Structural and functional insights into the spike protein mutations of emerging SARS-CoV-2 variants

Prospective mapping of viral mutations that escape antibodies used to treat COVID-19

(2021) Tyler N. Starr et al.   SCIENCE

Analysis of Indian SARS-CoV-2 Genomes Reveals Prevalence of D614G Mutation in Spike Protein Predicting an Increase in Interaction With TMPRSS2 and Virus Infectivity

(2021) Sunil Raghav et al.   Frontiers in Microbiology

Emergence of SARS-CoV-2 B.1.1.7 Lineage — United States, December 29, 2020–January 12, 2021

(2021) Summer E. Galloway et al.   MMWR-MORBIDITY AND MORTALITY WEEKLY REPORT

A model for pH coupling of the SARS-CoV-2 spike protein open/closed equilibrium

(2021) Jim Warwicker   BRIEFINGS IN BIOINFORMATICS

Circulating SARS-CoV-2 spike N439K variants maintain fitness while evading antibody-mediated immunity

(2021) Emma C. Thomson et al.   CELL

Identification of SARS-CoV-2 spike mutations that attenuate monoclonal and serum antibody neutralization

(2021) Zhuoming Liu et al.   Cell Host & Microbe

Comprehensive mapping of mutations in the SARS-CoV-2 receptor-binding domain that affect recognition by polyclonal human plasma antibodies

(2021) Allison J. Greaney et al.   Cell Host & Microbe

Potent SARS-CoV-2 Neutralizing Antibodies Directed Against Spike N-Terminal Domain Target a Single Supersite

(2021) Gabriele Cerutti et al.   Cell Host & Microbe

In Silico Investigation of the New UK (B.1.1.7) and South African (501Y.V2) SARS-CoV-2 Variants with a Focus at the ACE2–Spike RBD Interface

(2021) Bruno O. Villoutreix et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

The SARS-CoV-2 Y453F mink variant displays a pronounced increase in ACE-2 affinity but does not challenge antibody neutralization

(2021) Rafael Bayarri-Olmos et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Structural stability predictions and molecular dynamics simulations of RBD and HR1 mutations associated with SARS-CoV-2 spike glycoprotein

(2021) Shahzaib Ahamad et al.   JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS

Structural genetics of circulating variants affecting the SARS-CoV-2 spike/human ACE2 complex

(2021) Francesco Ortuso et al.   JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS

SARS-CoV-2 genomics: An Indian perspective on sequencing viral variants

(2021) Surabhi Srivastava et al.   JOURNAL OF BIOSCIENCES

Introduction of Brazilian SARS-CoV-2 484K.V2 related variants into the UK

(2021) Oliver T.R. Toovey et al.   JOURNAL OF INFECTION

Emergence of a SARS-CoV-2 variant of concern with mutations in spike glycoprotein

(2021) Houriiyah Tegally et al.   NATURE

SARS-CoV-2 evolution during treatment of chronic infection

(2021) Steven A. Kemp et al.   NATURE

SARS-CoV-2 Variant of Concern 202012/01 Has about Twofold Replicative Advantage and Acquires Concerning Mutations

(2021) Frederic Grabowski et al.   Viruses-Basel

Structure-Function Analyses of New SARS-CoV-2 Variants B.1.1.7, B.1.351 and B.1.1.28.1: Clinical, Diagnostic, Therapeutic and Public Health Implications

(2021) Jasdeep Singh et al.   Viruses-Basel

Serine 477 plays a crucial role in the interaction of the SARS-CoV-2 spike protein with the human receptor ACE2

(2021) Amit Singh et al.   Scientific Reports

N-terminal domain antigenic mapping reveals a site of vulnerability for SARS-CoV-2

(2021) Matthew McCallum et al.   CELL

Transmission, infectivity, and neutralization of a spike L452R SARS-CoV-2 variant

(2021) Xianding Deng et al.   CELL

An NTD supersite of attack

(2021) Shee-Mei Lok   Cell Host & Microbe

Increased resistance of SARS-CoV-2 variant P.1 to antibody neutralization

(2021) Pengfei Wang et al.   Cell Host & Microbe

Spreading of a new SARS-CoV-2 N501Y spike variant in a new lineage

(2021) Philippe COLSON et al.   CLINICAL MICROBIOLOGY AND INFECTION

Enhanced binding of the N501Y‐mutated SARS‐CoV‐2 spike protein to the human ACE2 receptor: insights from molecular dynamics simulations

(2021) Binquan Luan et al.   FEBS LETTERS

Vaccine-escape and fast-growing mutations in the United Kingdom, the United States, Singapore, Spain, India, and other COVID-19-devastated countries

(2021) Rui Wang et al.   GENOMICS

Higher infectivity of the SARS‐CoV‐2 new variants is associated with K417N/T, E484K, and N501Y mutants: An insight from structural data

(2021) Abbas Khan et al.   JOURNAL OF CELLULAR PHYSIOLOGY

Identification of a SARS-CoV-2 Variant with L452R and E484Q Neutralization Resistance Mutations

(2021) Michelle Verghese et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Symptomatic reinfection of SARS‐CoV‐2 with spike protein variant N440K associated with immune escape

(2021) Pallavali R. Rani et al.   JOURNAL OF MEDICAL VIROLOGY

Preliminary report on severe acute respiratory syndrome coronavirus 2 (SARS‐CoV‐2) Spike mutation T478K

(2021) Simone Di Giacomo et al.   JOURNAL OF MEDICAL VIROLOGY

Risk of SARS-CoV-2 reinfection after natural infection

(2021) Rosemary J Boyton et al.   LANCET

Genomic characteristics and clinical effect of the emergent SARS-CoV-2 B.1.1.7 lineage in London, UK: a whole-genome sequencing and hospital-based cohort study

(2021) Dan Frampton et al.   LANCET INFECTIOUS DISEASES

Vaccine Breakthrough Infections with SARS-CoV-2 Variants

(2021) Ezgi Hacisuleyman et al.   NEW ENGLAND JOURNAL OF MEDICINE

The emerging plasticity of SARS-CoV-2

(2021) Kevin D. McCormick et al.   SCIENCE

Impact of the N501Y substitution of SARS-CoV-2 Spike on neutralizing monoclonal antibodies targeting diverse epitopes

(2021) Lin Cheng et al.   Virology Journal

The Impact on Infectivity and Neutralization Efficiency of SARS-CoV-2 Lineage B.1.351 Pseudovirus

(2021) Yeong Jun Kim et al.   Viruses-Basel

An Epidemiological Analysis of SARS-CoV-2 Genomic Sequences from Different Regions of India

(2021) Pragya D. Yadav et al.   Viruses-Basel

SARS-CoV-2 gene content and COVID-19 mutation impact by comparing 44 Sarbecovirus genomes

(2021) Irwin Jungreis et al.   Nature Communications

Global dynamics of SARS-CoV-2 clades and their relation to COVID-19 epidemiology

(2021) Samira M. Hamed et al.   Scientific Reports

Cryo-electron microscopy structures of the N501Y SARS-CoV-2 spike protein in complex with ACE2 and 2 potent neutralizing antibodies

(2021) Xing Zhu et al.   PLOS BIOLOGY

Linked Clusters of SARS-CoV-2 Variant B.1.351 — Maryland, January–February 2021

(2021) Kenneth A. Feder et al.   MMWR-MORBIDITY AND MORTALITY WEEKLY REPORT

Role of Structural and Non-Structural Proteins and Therapeutic Targets of SARS-CoV-2 for COVID-19

(2021) Rohitash Yadav et al.   Cells

Genomic epidemiology of SARS-CoV-2 in Esteio, Rio Grande do Sul, Brazil

(2021) Vinícius Bonetti Franceschi et al.   BMC GENOMICS

Molecular epidemiology of SARS-CoV-2 isolated from COVID-19 family clusters

(2021) Gunadi et al.   BMC Medical Genomics

Neutralization potential of Covishield vaccinated individuals sera against B.1.617.1

(2021) Pragya D Yadav et al.   CLINICAL INFECTIOUS DISEASES

V483A: an emerging mutation hotspot of SARS-CoV-2

(2021) Omar Ashwaq et al.   Future Virology

One year into the pandemic: Short-term evolution of SARS-CoV-2 and emergence of new lineages

(2021) Fernando González-Candelas et al.   INFECTION GENETICS AND EVOLUTION

Possible Link between Higher Transmissibility of Alpha, Kappa and Delta Variants of SARS-CoV-2 and Increased Structural Stability of Its Spike Protein and hACE2 Affinity

(2021) Vipul Kumar et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Discovery of a SARS-CoV-2 variant from the P.1 lineage harboring K417T/E484K/N501Y mutations in Kofu, Japan

(2021) Yosuke Hirotsu et al.   JOURNAL OF INFECTION

Experimental Evidence for Enhanced Receptor Binding by Rapidly Spreading SARS-CoV-2 Variants

(2021) Charlie Laffeber et al.   JOURNAL OF MOLECULAR BIOLOGY

SARS-CoV2 spike protein gene variants with N501T and G142D mutation–dominated infections in mink in the United States

(2021) Hugh Y. Cai et al.   JOURNAL OF VETERINARY DIAGNOSTIC INVESTIGATION

Evolving scenario of big data and Artificial Intelligence (AI) in drug discovery

(2021) Manish Kumar Tripathi et al.   MOLECULAR DIVERSITY

SARS-CoV-2 variants of concern are emerging in India

(2021) Jasdeep Singh et al.   NATURE MEDICINE

The next phase of SARS-CoV-2 surveillance: real-time molecular epidemiology

(2021) Bas B. Oude Munnink et al.   NATURE MEDICINE

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

(2021) William T. Harvey et al.   NATURE REVIEWS MICROBIOLOGY

Overview of SARS-CoV-2 genome-encoded proteins

(2021) Chongzhi Bai et al.   Science China-Life Sciences

The Spike of Concern—The Novel Variants of SARS-CoV-2

(2021) Anna Winger et al.   Viruses-Basel

A Comprehensive Molecular Epidemiological Analysis of SARS-CoV-2 Infection in Cyprus from April 2020 to January 2021: Evidence of a Highly Polyphyletic and Evolving Epidemic

(2021) Andreas C. Chrysostomou et al.   Viruses-Basel

Recurrent emergence of SARS-CoV-2 spike deletion H69/V70 and its role in the Alpha variant B.1.1.7

(2021) Bo Meng et al.   Cell Reports

Detection of R.1 lineage severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) with spike protein W152L/E484K/G769V mutations in Japan

(2021) Yosuke Hirotsu et al.   PLoS Pathogens

RT-qPCR Assays for Rapid Detection of the N501Y, 69-70del, K417N, and E484K SARS-CoV-2 Mutations: A Screening Strategy to Identify Variants With Clinical Impact

(2021) Natali Vega-Magaña et al.   Frontiers in Cellular and Infection Microbiology

The Antigenicity of Epidemic SARS-CoV-2 Variants in the United Kingdom

(2021) Jiajing Wu et al.   Frontiers in Immunology

SARS-CoV-2 Variants of Interest and Concern naming scheme conducive for global discourse

(2021) Frank Konings et al.   Nature Microbiology

The ongoing evolution of variants of concern and interest of SARS-CoV-2 in Brazil revealed by convergent indels in the amino (N)-terminal domain of the spike protein

(2021) Paola Cristina Resende et al.   Virus Evolution

N439K Variant in Spike Protein Alter the Infection Efficiency and Antigenicity of SARS-CoV-2 Based on Molecular Dynamics Simulation

(2021) Wenyang Zhou et al.   Frontiers in Cell and Developmental Biology

COVID-19: Unmasking Emerging SARS-CoV-2 Variants, Vaccines and Therapeutic Strategies

(2021) Renuka Raman et al.   Biomolecules

The Emerging Concern and Interest SARS-CoV-2 Variants

(2021) Edyta Janik et al.   Pathogens

New infections by SARS-CoV-2 variants of concern after natural infections and post-vaccination in Rio de Janeiro, Brazil

(2021) Livia R. Goes et al.   INFECTION GENETICS AND EVOLUTION

SARS-CoV-2 Cell Entry Depends on ACE2 and TMPRSS2 and Is Blocked by a Clinically Proven Protease Inhibitor

(2020) Markus Hoffmann et al.   CELL

The pivotal link between ACE2 deficiency and SARS-CoV-2 infection

(2020) Paolo Verdecchia et al.   European Journal of Internal Medicine

Structural and Simulation analysis of hot spot residues interactions of SARS-CoV 2 with Human ACE2 receptor

(2020) Ganesh Kumar Veeramachaneni et al.   JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS

Structure of the SARS-CoV-2 spike receptor-binding domain bound to the ACE2 receptor

(2020) Jun Lan et al.   NATURE

Structural basis of receptor recognition by SARS-CoV-2

(2020) Jian Shang et al.   NATURE

Variant analysis of SARS-CoV-2 genomes

(2020) Takahiko Koyama et al.   BULLETIN OF THE WORLD HEALTH ORGANIZATION

The Impact of Mutations in SARS-CoV-2 Spike on Viral Infectivity and Antigenicity

(2020) Qianqian Li et al.   CELL

Identification of bioactive molecule from Withania somnifera (Ashwagandha) as SARS-CoV-2 main protease inhibitor

(2020) Manish Kumar Tripathi et al.   JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS

Mutations in SARS-CoV-2 viral RNA identified in Eastern India: Possible implications for the ongoing outbreak in India and impact on viral structure and host susceptibility

(2020) Arindam Maitra et al.   JOURNAL OF BIOSCIENCES

SARS-CoV-2 SPIKE PROTEIN: an optimal immunological target for vaccines

(2020) Giovanni Salvatori et al.   Journal of Translational Medicine

Studies in humanized mice and convalescent humans yield a SARS-CoV-2 antibody cocktail

(2020) Johanna Hansen et al.   SCIENCE

Distinct conformational states of SARS-CoV-2 spike protein

(2020) Yongfei Cai et al.   SCIENCE

Structural basis of a shared antibody response to SARS-CoV-2

(2020) Meng Yuan et al.   SCIENCE

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

(2020) Andrew Rambaut et al.   Nature Microbiology

Structural and Functional Analysis of the D614G SARS-CoV-2 Spike Protein Variant

(2020) Leonid Yurkovetskiy et al.   CELL

Mechanism and inhibition of the papain‐like protease, PLpro, of SARS‐CoV‐2

(2020) Theresa Klemm et al.   EMBO JOURNAL

Evolutionary and structural analyses of SARS-CoV-2 D614G spike protein mutation now documented worldwide

(2020) Sandra Isabel et al.   Scientific Reports

Evolutionary and structural analysis elucidates mutations on SARS-CoV2 spike protein with altered human ACE2 binding affinity

(2020) Sandipan Chakraborty   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Dynamic tracking of variant frequencies depicts the evolution of mutation sites amongst SARS‐CoV‐2 genomes from India

(2020) Shenu Hudson B. et al.   JOURNAL OF MEDICAL VIROLOGY

Nextstrain: real-time tracking of pathogen evolution

(2018) James Hadfield et al.   BIOINFORMATICS

GISAID: Global initiative on sharing all influenza data – from vision to reality

(2017) Yuelong Shu et al.   Eurosurveillance

Structure, Function, and Evolution of Coronavirus Spike Proteins

(2016) Fang Li   Annual Review of Virology

ACE2 – From the renin–angiotensin system to gut microbiota and malnutrition

(2013) Thomas Perlot et al.   MICROBES AND INFECTION

Identification of Residues of SARS-CoV nsp1 That Differentially Affect Inhibition of Gene Expression and Antiviral Signaling

(2013) Andrew R. Jauregui et al.   PLoS One

Mechanisms of Coronavirus Cell Entry Mediated by the Viral Spike Protein

(2012) Sandrine Belouzard et al.   Viruses-Basel