tetano
Editor, Senior Moderator
Comput Biol Med
. 2021 Apr 15;133:104380.
doi: 10.1016/j.compbiomed.2021.104380. Online ahead of print.
A unique view of SARS-COV-2 through the lens of ORF8 protein
Sk Sarif Hassan[SUP] 1 [/SUP], Alaa A A Aljabali[SUP] 2 [/SUP], Pritam Kumar Panda[SUP] 3 [/SUP], Shinjini Ghosh[SUP] 4 [/SUP], Diksha Attrish[SUP] 5 [/SUP], Pabitra Pal Choudhury[SUP] 6 [/SUP], Murat Seyran[SUP] 7 [/SUP], Damiano Pizzol[SUP] 8 [/SUP], Parise Adadi[SUP] 9 [/SUP], Tarek Mohamed Abd El-Aziz[SUP] 10 [/SUP], Antonio Soares[SUP] 11 [/SUP], Ramesh Kandimalla[SUP] 12 [/SUP], Kenneth Lundstrom[SUP] 13 [/SUP], Amos Lal[SUP] 14 [/SUP], Gajendra Kumar Azad[SUP] 15 [/SUP], Vladimir N Uversky[SUP] 16 [/SUP], Samendra P Sherchan[SUP] 17 [/SUP], Wagner Baetas-da-Cruz[SUP] 18 [/SUP], Bruce D Uhal[SUP] 19 [/SUP], Nima Rezaei[SUP] 20 [/SUP], Gaurav Chauhan[SUP] 21 [/SUP], Debmalya Barh[SUP] 22 [/SUP], Elrashdy M Redwan[SUP] 23 [/SUP], Guy W Dayhoff 2nd[SUP] 24 [/SUP], Nicolas G Bazan[SUP] 25 [/SUP], ?ngel Serrano-Aroca[SUP] 26 [/SUP], Amr El-Demerdash[SUP] 27 [/SUP], Yogendra K Mishra[SUP] 28 [/SUP], Giorgio Palu[SUP] 29 [/SUP], Kazuo Takayama[SUP] 30 [/SUP], Adam M Brufsky[SUP] 31 [/SUP], Murtaza M Tambuwala[SUP] 32 [/SUP]
Affiliations
Abstract
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 concerning 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.
Keywords: Mutational hotspots; ORF8; ORF8 evolution; Phylogenetics; Physicochemical properties; SARS-CoV-2.
. 2021 Apr 15;133:104380.
doi: 10.1016/j.compbiomed.2021.104380. Online ahead of print.
A unique view of SARS-COV-2 through the lens of ORF8 protein
Sk Sarif Hassan[SUP] 1 [/SUP], Alaa A A Aljabali[SUP] 2 [/SUP], Pritam Kumar Panda[SUP] 3 [/SUP], Shinjini Ghosh[SUP] 4 [/SUP], Diksha Attrish[SUP] 5 [/SUP], Pabitra Pal Choudhury[SUP] 6 [/SUP], Murat Seyran[SUP] 7 [/SUP], Damiano Pizzol[SUP] 8 [/SUP], Parise Adadi[SUP] 9 [/SUP], Tarek Mohamed Abd El-Aziz[SUP] 10 [/SUP], Antonio Soares[SUP] 11 [/SUP], Ramesh Kandimalla[SUP] 12 [/SUP], Kenneth Lundstrom[SUP] 13 [/SUP], Amos Lal[SUP] 14 [/SUP], Gajendra Kumar Azad[SUP] 15 [/SUP], Vladimir N Uversky[SUP] 16 [/SUP], Samendra P Sherchan[SUP] 17 [/SUP], Wagner Baetas-da-Cruz[SUP] 18 [/SUP], Bruce D Uhal[SUP] 19 [/SUP], Nima Rezaei[SUP] 20 [/SUP], Gaurav Chauhan[SUP] 21 [/SUP], Debmalya Barh[SUP] 22 [/SUP], Elrashdy M Redwan[SUP] 23 [/SUP], Guy W Dayhoff 2nd[SUP] 24 [/SUP], Nicolas G Bazan[SUP] 25 [/SUP], ?ngel Serrano-Aroca[SUP] 26 [/SUP], Amr El-Demerdash[SUP] 27 [/SUP], Yogendra K Mishra[SUP] 28 [/SUP], Giorgio Palu[SUP] 29 [/SUP], Kazuo Takayama[SUP] 30 [/SUP], Adam M Brufsky[SUP] 31 [/SUP], Murtaza M Tambuwala[SUP] 32 [/SUP]
Affiliations
- PMID: 33872970
- DOI: 10.1016/j.compbiomed.2021.104380
Abstract
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 concerning 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.
Keywords: Mutational hotspots; ORF8; ORF8 evolution; Phylogenetics; Physicochemical properties; SARS-CoV-2.