Structural and Functional Analysis of the D614G SARS-CoV-2 Spike Protein Variant.
Leonid Yurkovetskiy,Xue Wang,Kristen E. Pascal,Christopher Tomkins-Tinch,Thomas Nyalile,Yetao Wang,Alina Baum,William E. Diehl,Ann Dauphin,Claudia Carbone,Kristen Veinotte,Shawn B. Egri,Stephen F. Schaffner,Stephen F. Schaffner,Jacob E. Lemieux,James B. Munro,Ashique Rafique,Abhi Barve,Pardis C. Sabeti,Christos A. Kyratsous,Natalya Dudkina,Kuang Shen,Jeremy Luban +22 more
TLDR
It is shown that D614G was more infectious than the ancestral form on human lung cells, colon cells, and on cells rendered permissive by ectopic expression of human ACE2 or of ACE2 orthologs from various mammals, including Chinese rufous horseshoe bat and Malayan pangolin.About:
This article is published in Cell.The article was published on 2020-10-29 and is currently open access. It has received 840 citations till now. The article focuses on the topics: Virion membrane & Protein structure.read more
Citations
More filters
Journal ArticleDOI
The Genetic Variant of SARS-CoV-2: would It Matter for Controlling the Devastating Pandemic?
Shuxin Guo,Kefang Liu,Jun Zheng +2 more
TL;DR: In this article, the authors summarized the current understanding on five notable genetic variants, i.e., D614G, Cluster 5, VOC 202012/01, 501Y.V2 and P.1, and discussed the potential impact of these variants on the virus transmission, pathogenesis and vaccine efficacy.
Journal ArticleDOI
Production and Characterization of Nucleocapsid and RBD Cocktail Antigens of SARS-CoV-2 in Nicotiana benthamiana Plant as a Vaccine Candidate against COVID-19.
Tarlan Mamedov,Damla Yuksel,Merve Ilgın,Irem Gurbuzaslan,Burcu Gulec,Gulshan Mammadova,Aykut Ozdarendeli,Hazel Yetiskin,Busra Kaplan,Shaikh Terkis Islam Pavel,Muhammet Ali Uygut,Gulnara Hasanova +11 more
TL;DR: In this paper, the nucleocapsid (N) protein was co-expressed with RBD of SARS-CoV-2 in Nicotiana benthamiana plant to produce an antigen cocktail.
Journal ArticleDOI
Evolution of the SARS-CoV-2 proteome in three dimensions (3D) during the first 6 months of the COVID-19 pandemic.
Joseph H Lubin,Christine Zardecki,Elliott M Dolan,Changpeng Lu,Zhuofan Shen,Shuchismita Dutta,John D. Westbrook,Brian P. Hudson,David S. Goodsell,Jonathan K. Williams,Maria Voigt,Vidur Sarma,Lingjun Xie,Thejasvi Venkatachalam,Steven Arnold,Luz Helena Alfaro Alvarado,Kevin Catalfano,Aaliyah Khan,Erika McCarthy,Sophia Staggers,Brea Tinsley,Alan Trudeau,Jitendra Singh,Lindsey Whitmore,Helen Zheng,Matthew Benedek,Jenna Currier,Mark Dresel,Ashish Duvvuru,Britney Dyszel,Emily Fingar,Elizabeth M Hennen,Michael Kirsch,Ali A Khan,Charlotte Labrie-Cleary,Stephanie Laporte,Evan Lenkeit,Kailey Martin,Marilyn Orellana,Melanie Ortiz-Alvarez de la Campa,Isaac Paredes,Baleigh Wheeler,Allison Rupert,Andrew Sam,Katherine See,Santiago Soto Zapata,Paul Craig,Bonnie L. Hall,Jennifer Jiang,Julia R. Koeppe,Stephen A. Mills,Michael J. Pikaart,Rebecca Roberts,Yana Bromberg,J. Steen Hoyer,Siobain Duffy,Jay A. Tischfield,Francesc X. Ruiz,Eddy Arnold,Jean Baum,Jesse Sandberg,Grace Brannigan,Sagar D. Khare,Stephen K. Burley +63 more
TL;DR: In this article, three-dimensional structures of SARS-CoV-2 proteins and those of other coronavirusess archived in the Protein Data Bank were used to analyze viral proteome evolution during the first 6 months of the COVID-19 pandemic.
Journal ArticleDOI
Immune Escape Associated with RBD Omicron Mutations and SARS-CoV-2 Evolution Dynamics
Aleksandr V Kudriavtsev,Anna V Vakhrusheva,Valery N. Novosеletsky,Marine E. Bozdaganyan,Konstantin V. Shaitan,Mikhail P. Kirpichnikov,Olga Sokolova +6 more
TL;DR: Omicron is a rapidly evolving variant of high concern, whose new subvariants continue to manifest, whose further understanding and the further monitoring of key mutations that provide virus immune escape and/or high affinity towards the receptor could be useful for vaccine and therapeutic development in order to control the evolutionary direction of the COVID-19 pandemic.
Posted ContentDOI
Evolution of the SARS-CoV-2 proteome in three dimensions (3D) during the first six months of the COVID-19 pandemic
Joseph H Lubin,Christine Zardecki,Elliott M Dolan,Changpeng Lu,Zhuofan Shen,Shuchismita Dutta,John D. Westbrook,Brian P. Hudson,David S. Goodsell,Jonathan K. Williams,Maria Voigt,Vidur Sarma,Lingjun Xie,Thejasvi Venkatachalam,Steven Arnold,Luz Helena Alfaro Alvarado,Kevin Catalfano,Aaliyah Khan,Erika McCarthy,Sophia Staggers,Brea Tinsley,Alan Trudeau,Jitendra Singh,Lindsey Whitmore,Helen Zheng,Matthew Benedek,Jenna Currier,Mark Dresel,Ashish Duvvuru,Britney Dyszel,Emily Fingar,Elizabeth M Hennen,Michael Kirsch,Ali A Khan,Charlotte Labrie-Cleary,Stephanie Laporte,Evan Lenkeit,Kailey Martin,Marilyn Orellana,Melanie Ortiz-Alvarez de la Campa,Isaac Paredes,Baleigh Wheeler,Allison Rupert,Andrew Sam,Katherine See,Santiago Soto Zapata,Paul Craig,Bonnie L. Hall,Jennifer Jiang,Julia R. Koeppe,Stephen A. Mills,Michael J. Pikaart,Rebecca Roberts,Yana Bromberg,J. Steen Hoyer,Siobain Duffy,Jay A. Tischfield,Francesc X. Ruiz,Eddy Arnold,Jean Baum,Jesse Sandberg,Grace Brannigan,Sagar D. Khare,Stephen K. Burley +63 more
TL;DR: Three-dimensional structures of SARS-CoV-2 and other coronaviral proteins archived in the Protein Data Bank were used to analyze viral proteome evolution during the first six months of the COVID-19 pandemic, highlighting substitutions with the potential to impact protein structure, enzyme activity, and functional interfaces.
References
More filters
Journal ArticleDOI
The Sequence Alignment/Map format and SAMtools
Heng Li,Bob Handsaker,Alec Wysoker,T. J. Fennell,Jue Ruan,Nils Homer,Gabor T. Marth,Gonçalo R. Abecasis,Richard Durbin +8 more
TL;DR: SAMtools as discussed by the authors implements various utilities for post-processing alignments in the SAM format, such as indexing, variant caller and alignment viewer, and thus provides universal tools for processing read alignments.
Journal ArticleDOI
Clinical features of patients infected with 2019 novel coronavirus in Wuhan, China
Chaolin Huang,Yeming Wang,Xingwang Li,Lili Ren,Jianping Zhao,Yi Hu,Li Zhang,Guohui Fan,Jiuyang Xu,Xiaoying Gu,Zhenshun Cheng,Ting Yu,Jia'an Xia,Yuan Wei,Wenjuan Wu,Xuelei Xie,Wen Yin,Li Hui,Min Liu,Yan Xiao,Hong Gao,Li Guo,Jungang Xie,Guang-Fa Wang,Rongmeng Jiang,Zhancheng Gao,Qi Jin,Jianwei Wang,Bin Cao +28 more
TL;DR: The epidemiological, clinical, laboratory, and radiological characteristics and treatment and clinical outcomes of patients with laboratory-confirmed 2019-nCoV infection in Wuhan, China, were reported.
Journal ArticleDOI
MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability
Kazutaka Katoh,Daron M. Standley +1 more
TL;DR: This version of MAFFT has several new features, including options for adding unaligned sequences into an existing alignment, adjustment of direction in nucleotide alignment, constrained alignment and parallel processing, which were implemented after the previous major update.
Journal ArticleDOI
Matplotlib: A 2D Graphics Environment
TL;DR: Matplotlib is a 2D graphics package used for Python for application development, interactive scripting, and publication-quality image generation across user interfaces and operating systems.
Journal ArticleDOI
A Novel Coronavirus from Patients with Pneumonia in China, 2019.
Na Zhu,Dingyu Zhang,Wenling Wang,Xingwang Li,Bo Yang,Jingdong Song,Xiang Zhao,Baoying Huang,Weifeng Shi,Roujian Lu,Peihua Niu,Faxian Zhan,Xuejun Ma,Dayan Wang,Wenbo Xu,Wenbo Xu,Guizhen Wu,George F. Gao,Wenjie Tan +18 more
TL;DR: Human airway epithelial cells were used to isolate a novel coronavirus, named 2019-nCoV, which formed a clade within the subgenus sarbecovirus, Orthocoronavirinae subfamily, which is the seventh member of the family of coronaviruses that infect humans.
Related Papers (5)
Tracking Changes in SARS-CoV-2 Spike: Evidence that D614G Increases Infectivity of the COVID-19 Virus.
Bette T. Korber,Will Fischer,Sandrasegaram Gnanakaran,Hyejin Yoon,James Theiler,Werner Abfalterer,Nick Hengartner,Elena E. Giorgi,Tanmoy Bhattacharya,Brian T. Foley,Kathryn M. Hastie,Matthew Parker,David G Partridge,Cariad Evans,Timothy M. Freeman,Thushan I de Silva,Adrienne Angyal,Rebecca Brown,Laura Carrilero,Luke R. Green,Luke R. Green,Luke R. Green,Danielle C. Groves,Katie Johnson,Alexander J Keeley,Benjamin B Lindsey,Paul J. Parsons,Mohammad Raza,Sarah Rowland-Jones,Nikki Smith,Rachel Tucker,Dennis Wang,Matthew Wyles,Charlene McDanal,Lautaro G. Perez,Haili Tang,Alex Moon-Walker,Alex Moon-Walker,Alex Moon-Walker,Sean P. J. Whelan,Celia C. LaBranche,Erica Ollmann Saphire,David C. Montefiori +42 more
A pneumonia outbreak associated with a new coronavirus of probable bat origin
Peng Zhou,Xing-Lou Yang,Xian Guang Wang,Ben Hu,Lei Zhang,Wei Zhang,Hao Rui Si,Yan Zhu,Bei Li,Chao Lin Huang,Hui-Dong Chen,Jing Chen,Yun Luo,Hua Guo,Ren Di Jiang,Meiqin Liu,Ying Chen,Xu Rui Shen,Xi Wang,Xiao Shuang Zheng,Kai Zhao,Quanjiao Chen,Fei Deng,Lin Lin Liu,Bing Yan,Fa Xian Zhan,Yan-Yi Wang,Gengfu Xiao,Zhengli Shi +28 more