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Genomic mutations and changes in protein secondary structure and solvent accessibility of SARS-CoV-2 (COVID-19 virus)

Nguyen, Thanh Thi, Pathirana, Pubudu, Nguyen, Thin, Nguyen, QVH, Bhatti, Asim, Nguyen, DC, Nguyen, DT, Nguyen, Ngoc Duy, Creighton, Douglas and Abdelrazek, Mohamed 2021, Genomic mutations and changes in protein secondary structure and solvent accessibility of SARS-CoV-2 (COVID-19 virus), Scientific Reports, vol. 11, no. 1, pp. 1-16, doi: 10.1038/s41598-021-83105-3.

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Title Genomic mutations and changes in protein secondary structure and solvent accessibility of SARS-CoV-2 (COVID-19 virus)
Author(s) Nguyen, Thanh ThiORCID iD for Nguyen, Thanh Thi orcid.org/0000-0001-9709-1663
Pathirana, PubuduORCID iD for Pathirana, Pubudu orcid.org/0000-0001-8014-7798
Nguyen, ThinORCID iD for Nguyen, Thin orcid.org/0000-0003-3467-8963
Nguyen, QVH
Bhatti, AsimORCID iD for Bhatti, Asim orcid.org/0000-0001-6876-1437
Nguyen, DC
Nguyen, DT
Nguyen, Ngoc Duy
Creighton, DouglasORCID iD for Creighton, Douglas orcid.org/0000-0002-9217-1231
Abdelrazek, MohamedORCID iD for Abdelrazek, Mohamed orcid.org/0000-0003-3812-9785
Journal name Scientific Reports
Volume number 11
Issue number 1
Article ID 3487
Start page 1
End page 16
Total pages 16
Publisher Springer
Place of publication Berlin, Germany
Publication date 2021
ISSN 2045-2322
Summary Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is a highly pathogenic virus that has caused the global COVID-19 pandemic. Tracing the evolution and transmission of the virus is crucial to respond to and control the pandemic through appropriate intervention strategies. This paper reports and analyses genomic mutations in the coding regions of SARS-CoV-2 and their probable protein secondary structure and solvent accessibility changes, which are predicted using deep learning models. Prediction results suggest that mutation D614G in the virus spike protein, which has attracted much attention from researchers, is unlikely to make changes in protein secondary structure and relative solvent accessibility. Based on 6324 viral genome sequences, we create a spreadsheet dataset of point mutations that can facilitate the investigation of SARS-CoV-2 in many perspectives, especially in tracing the evolution and worldwide spread of the virus. Our analysis results also show that coding genes E, M, ORF6, ORF7a, ORF7b and ORF10 are most stable, potentially suitable to be targeted for vaccine and drug development.
Language eng
DOI 10.1038/s41598-021-83105-3
Indigenous content off
HERDC Research category C1 Refereed article in a scholarly journal
Free to Read? Yes
Persistent URL http://hdl.handle.net/10536/DRO/DU:30148106

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Every reasonable effort has been made to ensure that permission has been obtained for items included in DRO. If you believe that your rights have been infringed by this repository, please contact drosupport@deakin.edu.au.