Phylogenomic analysis of African swine fever virus isolates from the Philippines-Reference-Cited by-同舟云学术

Phylogenomic analysis of African swine fever virus isolates from the Philippines

Published:2024-07-03 Issue: Volume: Page:
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Author:

Ko Szarina Krisha K.¹,Navarro Rohani C.¹^ORCID,Galarion Ma Jowina H.²,Janairo Gabriela Ilona B.¹^ORCID,Abarientos Adrian B.¹,Azul Rachel R.³,Legaspi Cristina F.³,Maravilla Jennifer L.³,Schwem Brian E.¹

Affiliation:

1. National Institute of Molecular Biology and Biotechnology, National Institutes of Health, University of the Philippines Manila

2. University of Glasgow Centre for Virus Research

3. Animal Disease Diagnostic and Reference Laboratory, Bureau of Animal Industry

Abstract

African swine fever (ASF) is a re-emerging viral disease of swine, causing highly contagious hemorrhagic infection and devastating mortality in domestic pigs. It was first reported in the Philippines in July 2019 and outbreaks have since spread nationwide, reportedly reducing 30% of the local swine population. The present study aims to analyze the phylogenomic characteristics of two ASF virus isolates collected from outbreaks in the Philippines in May and June of 2020. Downstream analysis of short read metagenomic Illumina sequencing data generated two near full-length genome sequences of ASF viruses of genotype 2, serogroup 8, CVR 1, and IGR II. The current study identified 33 genetic variations within the Philippine isolates relative to ASFV Georgia 2007/1.

Publisher

Springer Science and Business Media LLC

Reference35 articles.

1. 1. You S, Liu T, Zhang M, Zhao X, Dong Y, Wu B, et al. African swine fever outbreaks in China led to gross domestic product and economic losses. Nat Food [Internet]. 2021;2(10):802–8. Available from: https://doi.org/10.1038/s43016-021-00362-1

2. 2. Food and Agriculture Organization of the United Nations. ASF situation in Asia & Pacific update [Internet]. [cited 2023 Dec 14]. Available from: https://www.fao.org/animal-health/situation-updates/asf-in-asia-pacific/en

3. 3. Republic of the Philippines. Proclamation No. 1143 Declaring a State of Calamity throughout the Philippines due to the African Swine Fever Outbreak [Internet]. Available from: https://www.officialgazette.gov.ph/downloads/2021/05may/20210510-PROC-1143-RRD.pdf

4. 4. Malogolovkin A, Burmakina G, Tulman ER, Delhon G, Diel DG, Salnikov N, et al. African swine fever virus CD2v and C-type lectin gene loci mediate serological specificity. J Gen Virol [Internet]. 2015;96(4):866–73. Available from: https://doi.org/10.1099/jgv.0.000024

5. 5. Alkhamis MA, Gallardo C, Jurado C, Soler A, Arias M, Sánchez-Vizcaíno JM. Phylodynamics and evolutionary epidemiology of African swine fever p72-CVR genes in Eurasia and Africa. PLoS One [Internet]. 2018;13(2):e0192565. Available from: https://doi.org/10.1371/journal.pone.0192565