Karakterisasi Molekuler dan Studi Filogenetik Virus African Swine Fever pada Kejadian Wabah di Sumatera Utara Tahun 2019 - 2023
Ruben Hasiholan Panggabean(1*), Ni Luh Putu Ika Mayasari(2), Faisal Faisal(3), I Wayan Teguh Wibawan(4)
(1) IPB University
(2) Divisi Mikrobiologi Medik Sekolah Kedokteran Hewan dan Biomedis Institut Pertanian Bogor
(3) Laboratorium Biologi Molekuler Balai Veteriner Medan
(4) Divisi Mikrobiologi Medik Sekolah Kedokteran Hewan dan Biomedis Institut Pertanian Bogor
(*) Corresponding Author
Abstract
African swine fever is a viral disease that causes hemorrhagic fever in domestic pigs and wild swine worldwide. The first case of ASF in Indonesia was reported in North Sumatra Province in September 2019. A total of 20 archival samples of positive ASF collected from the Animal Disease Investigation Center of Medan during the outbreak investigation took place from 2019 to 2023, were used in this study. The partial B646L gene (p72), the full sequence of the E183L gene (p54) and the central variable region (CVR) of the B602L gene were amplified, purified, then sequenced. Web-based BLAST program and MEGA XI software were used to analyze the nucleotide sequencing results. The results of molecular and phylogenetic characterization analysis revealed that the ASF virus that infected pigs in North Sumatra Province in 2019-2023 was belonged to genotype II. Analysis of the three genes (B646L, E183L and B602L) did not show changes in the nucleotide and amino acid sequences in the isolates in the last 5 years. No novel variants were found in the CVR gene B602L. CVR analysis showed that these ASF virus strain belonged to subgroup XXXII. The results of this study revealed that the ASF virus in North Sumatra Province has high homology with ASF virus isolates previously detected in China, Vietnam and East Leste in 2019.
Keywords
Full Text:
PDFReferences
Alkhamis, M.A., Gallardo, C., Jurado, C., Soler, A., Arias, M., Sánchez-Vizcaíno, J.M. (2018). Phylodynamics and evolutionary epidemiology of African swine fever p72-CVR genes in Eurasia and Africa. PLoS One. 13 (2):e0192565. Anggy, F.P., Nugroho, W.S., Irianingsih, S.H., Enny, S., Srihanto, E.A. (2023). Genetic analysis of African swine fever viruses based on E183L (p54) gene, circulating in South Sumatra and Lampung province, Indonesia. Veterinary World. 16 (9):1985-1990. Bastos, A.D.S., Penrith, M.L., Cruciere ,C. (2003). Genotyping field strains of African swine fever virus by partial p72 gene characterization. Archives of Virologyl. 148 (4):693–706. Boshoff, C.I., Bastos, A.D., Gerber, L.J., Vosloo, W. (2007). Genetic characterisation of African swine fever viruses from outbreaks in Southern Africa (1973-1999). Veterinary Microbiology. 121 (1-2):45-55. Cheng, J., Ward, M.P. (2022). Risk factors for the spread of African Swine Fever in China: A systematic review of Chinese-language literature. Transboundary and Emerging Disease. 69 (5):e1289-e1298.. Cho, K.H., Yoo, D.S., Hong, S.K., Kim, D.Y., Jang, M.K., Kang, H.E., Kim, Y.H.( 2023). Genetic profile of African swine fever viruses circulating at pig farms in South Korea during the outbreaks between 2022 and april 2023. Viruses. 15 (7):1552. Dharmayanti, N.I., Sendow, I., Ratnawati, A., Settypalli, T.B.K., Saepulloh, M., Dundon, W.G., Nuradji, H., Naletoski, I., Cattoli, G., Lamien, C.E. (2021). African swine fever in North Sumatra and West Java provinces in 2019 and 2020, Indonesia. Transboundary and Emerging Disease. 68 (5):2890-2896. Forth, J.H., Forth, L.F., Blome, S., Höper, D., Beer, M. (2020). African swine fever whole-genome sequencing-Quantity wanted but quality needed. PLoS Pathology. 16 (8):e1008779. Forth, J.H., Calvelage, S., Fischer, M., Hellert, J., Sehl-Ewert, J., Roszyk, H., Deutschmann, P., Reichold, A., Lange, M., Thulke, H.H., Sauter-Louis, C., Höper, D., Mandyhra, S., Sapachova, M., Beer, M., Blome, S. (2023). African swine fever virus - variants on the rise. Emerging Microbes and Infections. 12 (1):2146537. Gallardo, C., Mwaengo, D.M., Macharia, J.M., Arias, M., Taracha, E.A., Soler, A., Okoth, E., Martín, E., Kasiti, J., Bishop, RP. (2009). Enhanced discrimination of African swine fever virus isolates through nucleotide sequencing of the p54, p72, and pB602L (CVR) genes. Virus Genes. 38 (1):85-95. Gallardo, C., Ademun, A.R., Nieto, R. (2011). Genotyping of African swine fever virus (ASFV) isolates associated with disease outbreaks in Uganda in 2007. African Journal of Biotechnology. 10(17):3488–3497. Gallardo, C., Fernández-Pinero, J., Pelayo, V., Gazaev, I., Markowska-Daniel, I., Pridotkas, G., Nieto, R., Fernández-Pacheco, P., Bokhan, S., Nevolko, O., Drozhzhe, Z., Pérez, C., Soler, A., Kolvasov, D., Arias, M. (2014). Genetic variation among African swine fever genotype II viruses, Eastern and Central Europe. Emerging Infectious Diseases. 20 (9):1544-7. Gallardo, C., Casado, N., Soler, A., Djadjovski, I., Krivko, L., Madueño, E., Nieto, R., Perez, C., Simon, A., Ivanova, E., Donescu, D., Milicevik, V., Chondrokouki, E., Nurmoja, I., Frant, M., Feliziani, F., Václavek, P., Pileviciene, S., Marisa, A. (2023). A multi gene-approach genotyping method identifies 24 genetic clusters within the genotype ii-european african swine fever viruses circulating from 2007 to 2022. Frontier of Veterinary Sciences. 10:1112850. Hall, T. (2011). BioEdit: an important software for molecular biology. GERF Bulletin of Bioscience. 2 (1):60-61. Hernáez, B., Guerra, M., Salas, M.L., Andrés, G. (2016). African swine fever virus undergoes outer envelope disruption, capsid disassembly and inner envelope fusion before core release from multivesicular endosomes. PLoS Pathology. 12 (4):e1005595. Ji, C., Jiang, J., Wei, Y., Wang, Z., Chen, Y., Mai, Z., Cai, M., Qin, C., Cai, Y., Yi, H., Liang, G., Lu, G., Gong, L., Zhang, G., Wang, H. (2021). A method for the analysis of african swine fever by viral metagenomic sequencing. Frontier of Veterinary Sciences. 8:766533. Kementerian Pertanian. (2019). Keputusan Menteri Pertanian Republik Indonesia Nomor 820 Tahun 2019 Tentang Pernyataan Wabah Penyakit Demam Babi Afrika Pada Beberapa Kabupaten / Kota Di Provinsi Sumatera Utara. Jakarta: DITJENPKH. King, D.P., Reid, S.M., Hutchings, G.H., Grierson, S.S., Wilkinson, P.J., Dixon, L.K., Bastos, A.D., Drew, T.W. (2003). Development of a TaqMan PCR assay with internal amplification control for the detection of African swine fever virus. Journal of Virological Methods. 107 (1):53-61. Le, V.P., Jeong, D.G., Yoon, S.W., Kwon, H.M., Trinh, T.B.N., Nguyen, T.L., Bui, T.T.N., Oh, J., Kim, J.B., Cheong, K.M., Van Tuyen, N., Bae, E., Vu, T.T.H., Yeom, M., Na, W., Song, D. (2019). Outbreak of African Swine Fever, Vietnam, 2019. Emerging Infectious Diseases. 25 (7):1433-1435. Malogolovkin, A., Burmakina, G., Titov, I., Sereda, A., Gogin, A., Baryshnikova, E., Kolbasov, D. (2015). Comparative analysis of African swine fever virus genotypes and serogroups. Emerging Infectious Diseases. 21 (2):312-315. Mazloum, A., Van Schalkwyk, A., Chernyshev, R., Igolkin, A., Heath, L., Sprygin, A. (2023). A guide to molecular characterization of genotype II African swine fever virus: essential and alternative genome markers. Microorganisms. 11 (3):642. Misinzo, G., Magambo, J., Masambu, J., Yongolo, M.G., Van Doorsselaere, J., Nauwynck, H.J. (2011). Genetic characterization of African swine fever viruses from a 2008 outbreak in Tanzania. Transboundary Emerging Diseases. 58 (1):86-92. Nix, R.J., Gallardo, C., Hutchings, G., Blanco, E., Dixon, L.K. (2006). Molecular epidemiology of African swine fever virus studied by analysis of four variable genome regions. Archives of Virology. 151 (12): 2475-94. Office International des Epizooties. (2019). Immediate Notification Report of North Sumatera Outbreak December 2019. OIE Press. Phologane, S.B., Bastos, A.D., Penrith, M.L. (2005). Intra- and inter-genotypic size variation in the central variable region of the 9RL open reading frame of diverse African swine fever viruses. Virus Genes. 31(3):357-60. Primatika, R.A., Sudarnika, E., Sumiarto, B., Basri, C. (2021). Tantangan dan kendala pengendalian African swine fever (asf). Jurnal Sains veteriner. 39 (1): 62-72. Qu, H., Ge, S., Zhang, Y., Wu, X., Wang, Z. (2022). A systematic review of genotypes and serogroups of African swine fever virus. Virus Genes. 58 (2):77-87. Revilla, Y., Pérez-Núñez, D., Richt, J.A. (2018). African swine fever virus biology and vaccine approaches. Advances in Virus Research. 100 :41-74. Tamura. K., Stecher, G., Kumar, S. (2013). MEGA11: molecular evolutionary genetics analysis version 11. Molecular Biology and Evolution. 38 (7):3022‒3027. Wang, Y., Kang, W., Yang, W., Zhang, J., Li, D., Zheng, H. (2021). Structure of African swine fever virus and associated molecular mechanisms underlying infection and immunosuppression: a review. Frontier in Immunology. 12 (715581):1-17. World Organization of Animal Health. (2021). OIE Terestrial Manual Chapter 3.9.1: African Swine Fever (Infection with African Swine Fever Virus). [internet]. [diacu 20 Maret 2023]. Tersedia di https://www.woah.org/fileadmin/Home/eng/Health_standards/tahm/3.09. 01_ASF.pdf.
DOI: https://doi.org/10.22146/jsv.92348
Article Metrics
Abstract views : 812 | views : 922Refbacks
- There are currently no refbacks.
Copyright (c) 2024 Jurnal Sain Veteriner
This work is licensed under a Creative Commons Attribution-ShareAlike 4.0 International License.
Jurnal Sain Veteriner Indexed by
Copyright of JSV (Jurnal Sain Veteriner) ISSN 0126-0421 (print), ISSN 2407-3733 (online).
Fakultas Kedokteran Hewan, Universitas Gadjah Mada
Jl. Fauna No.2, Karangmalang, Yogyakarta
Phone: 0274-560862
Fax: 0274-560861
Email: jsv_fkh@ugm.ac.id
HP. 0895363078367
Jurnal Sain Veteriner is licensed under a Creative Commons Attribution-ShareAlike 4.0 International License.
View My Stats