PHYLOGENETIC ANALYSIS OF NP AND HN GENE OF NEWLY ISOLATED NDV/Badung-02/AK/14

Ferbian Milas Siswanto, Anak Agung Ayu Mirah Adi

Abstract


virus was isolated from suspected Newcastle disease (ND) chicken in backyard farm at Sibang Village, Badung Regency, Bali Province. The isolates were then propagated and confirmed for NDV serologically. RNA isolation was performed by standard Trizol method. Phylogenetic tree analysis of NP gene (nt1020-1561) and HN gene (nt7019-7754) were performed using sequence of Badung-02/AK/14 and selected NDV strains from GenBank. Based on the NP gene sequence, the newly isolate closely related with other NDV strains belong to genotype VII that previously isolated such as Banjarmasin-010/10, Bali-1/07, and Cockatoo/90 with genetic distance 0.2%, 12.6%, and 18.0% respectively. The genetic distance with LaSota/46 virus (genotype II) is 19.6%. Based on HN gene sequence, genetic distance of the Badung-02/AK/14 with other viruses belong to genotype VII such as Banjarmasin-010/10, Bali-1/07, and Cockatoo/90 are 0.4%, 3.7%, and 4.2% respectively. The genetic distance with LaSota/46 virus (genotype II) is 9.0%. There were no difference between the result of nucleotide and amino acid sequence analysis, both in NP and HN gene (P>0.05).


Keywords


HN gene, molecular characteristics, NDV, NP gene

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References


Adi, A.A.A.M. 2011. Biological and Molecular studies on a pathogenic Newcastle disease virus isolated from a natural case in Indonesia. PhD Thesis. University of Tokyo.

Adi, A.A.A.M., Astawa, N.M., Putra, K.S.A., Hayashi, Y., and Matsumoto, Y. 2009. Isolation and characterization of a pathogenic Newcastle disease virus from a natural case in Indonesia. J. Vet. Med. Sci. 72(3): 313-319.

Brian, F., Henry, A., Massin, P., and Jestin, V. (2012). Complete Genome Sequence of a Novel Avian Paramyxovirus. J.Virol. 86(14): 7710.

Chang, P.C., Hsieh, M.L., Shien, J.H., Graham, D.A., Lee, M.S., and Shieh, H.K. 2001. Complete Nucleotide Sequence of Avian Paramyxovirus Type 6 Isolated from Duck. Journal of General Virology. 82: 2157-2168.

Chare, E.R., Gould, E.A., and Holmes, E.C. 2003. Phylogenetic analysis reveals a low rate of homologous recombination in negative-sense RNA viruses. J Gen Virol. 84(Pt 10): 2691-703.

Cho, S.H., Kwon, H.J., Kim, T.E., Kim, J.H., Yoo, H.S., Park, M.H., Park, Y.H., and Kim, S.J. 2008. Characterization of a recombinant Newcastle disease virus vaccine strain. Clin and Vacc.Immunol. 15: 1572-1579.

Diel, D.G., Luciana, H.A., Liu, H., Wang, Z., Miller, P.J., and Afonso, C.L. 2012. Genetic Diversity of Avian Paramyxovirus Type 1: Proposal for A Unified Nomenclature and Classification System of Newcastle Disease Virus Genotypes. Infect. Genet. Evol. Available from: http://dx.doi.org/10.1016/j.meegid.2012.07.012.

Dortmans, J.C., Koch, G., Rottier, P.J., and Peeters, B.P. 2011. Virulence of Newcastle disease virus: what is known so far?. Vet Res. 42: 1-11.

Dortmans, J.C., Rottier, P.J., Koch, G., and Peeters, B.P. 2010. The viral replication complex is associated with the virulence of Newcastle disease virus. J Virol. 84(19): 10113-20.

Fenner, F.J., Gibbs, E.P.J., Murphy, F.A., Rott, R., Studdert, M.J., and White. D.O. 2000. Veterinary Virology. 2nd Edition. Academic Press, San Diego

Garcia, S.C., Lopez, R.N., Morales, R., Olvera, M.A., Marquez, M.A., Merino, R., Miller, P.J., and Afonso, C.L. 2013. Molecular Epidemiology of Newcastle Disease in Mexico and the Potential Spillover of Viruses from Poultry into Wild Bird Species. Appl. Environ. Microbiol. 79 (16): 4985-4992.

Hines, N.L., and Miller, C.L. 2012. Avian Paramyxovirus Serotype-1: A Review of Disease Distribution, Clinical Symptoms, and Laboratory Diagnostics. Vet Med Int. 2012: 708216.

Huang, Z., Krishnamurthy, S., Panda, A., and Samal, S.K. 2003. Newcastle disease virus V protein is associated with viral pathogenesis and functions as an alpha interferon antagonist. J Virol. 77(16): 8676-85.

Iwasaki, M., Takeda, M., Shirogane, Y., Nakatsu, Y., Nakamura, T., and Yanagi, Y. 2009. The Matrix Protein of Measles Virus Regulates Viral RNA Synthesis and Assembly by Interacting with the Nucleocapsid Protein. J Virol. 83(20): 10374-83.

Kencana, G.A.Y., Kardena, I.M., and Mahardika, I.G.N.K. 2012. Diagnosis Confirmation of Natural Newcastle Disease on Native Chicken in Bali Using RT-PCR Technique. (Original title: Peneguhan Diagnosis Penyakit Newcastle Disease Lapang pada Ayam Buras di Bali Menggunakan Teknik RT-PCR). Jurnal Kedokteran Hewan. 6(1): 28-31.

Khattar, S.K., Yan, Y., Panda, A., Collins, P.L., and Samal, S.K. 2009. A Y526Q Mutation in the Newcastle Disease Virus HN Protein Reduces Its Functional Activities and Attenuates Virus Replication and Pathogenicity. J Virol. 83(15): 7779–7782.

Martinez, M.A., Martrus, G., Capel, E., Parera, M., Franco, S., and Nevot, M. 2012. Quasispecies Dynamics of RNA Viruses. In Viruses: Essential Agents of Life. Witzany, G. (Ed). Springer. pp. 21–42.

Mohamed, M.H.A., Kumar, A., Paldurai, A., Megahed, M.M., Ghanem, I.A., Lebdah, M.A., and Samal, S.K. 2009. Complete Genome Sequence of a Virulent Newcastle Disease Virus Isolated from an Outbreak in Chickens in Egypt. Virus genes. DOI 10.1007/s11262-009-0385-7.

Panda, A., Elankumaran, S., Krishnamurthy, S., Huang, Z., and Samal, S.K. 2004. Loss of N-linked glycosylation from the hemagglutinin-neuraminidase protein alters virulence of Newcastle disease virus. J Virol. 78(10): 4965-4975.

Parthiban, M., Kaliyaperumal, M., Xiao, S., Nayak, B., Paldurai, A., Kim, S., Ladman, B.S., Preskenis, L.A., Gelb, J., Collins, P.L., and Samal, S.K. 2013. Complete Genome Sequence of an Avian Paramyxovirus Type 4 from North America Reveals a Shorter Genome and New Genotype. Genome Announc. 1(1): e00075-12.

Putra, I.G.A.A., and Adi, A.A.A.M. 2014. Unpublish Annually Fundamental Research Report. (Original title: Laporan Hibah Penelitian Fundamental)

Ramey, A.M., Reeves, A.B., Ogawa, H., Ip, H.S., Imai, K., Bui, V.N., Yamaguchi, E., Silko, N.Y., and Afonso, C.L. 2013. Genetic diversity and mutation of avian paramyxovirus serotype 1 (Newcastle disease virus) in wild birds and evidence for intercontinental spread. Arch Virol. 158(12): 2495-503.

Römer-Oberdörfer, A., Werner, O., Veits, J., Mebatsion, T., and Mettenleiter, T.C. 2003. Constribution of length og the HN protein and the sequence of the F protein cleavage site of the Newcaslte disease virus pathogenicity. J Gen Virol. 84: 3121-3129.

Schmitt, P.T., Ray, G., and Schmitt, A.P. 2010. The C-Terminal End of Parainfluenza Virus 5 NP Protein Is Important for Virus-Like Particle Production and M-NP Protein Interaction. J Virol. 84(24): 12810–12823.

Toyoda, T., Sakaguchi, T., Hirota, H., Gotoh, B., Kuma, K., Miyata, T., and Nagai, Y. 1989. Newcastle disease virus evolution. II. Lack of gene recombination in generating virulent and avirulent strains. Virology. 169(2): 273-82.

Umali, D.V., Ito, H., Suzuki, T., Shirota, K., Katoh, H., and Ito, T. 2013. Molecular epidemiology of Newcastle disease virus isolates from vaccinated commercial poultry farms in non-epidemic areas of Japan. Virology Journal. 10: 330.

Xiao, S., Paldurai, A., Nayak, B., Samuel, A., Bharoto, E.E., Prajitno, T.Y., Collins, P.L., and Samal, S.K. 2012. Complete Genome Sequences of Newcastle Disease Virus Strains Circulating in Chicken Populations of Indonesia. J. Virol. 86(10): 5969-5970.




DOI: https://doi.org/10.21157/j.ked.hewan.v11i2.2492

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