Detection and characterization of the SARS-CoV-2 lineage B.1.526 in New York.
Anthony P. West,Joel O. Wertheim,Jade C Wang,Tetyana I Vasylyeva,Jennifer L Havens,Moinuddin A Chowdhury,Edimarlyn Gonzalez,Courtney E Fang,Steve Di Lonardo,Scott Hughes,Jennifer L. Rakeman,Henry H. Lee,Christopher O. Barnes,Priyanthi N. P. Gnanapragasam,Zhi Yang,Christian Gaebler,Marina Caskey,Michel C. Nussenzweig,Michel C. Nussenzweig,Jennifer R. Keeffe,Pamela J. Bjorkman +20 more
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TLDR
The most common sets of spike mutations in this lineage are L5F, T95I, D253G, E484K or S477N, D614G, and A701V.Abstract:
Wide-scale SARS-CoV-2 genome sequencing is critical to tracking viral evolution during the ongoing pandemic. We develop the software tool, Variant Database (VDB), for quickly examining the changing landscape of spike mutations. Using VDB, we detect an emerging lineage of SARS-CoV-2 in the New York region that shares mutations with previously reported variants. The most common sets of spike mutations in this lineage (now designated as B.1.526) are L5F, T95I, D253G, E484K or S477N, D614G, and A701V. This lineage was first sequenced in late November 2020. Phylodynamic inference confirmed the rapid growth of the B.1.526 lineage. In concert with other variants, like B.1.1.7, the rise of B.1.526 appears to have extended the duration of the second wave of COVID-19 cases in NYC in early 2021. Pseudovirus neutralization experiments demonstrated that B.1.526 spike mutations adversely affect the neutralization titer of convalescent and vaccinee plasma, supporting the public health relevance of this lineage.read more
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High genetic barrier to SARS-CoV-2 polyclonal neutralizing antibody escape.
Fabian Schmidt,Yiska Weisblum,Magdalena Rutkowska,Daniel Poston,Justin Da Silva,Fengwen Zhang,Eva Bednarski,Alice Cho,Dennis Schaefer-Babajew,Christian Gaebler,Marina Caskey,Michel C. Nussenzweig,Michel C. Nussenzweig,Theodora Hatziioannou,Paul D. Bieniasz,Paul D. Bieniasz +15 more
TL;DR: In this article, the number and variability of the neutralizing epitopes targeted by polyclonal antibodies in SARS-CoV-2 convalescent and vaccinated individuals are shown to be key determinants of neutralization breadth and the genetic barrier to viral escape.
Journal ArticleDOI
Emergence and expansion of SARS-CoV-2 B.1.526 after identification in New York.
Medini K. Annavajhala,Hiroshi Mohri,Pengfei Wang,Manoj S. Nair,Jason Zucker,Zizhang Sheng,Angela Gomez-Simmonds,Anne L. Kelley,Maya Tagliavia,Yaoxing Huang,Trevor Bedford,David D. Ho,David D. Ho,Anne-Catrin Uhlemann +13 more
TL;DR: The emergence of the variant lineage B.1.526 (also known as the Iota variant5), which contains E484K, and its rise to dominance in New York City in early 2021 was reported in this article.
Journal ArticleDOI
Exploring the Binding Mechanism of PF-07321332 SARS-CoV-2 Protease Inhibitor through Molecular Dynamics and Binding Free Energy Simulations.
TL;DR: In this article, the binding mechanism of PF-07321332, α-ketoamide, lopinavir, and ritonavir to the coronavirus 3-chymotrypsin-like-protease (3CLpro) was demonstrated by means of docking and molecular dynamic simulations.
Journal ArticleDOI
Understanding the Secret of SARS-CoV-2 Variants of Concern/Interest and Immune Escape.
Fuxing Lou,Maochen Li,Zehan Pang,Lin Jiang,Lin Guan,Lili Tian,Jiaming Hu,Junfen Fan,Huahao Fan +8 more
TL;DR: In this paper, the authors provided a systematic and comprehensive understanding of the secret of SARS-CoV-2 variants of interest/concern and immune escape, and evaluated the neutralizing capability of several antibodies on epidemic variants.
Journal ArticleDOI
Impact of temperature on the affinity of SARS-CoV-2 Spike glycoprotein for host ACE2.
Jérémie Prévost,Jonathan Richard,Romain Gasser,Shilei Ding,Clément Fage,Sai Priya Anand,Damien Adam,Natasha Gupta Vergara,Alexandra Tauzin,Mehdi Benlarbi,Shang Yu Gong,Guillaume Goyette,Anik Privé,Sandrine Moreira,Hugues Charest,Michel Roger,Walther Mothes,Marzena Pazgier,Emmanuelle Brochiero,Guy Boivin,Cameron F. Abrams,Arne Schön,Andrés Finzi,Andrés Finzi +23 more
TL;DR: In this article, the effect of temperature on the receptor-Spike interaction was examined and it was found that the sensitivity of the Spike glycoprotein to low temperatures was increased.
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