SARS-CoV-2 infection in immunosuppression evolves sub-lineages which independently accumulate neutralization escape mutations DOI Creative Commons
Gila Lustig, Yashica Ganga, Hylton Rodel

et al.

Virus Evolution, Journal Year: 2023, Volume and Issue: 10(1)

Published: Dec. 28, 2023

Abstract One mechanism of variant formation may be evolution during long-term infection in immunosuppressed people. To understand the viral phenotypes evolved such infection, we tested SARS-CoV-2 viruses from an ancestral B.1 lineage lasting over 190 days post-diagnosis advanced HIV disease individual. Sequence and phylogenetic analysis showed two evolving sub-lineages, with second sub-lineage replacing first a seeming evolutionary sweep. Each independently escape neutralizing antibodies. The most virus for (isolated day 34) 190) similar Delta-variant elicited immunity despite having no spike mutations common relative to lineage. isolate also higher cell–cell fusion faster replication caused more cell death isolated soon after diagnosis, though was 34 virus. These data show that strains prolonged single individual can follow independent trajectories which lead neutralization other changes properties.

Language: Английский

Evolution and neutralization escape of the SARS-CoV-2 BA.2.86 subvariant DOI Creative Commons
Khadija Khan, Gila Lustig,

Cornelius Römer

et al.

Nature Communications, Journal Year: 2023, Volume and Issue: 14(1)

Published: Dec. 6, 2023

Abstract Omicron BA.2.86 subvariant differs from BA.2 as well recently circulating variants by over 30 mutations in the spike protein alone. Here we report on isolation of live a diagnostic swab collected South Africa which tested for escape neutralizing antibodies and viral replication properties cell culture. We found that does not have significantly more relative to XBB.1.5 immunity elicited either XBB-family infection or residual sera African population. extensive ancestral virus with D614G substitution (B.1 lineage) when neutralized pre-Omicron vaccinated individuals BA.1 infected individuals. show similar dynamics VeroE6-TMPRSS2 H1299-ACE2 lines. also investigate relationship sequences. The closest sequences are samples Southern early 2022. Similarly, many basal were sampled Africa. This suggests potentially evolved this region, unobserved evolution led scale strains SARS-CoV-2.

Language: Английский

Citations

72
Distinct evolution of SARS-CoV-2 Omicron XBB and BA.2.86/JN.1 lineages combining increased fitness and antibody evasion DOI Creative Commons
Delphine Planas, Isabelle Staropoli, Vincent Michel

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2023, Volume and Issue: unknown

Published: Nov. 21, 2023

The unceasing circulation of SARS-CoV-2 leads to the continuous emergence novel viral sublineages. Here, we isolated and characterized XBB.1, XBB.1.5, XBB.1.9.1, XBB.1.16.1, EG.5.1.1, EG.5.1.3, XBF, BA.2.86.1 JN.1 variants, representing >80% circulating variants in January 2024. XBB subvariants carry few but recurrent mutations spike, whereas harbor >30 additional changes. These replicated IGROV-1 no longer Vero E6 were not markedly fusogenic. They potently infected nasal epithelial cells, with EG.5.1.3 exhibiting highest fitness. Antivirals remained active. Neutralizing antibody (NAb) responses from vaccinees BA.1/BA.2-infected individuals lower compared BA.1, without major differences between variants. An breakthrough infection enhanced NAb against both BA.2.86 displayed affinity ACE2 higher immune evasion properties BA.2.86.1. Thus, while distinct, evolutionary trajectory these combines increased fitness evasion.

Language: Английский

Citations

32
SARS-CoV-2 BA.2.86 (“Pirola”): Is it Pi or Just Another Omicron Sublineage? DOI Creative Commons
Daniele Focosi, Pietro Giorgio Spezia, Fabrizio Maggi

et al.

Vaccines, Journal Year: 2023, Volume and Issue: 11(11), P. 1634 - 1634

Published: Oct. 25, 2023

The SARS-CoV-2 sublineage BA [...].

Language: Английский

Citations

14
SARS-CoV-2 infection in immunosuppression evolves sub-lineages which independently accumulate neutralization escape mutations DOI Creative Commons
Gila Lustig, Yashica Ganga, Hylton Rodel

et al.

Virus Evolution, Journal Year: 2023, Volume and Issue: 10(1)

Published: Dec. 28, 2023

Abstract One mechanism of variant formation may be evolution during long-term infection in immunosuppressed people. To understand the viral phenotypes evolved such infection, we tested SARS-CoV-2 viruses from an ancestral B.1 lineage lasting over 190 days post-diagnosis advanced HIV disease individual. Sequence and phylogenetic analysis showed two evolving sub-lineages, with second sub-lineage replacing first a seeming evolutionary sweep. Each independently escape neutralizing antibodies. The most virus for (isolated day 34) 190) similar Delta-variant elicited immunity despite having no spike mutations common relative to lineage. isolate also higher cell–cell fusion faster replication caused more cell death isolated soon after diagnosis, though was 34 virus. These data show that strains prolonged single individual can follow independent trajectories which lead neutralization other changes properties.

Language: Английский

Citations

5