Evolutionary analysis of SARS-CoV-2: how mutation of Non-Structural Protein 6 (NSP6) could affect viral autophagy.
Autophagy
Betacoronavirus
/ genetics
COVID-19
Capsid Proteins
/ genetics
Coronavirus Infections
/ virology
Coronavirus Nucleocapsid Proteins
Evolution, Molecular
Gene Expression Regulation, Viral
Genome, Viral
Humans
Likelihood Functions
Models, Molecular
Mutation
Open Reading Frames
Pandemics
Pneumonia, Viral
/ virology
Protein Conformation
SARS-CoV-2
Autophagy
Bio-informatic
COVID-19
Coronavirus
Molecular evolution
SARS-CoV-2
Journal
The Journal of infection
ISSN: 1532-2742
Titre abrégé: J Infect
Pays: England
ID NLM: 7908424
Informations de publication
Date de publication:
07 2020
07 2020
Historique:
received:
27
03
2020
accepted:
28
03
2020
pubmed:
14
4
2020
medline:
27
6
2020
entrez:
14
4
2020
Statut:
ppublish
Résumé
SARS-CoV-2 is a new coronavirus that has spread globally, infecting more than 150000 people, and being declared pandemic by the WHO. We provide here bio-informatic, evolutionary analysis of 351 available sequences of its genome with the aim of mapping genome structural variations and the patterns of selection. A Maximum likelihood tree has been built and selective pressure has been investigated in order to find any mutation developed during the SARS-CoV-2 epidemic that could potentially affect clinical evolution of the infection. We have found in more recent isolates the presence of two mutations affecting the Non-Structural Protein 6 (NSP6) and the Open Reding Frame10 (ORF 10) adjacent regions. Amino acidic change stability analysis suggests both mutations could confer lower stability of the protein structures. One of the two mutations, likely developed within the genome during virus spread, could affect virus intracellular survival. Genome follow-up of SARS-CoV-2 spread is urgently needed in order to identify mutations that could significantly modify virus pathogenicity.
Sections du résumé
BACKGROUND
SARS-CoV-2 is a new coronavirus that has spread globally, infecting more than 150000 people, and being declared pandemic by the WHO. We provide here bio-informatic, evolutionary analysis of 351 available sequences of its genome with the aim of mapping genome structural variations and the patterns of selection.
METHODS
A Maximum likelihood tree has been built and selective pressure has been investigated in order to find any mutation developed during the SARS-CoV-2 epidemic that could potentially affect clinical evolution of the infection.
FINDING
We have found in more recent isolates the presence of two mutations affecting the Non-Structural Protein 6 (NSP6) and the Open Reding Frame10 (ORF 10) adjacent regions. Amino acidic change stability analysis suggests both mutations could confer lower stability of the protein structures.
INTERPRETATION
One of the two mutations, likely developed within the genome during virus spread, could affect virus intracellular survival. Genome follow-up of SARS-CoV-2 spread is urgently needed in order to identify mutations that could significantly modify virus pathogenicity.
Identifiants
pubmed: 32283146
pii: S0163-4453(20)30186-9
doi: 10.1016/j.jinf.2020.03.058
pmc: PMC7195303
pii:
doi:
Substances chimiques
Capsid Proteins
0
Coronavirus Nucleocapsid Proteins
0
NSP6 protein, SARS-CoV-2
0
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
e24-e27Informations de copyright
Copyright © 2020 Elsevier Ltd. All rights reserved.
Déclaration de conflit d'intérêts
Declaration of Competing Interest We declare no competing interests.
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