A phylogenetic analysis of Indonesian SARS-CoV-2 isolates from March to December 2020: Compared with Delta and Mu variant

Abstract

Indonesia's economy and global health is endangered due to the SARS-CoV-2 outbreak. Our present study aims to examine the phylogenetic analysis of SARS-CoV-2 isolates in Indonesia and compare these isolates to other Southeast Asian countries. In the present study, we retrieved 105 isolates from GISAID EpiCoV and other isolates from GenBank, NCBI. Then, we extracted the full genome and focused on the spike (S) protein gene (3882 bp). We employed Molecular Evolutionary Genetics Analysis (MEGA X) software to construct a phylogenetic analysis using the maximum likelihood approach. Here, we demonstrated and revealed the relationship between Indonesian and other Southeast Asian SARS-CoV-2 isolates. In summary, our work presents the phylogenetic analysis of 105 isolates in Indonesia. Our study assists in monitoring the deployment of the disease spreading. Furthermore, we suggest that the genomics and epidemiological surveillance investigations on COVID-19 should be enhanced, especially in Indonesia.

Keywords

• covid-19
• coronaviruses
• sars-cov-2
• phylogenetic analysis
• spike protein