TY - JOUR
T1 - A unique view of SARS-COV-2 through the lens of ORF8 protein
AU - Hassan, Sk Sarif
AU - Aljabali, Alaa A A
AU - Panda, Pritam Kumar
AU - Ghosh, Shinjini
AU - Attrish, Diksha
AU - Choudhury, Pabitra Pal
AU - Seyran, Murat
AU - Pizzol, Damiano
AU - Adadi, Parise
AU - Abd El-Aziz, Tarek Mohamed
AU - Soares, Antonio
AU - Kandimalla, Ramesh
AU - Lundstrom, Kenneth
AU - Lal, Amos
AU - Azad, Gajendra Kumar
AU - Uversky, Vladimir N
AU - Sherchan, Samendra P
AU - Baetas-da-Cruz, Wagner
AU - Uhal, Bruce D
AU - Rezaei, Nima
AU - Chauhan, Gaurav
AU - Barh, Debmalya
AU - Redwan, Elrashdy M
AU - Dayhoff, Guy W
AU - Bazan, Nicolas G
AU - Serrano-Aroca, Ángel
AU - El-Demerdash, Amr
AU - Mishra, Yogendra K
AU - Palu, Giorgio
AU - Takayama, Kazuo
AU - Brufsky, Adam M
AU - Tambuwala, Murtaza M
N1 - Copyright © 2021 The Authors. Published by Elsevier Ltd.. All rights reserved.
PY - 2021/6/30
Y1 - 2021/6/30
N2 - Immune evasion is one of the unique characteristics of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) attributed to its ORF8 protein. This protein modulates the adaptive host immunity through down-regulation of MHC-1 (Major Histocompatibility Complex) molecules and innate immune responses by surpassing the host's interferon-mediated antiviral response. To understand the host's immune perspective in reference to the ORF8 protein, a comprehensive study of the ORF8 protein and mutations possessed by it have been performed. Chemical and structural properties of ORF8 proteins from different hosts, such as human, bat, and pangolin, suggest that the ORF8 of SARS-CoV-2 is much closer to ORF8 of Bat RaTG13-CoV than to that of Pangolin-CoV. Eighty-seven mutations across unique variants of ORF8 in SARS-CoV-2 can be grouped into four classes based on their predicted effects (Hussain et al., 2021) [1]. Based on the geo-locations and timescale of sample collection, a possible flow of mutations was built. Furthermore, conclusive flows of amalgamation of mutations were found upon sequence similarity analyses and consideration of the amino acid conservation phylogenies. Therefore, this study seeks to highlight the uniqueness of the rapidly evolving SARS-CoV-2 through the ORF8.
AB - Immune evasion is one of the unique characteristics of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) attributed to its ORF8 protein. This protein modulates the adaptive host immunity through down-regulation of MHC-1 (Major Histocompatibility Complex) molecules and innate immune responses by surpassing the host's interferon-mediated antiviral response. To understand the host's immune perspective in reference to the ORF8 protein, a comprehensive study of the ORF8 protein and mutations possessed by it have been performed. Chemical and structural properties of ORF8 proteins from different hosts, such as human, bat, and pangolin, suggest that the ORF8 of SARS-CoV-2 is much closer to ORF8 of Bat RaTG13-CoV than to that of Pangolin-CoV. Eighty-seven mutations across unique variants of ORF8 in SARS-CoV-2 can be grouped into four classes based on their predicted effects (Hussain et al., 2021) [1]. Based on the geo-locations and timescale of sample collection, a possible flow of mutations was built. Furthermore, conclusive flows of amalgamation of mutations were found upon sequence similarity analyses and consideration of the amino acid conservation phylogenies. Therefore, this study seeks to highlight the uniqueness of the rapidly evolving SARS-CoV-2 through the ORF8.
KW - Mutational hotspots
KW - ORF8
KW - ORF8 evolution
KW - Phylogenetics
KW - Physicochemical properties
KW - SARS-CoV-2
KW - COVID-19
KW - Genome, Viral
KW - Humans
KW - Phylogeny
KW - Evolution, Molecular
UR - http://www.scopus.com/inward/record.url?scp=85104334213&partnerID=8YFLogxK
U2 - 10.1016/j.compbiomed.2021.104380
DO - 10.1016/j.compbiomed.2021.104380
M3 - Article
C2 - 33872970
SN - 1879-0534
VL - 133
JO - Computers in biology and medicine
JF - Computers in biology and medicine
M1 - 104380
ER -
