Immunobioinformatics analysis and phylogenetic tree construction of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) in Indonesia: spike glycoprotein gene

Ansori, Arif Nur Muhammad and Kharisma, Viol Dhea and Antonius, Yulanda and Tacharina, Martia Rani and Rantam, Fedik Abdul (2020) Immunobioinformatics analysis and phylogenetic tree construction of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) in Indonesia: spike glycoprotein gene. Jurnal Teknologi Laboratorium, 9 (1). pp. 13-20. ISSN 2580-0191

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Official URL / DOI: https://doi.org/10.29238/teknolabjournal.v9i1.221

Abstract

The outbreak of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), which causes coronavirus disease 2019 (COVID-19), has spread worldwide and as a result, the World Health Organization (WHO) declared it a pandemic. At present, there are no approved vaccines against SARS-CoV-2. Therefore, the aim of this study was to predict epitope-based vaccines using bioinformatics approaches and phylogenetic tree construction of SARS-CoV-2 against the backdrop of the COVID-19 pandemic. In this study, we employed 27 isolates of SARS-CoV-2 spike glycoprotein genes retrieved from GenBank® (National Center for Biotechnology Information, USA) and the GISAID EpiCoV™ Database (Germany). We analyzed the candidate epitopes using the Immune Epitope Database and Analysis Resource. Furthermore, we performed protective antigen prediction with VaxiJen 2.0. Data for B-cell epitope prediction, protective antigen prediction, and the underlying phylogenetic tree of SARS-CoV-2 were obtained in this research. Therefore, these data could be used to design an epitopebased vaccine against SARS-CoV-2. However, advanced study is recommended for confirmation (in vitro and in vivo)

Item Type: Article
Uncontrolled Keywords: COVID-19; Epitope-based vaccine; Immunobioinformatics; Phylogenetic tree; SARS-CoV-2
Subjects: Q Science > Q Science (General)
R Medicine > R Medicine (General)
Divisions: Faculty of Technobiology > Department of Biology
Depositing User: YULANDA ANTONIUS
Date Deposited: 10 Mar 2021 08:48
Last Modified: 24 Mar 2021 16:34
URI: http://repository.ubaya.ac.id/id/eprint/39013

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