Ongoing global and regional adaptive evolution of SARS-CoV-2

ND Rochman, YI Wolf, G Faure, P Mutz… - Proceedings of the …, 2021 - pnas.org
Understanding the trends in severe acute respiratory syndrome coronavirus 2 (SARS-CoV-
2) evolution is paramount to control the COVID-19 pandemic. We analyzed more than …

[PDF][PDF] Mutation rates and selection on synonymous mutations in SARS-CoV-2

N De Maio, CR Walker, Y Turakhia… - Genome biology and …, 2021 - academic.oup.com
The COVID-19 pandemic has seen an unprecedented response from the sequencing
community. Leveraging the sequence data from more than 140,000 SARS-CoV-2 genomes …

[PDF][PDF] Detection of SARS-CoV-2 variants in Switzerland by genomic analysis of wastewater samples

K Jahn, D Dreifuss, I Topolsky, A Kull… - MedRxiv, 2021 - scholar.archive.org
Abstract The SARS-CoV-2 lineages B. 1.1. 7 and 501. V2, which were first detected in the
United Kingdom and South Africa, respectively, are spreading rapidly in the human …

Detection of SARS-CoV-2 intra-host recombination during superinfection with Alpha and Epsilon variants in New York City

JO Wertheim, JC Wang, M Leelawong… - Nature …, 2022 - nature.com
Recombination is an evolutionary process by which many pathogens generate diversity and
acquire novel functions. Although a common occurrence during coronavirus replication …

Case report: change of dominant strain during dual SARS-CoV-2 infection

AE Samoilov, VV Kaptelova, AY Bukharina… - BMC Infectious …, 2021 - Springer
Background The dual infection with SARS-CoV-2 is poorly described and is currently under
discussion. We present a study of two strains of SARS-CoV-2 detected in the same patient …

Intra-host diversity of SARS-Cov-2 should not be neglected: case of the state of Victoria, Australia

A Armero, N Berthet, JC Avarre - Viruses, 2021 - mdpi.com
Since the identification of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2)
as the etiological agent of the current COVID-19 pandemic, a rapid and massive effort has …

Detection and surveillance of SARS-CoV-2 genomic variants in wastewater

K Jahn, D Dreifuss, I Topolsky, A Kull… - MedRxiv, 2021 - medrxiv.org
The emergence of SARS-CoV-2 mutants with altered transmissibility, virulence, or
immunogenicity emphasizes the need for early detection and epidemiological surveillance …

Large-scale analysis of SARS-CoV-2 spike-glycoprotein mutants demonstrates the need for continuous screening of virus isolates

B Schrörs, P Riesgo-Ferreiro, P Sorn, R Gudimella… - PLoS …, 2021 - journals.plos.org
Due to the widespread of the COVID-19 pandemic, the SARS-CoV-2 genome is evolving in
diverse human populations. Several studies already reported different strains and an …

V-pipe 3.0: a sustainable pipeline for within-sample viral genetic diversity estimation

L Fuhrmann, KP Jablonski, I Topolsky, AA Batavia… - …, 2024 - academic.oup.com
The large amount and diversity of viral genomic datasets generated by next-generation
sequencing technologies poses a set of challenges for computational data analysis …

[HTML][HTML] Viral load and patterns of SARS-CoV-2 dissemination to the lungs, mediastinal lymph nodes, and spleen of patients with COVID-19 associated lymphopenia

A Abdullaev, A Odilov, M Ershler, A Volkov, T Lipina… - Viruses, 2021 - mdpi.com
Lymphopenia is a frequent hematological manifestation, associated with a severe course of
COVID-19, with an insufficiently understood pathogenesis. We present molecular genetic …