First Report of a Complete Genome Sequence of a Variant African Swine Fever Virus in the Mekong Delta, Vietnam

Nguyen Duc Hien; Lam Thanh Nguyen; Le Trung Hoang; Nguyen Ngoc Bich; To My Quyen; Norikazu Isoda; Yoshihiro Sakoda

doi:10.3390/pathogens11070797

Pathogens (Jul 2022)

First Report of a Complete Genome Sequence of a Variant African Swine Fever Virus in the Mekong Delta, Vietnam

Nguyen Duc Hien,
Lam Thanh Nguyen,
Le Trung Hoang,
Nguyen Ngoc Bich,
To My Quyen,
Norikazu Isoda,
Yoshihiro Sakoda

Affiliations

Nguyen Duc Hien: Department of Veterinary Medicine, College of Agriculture, Can Tho University, Campus II, 3/2 Street, Ninh Kieu District, Can Tho 900000, Vietnam
Lam Thanh Nguyen: Department of Veterinary Medicine, College of Agriculture, Can Tho University, Campus II, 3/2 Street, Ninh Kieu District, Can Tho 900000, Vietnam
Le Trung Hoang: Department of Veterinary Medicine, College of Agriculture, Can Tho University, Campus II, 3/2 Street, Ninh Kieu District, Can Tho 900000, Vietnam
Nguyen Ngoc Bich: Department of Veterinary Medicine, College of Agriculture, Can Tho University, Campus II, 3/2 Street, Ninh Kieu District, Can Tho 900000, Vietnam
To My Quyen: Department of Veterinary Medicine, College of Agriculture, Can Tho University, Campus II, 3/2 Street, Ninh Kieu District, Can Tho 900000, Vietnam
Norikazu Isoda: Laboratory of Microbiology, Department of Disease Control, Faculty of Veterinary Medicine, Hokkaido University, North 18, West 9, Kita-ku, Sapporo 060-0818, Hokkaido, Japan
Yoshihiro Sakoda: Laboratory of Microbiology, Department of Disease Control, Faculty of Veterinary Medicine, Hokkaido University, North 18, West 9, Kita-ku, Sapporo 060-0818, Hokkaido, Japan

DOI: https://doi.org/10.3390/pathogens11070797
Journal volume & issue: Vol. 11, no. 7
p. 797

Abstract

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The objective of this study is to report the complete-genome sequence of a field African swine fever (ASF) virus (ASFV), namely ASF/VN/CanTho-OM/2021, which caused a fatal outbreak in domestic pigs in the Mekong Delta. Complete-genome sequencing detected an 18 bp nucleotide deletion in the EP402R gene (encoding for serotype-specific proteins CD2v) of ASF/VN/CanTho-OM/2021, which was determined to belong to genotype 2 and serotype 8. This mutation pattern was confirmed as unique in GenBank; thus, ASF/VN/CanTho-OM/2021 can be considered a novel variant, with a potential change of sero-characteristics within genotype 2. An additional unique mutation of 78 bp nucleotide insertion was also observed in the B475L gene. Additionally, four copies of tandem repeat sequences were found in the intergenic region (IGR) located between I73R and I329L, previously assigned as the IGR III variant. This study is the first to report the complete genome of ASFV in the Mekong Delta, and it highlights the necessity of strengthening molecular surveillance to provide further knowledge on the evolution and incursion of ASFV in the Mekong Delta and Vietnam.

Published in Pathogens

ISSN: 2076-0817 (Online)
Publisher: MDPI AG
Country of publisher: Switzerland
LCC subjects: Medicine
Website: http://www.mdpi.com/journal/pathogens

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