Analysis of Genetic Characterization and Phylogenetic of SARS-CoV-2 from Manokwari West Papua

Mudyawati Kamaruddin; Muhamad Fazri; Hana Hapsari; Risa Umami; Ardi Pranata; Ayi Suwarai; Era Maryani; Nurul Cahyani Amir; Ratnasari Dewi; Nurhidayat Triananinsi

doi:10.2991/978-94-6463-132-6_26

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Analysis of Genetic Characterization and Phylogenetic of SARS-CoV-2 from Manokwari West Papua

Authors

Mudyawati Kamaruddin¹^{, *}, Muhamad Fazri¹, Hana Hapsari², Risa Umami¹, Ardi Pranata³, Ayi Suwarai⁴, Era Maryani⁴, Nurul Cahyani Amir⁴, Ratnasari Dewi⁵, Nurhidayat Triananinsi⁶

¹Postgraduate Program of Clinical Laboratory Sciences, Muhammadiyah Semarang University, Semarang, Central Java, Indonesia

²Indonesia Ministry of Health Research and Development, Jakarta, Indonesia

³Medical Laboratory Technology, Faculty of Nursing and Health Sciences, Muhammadiyah Semarang University, Semarang, Central Java, Indonesia

⁴Molecular Laboratory, Central Hospital of Manokwari, West Papua, Indonesia

⁵Health Polytechnic of Health Ministry, Makassar, South Sulawesi, Indonesia

⁶Midwifery Program of Megarezky University, Makassar, South Sulawesi, Indonesia

^*Corresponding author. Email: mudyawati@unimus.ac.id

Corresponding Author

Mudyawati Kamaruddin

Available Online 19 April 2023.

DOI: 10.2991/978-94-6463-132-6_26 How to use a DOI?
Keywords: CoViD-19; Genetic Characterization; Phylogenetic; Virus Variants
Abstract: Genome analysis is critical for tracking the spread of the CoVid-19 virus throughout Indonesia. Considering that Indonesia is an archipelago, the demographics of each province will create different virus variance results. The genome sequence, virus variants, and phylogenetic description of the SARS-CoV-2 strain from Manokwari, West Papua, are being determined urgently. The entire genome was sequenced using the Reagan Illumina COVIDSeq and the sequencing by synthesis (SBS) method. Annotation of the entire viral genome using the hCoV-19/Wuhan/Hu-1/2019 reference genome (NC 045512.2). Phylogenetic analysis was performed on 54 SARS-CoV-2 genomes obtained from GISAID in Indonesia and other countries. The virus strains found in Manokwari, West Papua, are Delta (B.1.617.2), B.1.466.2, and Omicron (BA.1, BA.1.15, and BA.1.13.1). The SARS-CoV-2 strain from Manokwari is classified into VOC and VUM variants based on the WHO variant classification. According to the results of genetic characterization analysis, the ORF1ab NSP3 gene, ORF3 gene, ORF7 gene, N gene, and S gene had the most mutations. The West Papua strain of SARS-CoV-2 Manokwari has ten clades, with the B.1.466.2 virus variant adjacent to the B.1.466.2 virus variant from Southeast Sulawesi and West Sumatra, according to the phylogenetic analysis of virus variants. The Manokwari West Papua SARS-CoV-2 virus strain has three variants: Delta (B.1.617.2), B.1.466.2, and Omicron (BA.1, BA.1.15 and BA.1.13.1).
Open Access: Open Access This chapter is licensed under the terms of the Creative Commons Attribution-NonCommercial 4.0 International License (http://creativecommons.org/licenses/by-nc/4.0/), which permits any noncommercial use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license and indicate if changes were made.

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Volume Title: Proceedings of the 1st Lawang Sewu International Symposium 2022 on Health Sciences (LSISHS 2022)
Series: Advances in Health Sciences Research
Publication Date: 19 April 2023
ISBN: 10.2991/978-94-6463-132-6_26
ISSN: 2468-5739
DOI: 10.2991/978-94-6463-132-6_26 How to use a DOI?
Open Access: Open Access This chapter is licensed under the terms of the Creative Commons Attribution-NonCommercial 4.0 International License (http://creativecommons.org/licenses/by-nc/4.0/), which permits any noncommercial use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license and indicate if changes were made.

Cite this article

ris enw bib

TY  - CONF
AU  - Mudyawati Kamaruddin
AU  - Muhamad Fazri
AU  - Hana Hapsari
AU  - Risa Umami
AU  - Ardi Pranata
AU  - Ayi Suwarai
AU  - Era Maryani
AU  - Nurul Cahyani Amir
AU  - Ratnasari Dewi
AU  - Nurhidayat Triananinsi
PY  - 2023
DA  - 2023/04/19
TI  - Analysis of Genetic Characterization and Phylogenetic of SARS-CoV-2 from Manokwari West Papua
BT  - Proceedings of the 1st Lawang Sewu International Symposium 2022 on Health Sciences (LSISHS 2022)
PB  - Atlantis Press
SP  - 221
EP  - 233
SN  - 2468-5739
UR  - https://doi.org/10.2991/978-94-6463-132-6_26
DO  - 10.2991/978-94-6463-132-6_26
ID  - Kamaruddin2023
ER  -

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