SARS-CoV-2 lineages circulating during the first wave of the pandemic in North Sumatra, Indonesia

OBJECTIVES: To determine the lineage distribution of the virus during the first wave of the pandemic in North Sumatra, Indonesia. METHODS: A total of 20 samples with positive results based on reverse transcription-polymerase chain reaction were selected for virus culture and then performed whole-gen...

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Detalles Bibliográficos
Autores principales: Bestari, Ramadhan, Nainggolan, Irbah Rea Alvieda, Hasibuan, Mirzan, Ratnanggana, Rima, Rahardjo, Krisnoadi, Nastri, Aldise Mareta, Dewantari, Jezzy Renova, Soetjipto, Soetjipto, Lusida, Maria Inge, Mori, Yasuko, Shimizu, Kazufumi, Kusumawati, R Lia, Ichwan, Muhammad, Lubis, Inke Nadia Diniyanti
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Elsevier 2023
Materias:
Article
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10548867/
https://www.ncbi.nlm.nih.gov/pubmed/37799539
http://dx.doi.org/10.1016/j.ijregi.2023.07.006
Descripción
Sumario:OBJECTIVES: To determine the lineage distribution of the virus during the first wave of the pandemic in North Sumatra, Indonesia. METHODS: A total of 20 samples with positive results based on reverse transcription-polymerase chain reaction were selected for virus culture and then performed whole-genome sequence analysis using next-generation sequencing which was applied by the Illumina MiSeq instrument. RESULTS: Whole-genome sequence analysis revealed that the majority of our samples belong to lineages B.1.468 (n = 10), B.1 (n = 5), B.1.1 (n = 2), B.1.1.398 (n = 2), and B.6 (n = 1). Other unique amino acid mutations found in our samples were present in A58T on non-structural protein (NSP3) (70%), P323L on NSP12 (95%), Q57H on NS3 protein (75%), and D614G on S (100%). CONCLUSION: The SARS-CoV-2 lineage B.1.468 may be the main virus variant circulating in North Sumatra at the beginning of the emergence of COVID-19 cases in this province.

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