Please use this identifier to cite or link to this item: https://dspace.ctu.edu.vn/jspui/handle/123456789/43115
Title: Whole-genome sequencing and de novo assembly of a 2019 novel coronavirus (sars-cov-2) strain isolated in Vietnam
Authors: Le, Tung Lam
Nguyen, Trung Hieu
Nguyen, Hong Trang
Ho, Thi Thuong
Tran, Huyen Linh
Luu, Thuy Tien
Nguyen, Thi Ngoc Thao
Huynh, Thi Kim Loan
Pham, Duy Quang
Luong, Chan Quang
Cao, Minh Thang
Nguyen, Vu Thuong
Hoang Ha
Chu, Hoang Ha
Phan, Trong Lan
Truong, Nam Hai
Keywords: COVID-19
De novo sequencing
PacBio
SARS-CoV-2
SMRT sequencing
Whole-genome sequencing
Issue Date: 2020
Series/Report no.: Journal of Biotechnology;Vol. 18, No. 02 .- P.197-208
Abstract: The pandemic COVID-19 caused by the virus SARS-CoV-2 has devastated countries worldwide, infecting more than 4.5 million people and leading to more than 300,000 deaths as of May 16th, 2020. Whole-genome sequencing (WGS) is an effective tool to monitor emerging strains and provide information for intervention, thus help to inform outbreak control decisions. Here, we reported the first effort to sequence and de novo assemble the whole genome of SARS-CoV-2 using PacBio’s SMRT sequencing technology in Vietnam. We also presented the annotation results and a brief analysis of the variants found in our SARS-CoV-2 strain, which was isolated from a Vietnamese patient. The sequencing was successfully completed and de novo assembled in less than 30 hours, resulting in one contig with no gap and a length of 29,766 bp. All detected variants as compared to the NCBI reference were highly accurate, as confirmed by Sanger sequencing. The results have shown the potential of long read sequencing to provide high quality WGS data to support public health responses and advance understanding of this and future pandemics.
URI: https://dspace.ctu.edu.vn/jspui/handle/123456789/43115
ISSN: 1811-4989
Appears in Collections:Công nghệ sinh học

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