lineages of SARS-CoV-2 in Chile during March to April 2020 and revealed a predominance of variant D614G like in Europe and the USA and the major presence of lineage B.

Mutation in a SARS-CoV-2 Haplotype from Sub-Antarctic Chile Reveals New Insights into the Spike’s Dynamics

Comparative coarse-grained molecular dynamic simulations indicated that T307I and D614G belong to a previously unrecognized dynamic domain, interfering with the mobility of the receptor binding domain of the spike.

The Emergence of Sars-CoV-2 Variant Lambda (C.37) in South America

A novel lineage of SARS-CoV-2 in South America, termed C.37, presents a deletion in the ORF1a gene, also found in variants of concern (VOCs) Alpha, Beta, and Gamma, and seven non-synonymous mutations in the Spike gene.

Assessing transmissibility of SARS-CoV-2 lineage B.1.1.7 in England.

It is found that changes in VOC frequency inferred from genetic data correspond closely to changes inferred by S-gene target failures (SGTF) in community-based diagnostic PCR testing and there is a consensus among all analyses that the VOC has a substantial transmission advantage with a 50% to 100% higher reproduction number.

Ongoing Global and Regional Adaptive Evolution of SARS-CoV-2

It is shown that the ongoing evolution of SARS-CoV-2 over the course of the pandemic is characterized primarily by purifying selection but a small set of sites, including spike 614 and nucleocapsid 203-204 appear to evolve under positive selection.

Infectivity and immune escape of the new SARS-CoV-2 variant of interest Lambda

The results indicate that mutations present in the spike protein of the Lambda variant of interest confer increased infectivity and immune escape from neutralizing antibodies elicited by CoronaVac, reinforcing the idea that massive vaccination campaigns in countries with high SARS-CoV-2 circulation must be accompanied by strict genomic surveillance.

Novel and emerging mutations of SARS-CoV-2: Biomedical implications

A dynamic nomenclature proposal for SARS-CoV-2 lineages to assist genomic epidemiology

A rational and dynamic virus nomenclature that uses a phylogenetic framework to identify those lineages that contribute most to active spread and is designed to provide a real-time bird’s-eye view of the diversity of the hundreds of thousands of genome sequences collected worldwide.

First identification of SARS-CoV-2 lambda (C.37) variant in Southern Brazil

The first report of the SARS-CoV-2 Lambda variant in Southern Brazil is described, considering that this VOI has been associated with high rates of transmissibility, the possible spread in the Southern Brazilian community is a matter of concern.
...