4.8 Article

Emergence of immune escape at dominant SARS-CoV-2 killer T cell epitope

相关参考文献

注意:仅列出部分参考文献,下载原文获取全部文献信息。
Article Multidisciplinary Sciences

Structural assessment of HLA-A2-restricted SARS-CoV-2 spike epitopes recognized by public and private T-cell receptors

Daichao Wu et al.

Summary: This study reveals the structural information of SARS-CoV-2-specific T-cell receptors (TCRs) bound to their peptide-MHC targets and explains the mechanisms behind their selection of specific germline genes and recognition of different variants. This has important implications for designing vaccines to elicit pan-coronavirus immunity.

NATURE COMMUNICATIONS (2022)

Article Multidisciplinary Sciences

Spike mutation D614G alters SARS-CoV-2 fitness

Jessica A. Plante et al.

Summary: The D614G substitution in the SARS-CoV-2 spike protein enhances viral replication and infectivity in human lung epithelial cells, primary airway tissues, and hamsters. This variant may increase transmission in the upper respiratory tract and doesn't seem to significantly reduce vaccine efficacy. Further research on therapeutic antibodies targeting the circulating G614 virus is recommended.

NATURE (2021)

Article Immunology

SARS-CoV-2-derived peptides define heterologous and COVID-19-induced T cell recognition

Annika Nelde et al.

Summary: SARS-CoV-2-specific T cell epitopes were identified in convalescent and unexposed individuals, showing cross-reactivity with common cold coronaviruses. The diversity of SARS-CoV-2 T cell responses may be associated with mild symptoms of COVID-19.

NATURE IMMUNOLOGY (2021)

Review Biochemistry & Molecular Biology

Adaptive immunity to SARS-CoV-2 and COVID-19

Alessandro Sette et al.

Summary: The adaptive immune system, consisting of B cells, CD4(+) T cells, and CD8(+) T cells, plays varying roles in different viral infections and vaccines. Studies are showing that CD4(+) T cells, CD8(+) T cells, and neutralizing antibodies all play a part in controlling SARS-CoV-2 in COVID-19 cases, emphasizing the importance of understanding adaptive immunity in combating the disease.
Article Biochemistry & Molecular Biology

Evaluating the Effects of SARS-CoV-2 Spike Mutation D614G on Transmissibility and Pathogenicity

Erik Volz et al.

Summary: The study suggests a positive selection for the SARS-CoV-2 spike protein variant D614G in the UK, but no evidence of differences in COVID-19 mortality or clinical severity in patients infected with this variant. 614G is associated with higher viral load and younger age of patients compared to 614D.
Article Multidisciplinary Sciences

Correlates of protection against SARS-CoV-2 in rhesus macaques

Katherine McMahan et al.

Summary: Adoptive transfer of purified IgG from convalescent macaques protects naive macaques against SARS-CoV-2 infection, and cellular immune responses contribute to protection against rechallenge with SARS-CoV-2. The findings suggest that relatively low antibody titres are sufficient for protection against SARS-CoV-2 in macaques, while higher antibody titres are required for treatment of SARS-CoV-2 infection.

NATURE (2021)

Article Medicine, General & Internal

REGN-COV2, a Neutralizing Antibody Cocktail, in Outpatients with Covid-19

D. M. Weinreich et al.

Summary: Recent data indicate that complications and death from Covid-19 may be related to high viral loads. In this trial involving nonhospitalized patients, a cocktail of two neutralizing monoclonal antibodies (REGN-COV2) reduced viral load, with a greater effect in patients with no immune response or high viral load at baseline. Safety outcomes were similar between REGN-COV2 dose groups and the placebo group.

NEW ENGLAND JOURNAL OF MEDICINE (2021)

Article Medicine, General & Internal

A Neutralizing Monoclonal Antibody for Hospitalized Patients with Covid-19

Summary: In a platform trial involving patients hospitalized with Covid-19, among 314 patients who were also being treated with remdesivir, those who received the monoclonal antibody LY-CoV555 did not have better pulmonary function at day 5 than those who received placebo. The trial was stopped for futility.

NEW ENGLAND JOURNAL OF MEDICINE (2021)

Article Multidisciplinary Sciences

Establishment and lineage dynamics of the SARS-CoV-2 epidemic in the UK

Louis du Plessis et al.

Summary: The study analyzed the genetic lineage structure of the early UK COVID-19 epidemic through genomic sampling, identifying that virus lineages introduced before the national lockdown tended to be larger and more dispersed. After the lockdown, lineage importation and regional diversity decreased, while lineage elimination depended on lineage size. The research emphasizes the impact of genetic perspective on transmission dynamics for COVID-19 epidemiology and control.

SCIENCE (2021)

Article Cell Biology

The effect of spike mutations on SARS-CoV-2 neutralization

Chloe Rees-Spear et al.

Summary: The study found that emerging variants of the coronavirus may lead to reduced neutralization by antibodies induced by vaccines or previous infection, but some samples still retain effectiveness. This highlights the importance of real-time monitoring of emerging mutations and their impact on vaccine efficacy.

CELL REPORTS (2021)

Article Immunology

SARS-CoV-2 mutations in MHC-I-restricted epitopes evade CD8(+) T cell responses

Benedikt Agerer et al.

Summary: The study identified nonsynonymous mutations in MHC-I-restricted CD8(+) T cell epitopes of SARS-CoV-2 virus isolates, which resulted in diminished MHC-I binding of mutant peptides. This led to decreased proliferation, IFN-gamma production, and cytotoxic activity of CD8(+) T cells, along with qualitative differences in the transcriptional response to mutant peptides. These findings highlight the ability of SARS-CoV-2 to evade CD8(+) T cell surveillance through point mutations in MHC-I-restricted viral epitopes.

SCIENCE IMMUNOLOGY (2021)

Article Cell Biology

Molecular Basis of a Dominant SARS-CoV-2 Spike-Derived Epitope Presented by HLA-A*02:01 Recognised by a Public TCR

Christopher Szeto et al.

Summary: The study presents the crystallography structure of T cell receptor binding with a SARS-CoV-2 epitope, demonstrating the activation of CD8+ T cell response in COVID-19 patients and providing insights into TCR recognition mechanisms.
Article Multidisciplinary Sciences

The impact of viral mutations on recognition by SARS-CoV-2 specific T cells

Thushan de Silva et al.

Summary: Variants within dominant SARS-CoV-2 T cell epitopes have been identified through global sequence data analysis. These variants, independently arising in multiple lineages, result in loss of T cell recognition of specific epitopes. The findings demonstrate the potential for T cell evasion and emphasize the importance of ongoing surveillance for variants capable of escaping immune responses.

ISCIENCE (2021)

Article Microbiology

SARS-CoV-2 spike L452R variant evades cellular immunity and increases infectivity

Chihiro Motozono et al.

Summary: Research has shown that certain mutations in SARS-CoV-2 variants can escape HLA-restricted cellular immunity, increase affinity for host cells, promote viral replication, and potentially affect the evolution of viral phenotypes.

CELL HOST & MICROBE (2021)

Article Biochemistry & Molecular Biology

Structural basis of biased T cell receptor recognition of an immunodominant HLA-A2 epitope of the SARS-CoV-2 spike protein

Priyanka Chaurasia et al.

Summary: CD8(+) T cells are crucial in immunity against SARS-CoV-2 infection, with the HLA-A2S(269-277) epitope being the most immunodominant. Studies show that TRAV12(+) T cell receptors are sensitive to sequence variation within the S269-277 peptide. However, the TRAV12(+) T cell repertoire demonstrates poor cross-reactivity with analogous epitopes from SARS-CoV-2 variants and related coronaviruses.

JOURNAL OF BIOLOGICAL CHEMISTRY (2021)

Article Multidisciplinary Sciences

Immunogenicity of Ad26.COV2.S vaccine against SARS-CoV-2 variants in humans

Galit Alter et al.

Summary: The Ad26.COV2.S vaccine has shown clinical efficacy against symptomatic COVID-19, including the B.1.351 variant, but there is uncertainty regarding its immunogenicity against SARS-CoV-2 variants. The study found that neutralizing antibody responses were reduced against the B.1.351 and P.1 variants, while non-neutralizing antibody responses and T cell responses were largely preserved against SARS-CoV-2 variants.

NATURE (2021)

Review Genetics & Heredity

The biological and clinical significance of emerging SARS-CoV-2 variants

Kaiming Tao et al.

Summary: The emergence of multiple SARS-CoV-2 variants has significant impacts on the epidemiological and clinical aspects of the COVID-19 pandemic, including increased virus transmission rates, heightened risk of reinfection, and reduced effectiveness of neutralizing antibodies and vaccines. These variants have introduced new challenges to COVID-19 research, necessitating additional avenues of laboratory, epidemiological, and clinical studies.

NATURE REVIEWS GENETICS (2021)

Review Microbiology

SARS-CoV-2 variants, spike mutations and immune escape

William T. Harvey et al.

Summary: The evolution of SARS-CoV-2 has been characterized by the emergence of mutations and variants that impact virus characteristics. Manufacturers are preparing for possible updates to vaccines in response to changes in the virus population, and it is crucial to monitor genetic and antigenic changes alongside experiments to understand the impacts of mutations.

NATURE REVIEWS MICROBIOLOGY (2021)

Article Biochemistry & Molecular Biology

Characterization of pre-existing and induced SARS-CoV-2-specific CD8+ T cells

Isabel Schulien et al.

Summary: The study found that SARS-CoV-2 infection induces and forms functionally competent memory CD8(+) T cell responses, which can persist in some SARS-CoV-2 convalescent individuals. Even in the absence of virus-specific antibodies, these virus epitope-specific CD8(+) T cell responses are induced following infection.

NATURE MEDICINE (2021)

Article Biochemistry & Molecular Biology

IQ-TREE 2: New Models and Efficient Methods for Phylogenetic Inference in the Genomic Era

Bui Quang Minh et al.

MOLECULAR BIOLOGY AND EVOLUTION (2020)

Article Biochemistry & Molecular Biology

Single-cell landscape of bronchoalveolar immune cells in patients with COVID-19

Mingfeng Liao et al.

NATURE MEDICINE (2020)

Article Allergy

Two X-linked agammaglobulinemia patients develop pneumonia as COVID-19 manifestation but recover

Annarosa Soresina et al.

PEDIATRIC ALLERGY AND IMMUNOLOGY (2020)

Letter Clinical Neurology

Anti-CD20 and COVID-19 in multiple sclerosis and related disorders: A case series of 60 patients from Madrid, Spain

Paloma Montero-Escribano et al.

MULTIPLE SCLEROSIS AND RELATED DISORDERS (2020)

Editorial Material Clinical Neurology

COVID-19 in a MS patient treated with ocrelizumab: does immunosuppression have a protective role?

Giovanni Novi et al.

MULTIPLE SCLEROSIS AND RELATED DISORDERS (2020)

Article Biochemistry & Molecular Biology

Robust T Cell Immunity in Convalescent Individuals with Asymptomatic or Mild COVID-19

Takuya Sekine et al.

Article Biochemistry & Molecular Biology

Antigen-Specific Adaptive Immunity to SARS-CoV-2 in Acute COVID-19 and Associations with Age and Disease Severity

Carolyn Rydyznski Moderbacher et al.

Review Multidisciplinary Sciences

SARS-CoV-2 vaccines in development

Florian Krammer

NATURE (2020)

Correction Biochemistry & Molecular Biology

Structure, Function, and Antigenicity of the SARS-CoV-2 Spike Glycoprotein (vol 180, 281.e1, 2020)

Alexandra C. Walls et al.

Review Immunology

CD8+ T cells in HIV control, cure and prevention

David R. Collins et al.

NATURE REVIEWS IMMUNOLOGY (2020)

Article Biochemistry & Molecular Biology

UFBoot2: Improving the Ultrafast Bootstrap Approximation

Diep Thi Hoang et al.

MOLECULAR BIOLOGY AND EVOLUTION (2018)

Article Biochemistry & Molecular Biology

VDJdb: a curated database of T-cell receptor sequences with known antigen specificity

Mikhail Shugay et al.

NUCLEIC ACIDS RESEARCH (2018)

Article Immunology

Dual Molecular Mechanisms Govern Escape at Immunodominant HLA A2-Restricted HIV Epitope

David K. Cole et al.

FRONTIERS IN IMMUNOLOGY (2017)

Article Biotechnology & Applied Microbiology

VDJviz: a versatile browser for immunogenomics data

Dmitriy V. Bagaev et al.

BMC GENOMICS (2016)

Article Multidisciplinary Sciences

Long-term adaptation of the influenza A virus by escaping cytotoxic T-cell recognition

Rutger G. Woolthuis et al.

SCIENTIFIC REPORTS (2016)

Letter Biochemical Research Methods

MiXCR: software for comprehensive adaptive immunity profiling

Dmitriy A. Bolotin et al.

NATURE METHODS (2015)

Article Biochemistry & Molecular Biology

IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

Lam-Tung Nguyen et al.

MOLECULAR BIOLOGY AND EVOLUTION (2015)

Review Immunology

Structural and biophysical determinants of aß T-cell antigen recognition

John S. Bridgeman et al.

IMMUNOLOGY (2012)

Article Biochemical Research Methods

TCR/pMHC Optimized Protein crystallization Screen

Anna M. Bulek et al.

JOURNAL OF IMMUNOLOGICAL METHODS (2012)

Article Immunology

Why must T cells be cross-reactive?

Andrew K. Sewell

NATURE REVIEWS IMMUNOLOGY (2012)

Article Biochemical Research Methods

REFMAC5 for the refinement of macromolecular crystal structures

Garib N. Murshudov et al.

ACTA CRYSTALLOGRAPHICA SECTION D-STRUCTURAL BIOLOGY (2011)

Article Biochemical Research Methods

Overview of the CCP4 suite and current developments

Martyn D. Winn et al.

ACTA CRYSTALLOGRAPHICA SECTION D-STRUCTURAL BIOLOGY (2011)

Article Multidisciplinary Sciences

The Shaping of Modern Human Immune Systems by Multiregional Admixture with Archaic Humans

Laurent Abi-Rached et al.

SCIENCE (2011)

Article Chemistry, Multidisciplinary

Phaser crystallographic software

Airlie J. McCoy et al.

JOURNAL OF APPLIED CRYSTALLOGRAPHY (2007)

Article Biochemical Research Methods

Towards rationalization of crystallization screening for small- to medium-sized academic laboratories: the PACT/JCSG plus strategy

J Newman et al.

ACTA CRYSTALLOGRAPHICA SECTION D-STRUCTURAL BIOLOGY (2005)

Article Biochemistry & Molecular Biology

Design of soluble recombinant T cell receptors for antigen targeting and T cell inhibition

B Laugel et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2005)

Article Biochemical Research Methods

Coot:: model-building tools for molecular graphics

P Emsley et al.

ACTA CRYSTALLOGRAPHICA SECTION D-STRUCTURAL BIOLOGY (2004)

Article Biochemistry & Molecular Biology

Stable, soluble T-cell receptor molecules for crystallization and therapeutics

JM Boulter et al.

PROTEIN ENGINEERING (2003)

Article Biochemistry & Molecular Biology

MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform

K Katoh et al.

NUCLEIC ACIDS RESEARCH (2002)