References
Abolnik, C., Horner, R. F., Bisschop, S. P., Parker, M. E., Romito, M., & Viljoen, G. J. (2004). A phylogenetic study of South African Newcastle disease virus strains isolated between 1990 and 2002 suggests epidemiological origins in the Far East. Arch Virol, 149 (3), 603-619. doi:10.1007/s00705-003-0218-2
Aldous, E. W., Collins, M. S., McGoldrick, A., & Alexander, D. J. (2001). Rapid pathotyping of Newcastle disease virus (NDV) using fluorogenic probes in a PCR assay.Vet Microbiol, 80 (3), 201-212.
Aldous, E. W., Mynn, J. K., Banks, J., & Alexander, D. J. (2003). A molecular epidemiological study of avian paramyxovirus type 1 (Newcastle disease virus) isolates by phylogenetic analysis of a partial nucleotide sequence of the fusion protein gene.Avian Pathol, 32 (3), 239-256. doi:10.1080/030794503100009783
Alexander. (1998). Newcastle disease and other avian paramyxoviruses. A laboratory manual for the isolation and identification of avian pathogens. American Association of Avian Pathologists, Kennett: Square. , 156-163.
Alexander. (2000). Newcastle disease and other avian paramyxoviruses. Rev Sci Tech, 19 (2), 443-462.
Alexander, D. J., Russell, P. H., Parsons, G., Elzein, E. M. E. A., Ballouh, A., Cernik, K., . . . Tumova, B. (1985). Antigenic and biological characterisation of avian paramyxovirus type I isolates from pigeons ‐ an international collaborative study. Avian Pathology, 14 (3), 365-376. doi:10.1080/03079458508436238
Brown, V. R., & Bevins, S. N. (2017). Correction to: A review of virulent Newcastle disease viruses in the United States and the role of wild birds in viral persistence and spread. Vet Res, 48 (1), 77. doi:10.1186/s13567-017-0485-7
CEC. (1992). Council Directive 92/66/EEC introducing Community measures for the control of Newcastle disease. . Official Journal of the European Community., L 260:1-20.
Chong, Y. L., Lam, T. T., Kim, O., Lu, H., Dunn, P., & Poss, M. (2013). Successful establishment and global dispersal of genotype VI avian paramyxovirus serotype 1 after cross species transmission. Infect Genet Evol, 17 , 260-268. doi:10.1016/j.meegid.2013.04.025
Chong, Y. L., Padhi, A., Hudson, P. J., & Poss, M. (2010). The effect of vaccination on the evolution and population dynamics of avian paramyxovirus-1. PLoS Pathog, 6 (4), e1000872. doi:10.1371/journal.ppat.1000872
Collins, M. S., Bashiruddin, J. B., & Alexander, D. J. (1993). Deduced amino acid sequences at the fusion protein cleavage site of Newcastle disease viruses showing variation in antigenicity and pathogenicity. Arch Virol, 128 (3), 363-370. doi:10.1007/bf01309446
Czegledi, A., Herczeg, J., Hadjiev, G., Doumanova, L., Wehmann, E., & Lomniczi, B. (2002). The occurrence of five major Newcastle disease virus genotypes (II, IV, V, VI and VIIb) in Bulgaria between 1959 and 1996. Epidemiol Infect, 129 (3), 679-688.
Czegledi, A., Wehmann, E., & Lomniczi, B. (2003). On the origins and relationships of Newcastle disease virus vaccine strains Hertfordshire and Mukteswar, and virulent strain Herts’33. Avian Pathol, 32 (3), 271-276. doi:10.1080/0307945031000097868
Daubney, R., & Mansy, W. (1948). The occurrence of Newcastle disease in Egypt. J Comp Pathol Ther, 58 (3), 189-200.
de Almeida, R. S., Hammoumi, S., Gil, P., Briand, F. X., Molia, S., Gaidet, N., . . . Albina, E. (2013). New avian paramyxoviruses type I strains identified in Africa provide new outcomes for phylogeny reconstruction and genotype classification.PLoS One, 8 (10), e76413. doi:10.1371/journal.pone.0076413
de Leeuw, O. S., Koch, G., Hartog, L., Ravenshorst, N., & Peeters, B. P. (2005). Virulence of Newcastle disease virus is determined by the cleavage site of the fusion protein and by both the stem region and globular head of the haemagglutinin-neuraminidase protein. J Gen Virol, 86 (Pt 6), 1759-1769. doi:10.1099/vir.0.80822-0
Diel, D. G., da Silva, L. H., Liu, H., Wang, Z., Miller, P. J., & 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, 12 (8), 1770-1779. doi:10.1016/j.meegid.2012.07.012
Dimitrov, K. M., Abolnik, C., Afonso, C. L., Albina, E., Bahl, J., Berg, M., . . . Wong, F. Y. K. (2019). Updated unified phylogenetic classification system and revised nomenclature for Newcastle disease virus. Infect Genet Evol, 74 , 103917. doi:10.1016/j.meegid.2019.103917
Dimitrov, K. M., Afonso, C. L., Yu, Q., & Miller, P. J. (2017). Newcastle disease vaccines-A solved problem or a continuous challenge? Vet Microbiol, 206 , 126-136. doi:10.1016/j.vetmic.2016.12.019
Dimitrov, K. M., Lee, D. H., Williams-Coplin, D., Olivier, T. L., Miller, P. J., & Afonso, C. L. (2016). Newcastle Disease Viruses Causing Recent Outbreaks Worldwide Show Unexpectedly High Genetic Similarity to Historical Virulent Isolates from the 1940s. J Clin Microbiol, 54 (5), 1228-1235. doi:10.1128/jcm.03044-15
Ewies, S. S., Ali, A., Tamam, S. M., & Madbouly, H. M. (2017). Molecular characterization of Newcastle disease virus (genotype VII) from broiler chickens in Egypt.Beni-Suef University Journal of Basic and Applied Sciences, 6 (3), 232-237. doi:https://doi.org/10.1016/j.bjbas.2017.04.004
Grund, C., Abdelwhab el, S. M., Arafa, A. S., Ziller, M., Hassan, M. K., Aly, M. M., . . . Beer, M. (2011). Highly pathogenic avian influenza virus H5N1 from Egypt escapes vaccine-induced immunity but confers clinical protection against a heterologous clade 2.2.1 Egyptian isolate. Vaccine, 29 (33), 5567-5573. doi:10.1016/j.vaccine.2011.01.006
Hall, T. (1999). BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp. Ser., 41 , 95-98.
Herczeg, J., Pascucci, S., Massi, P., Luini, M., Selli, L., Capua, I., & Lomniczi, B. (2001). A longitudinal study of velogenic Newcastle disease virus genotypes isolated in Italy between 1960 and 2000. Avian Pathol, 30 (2), 163-168. doi:10.1080/03079450120044000
Herczeg, J., Wehmann, E., Bragg, R. R., Travassos Dias, P. M., Hadjiev, G., Werner, O., & Lomniczi, B. (1999). Two novel genetic groups (VIIb and VIII) responsible for recent Newcastle disease outbreaks in Southern Africa, one (VIIb) of which reached Southern Europe. Arch Virol, 144 (11), 2087-2099.
Iorio, R. M., Glickman, R. L., Riel, A. M., Sheehan, J. P., & Bratt, M. A. (1989). Functional and neutralization profile of seven overlapping antigenic sites on the HN glycoprotein of Newcastle disease virus: monoclonal antibodies to some sites prevent viral attachment. Virus Res, 13 (3), 245-261. doi:10.1016/0168-1702(89)90019-1
Iorio, R. M., Syddall, R. J., Sheehan, J. P., Bratt, M. A., Glickman, R. L., & Riel, A. M. (1991). Neutralization map of the hemagglutinin-neuraminidase glycoprotein of Newcastle disease virus: domains recognized by monoclonal antibodies that prevent receptor recognition. J Virol, 65 (9), 4999-5006. doi:10.1128/JVI.65.9.4999-5006.1991
Juozapaitis, M., Aguiar Moreira, E., Mena, I., Giese, S., Riegger, D., Pohlmann, A., . . . Schwemmle, M. (2014). An infectious bat-derived chimeric influenza virus harbouring the entry machinery of an influenza A virus. Nat Commun, 5 , 4448. doi:10.1038/ncomms5448
Katoh, K., & Standley, D. M. (2013). MAFFT multiple sequence alignment software version 7: improvements in performance and usability. Mol Biol Evol, 30 (4), 772-780. doi:10.1093/molbev/mst010
Kawaguchi, T., Nomura, K., Hirayama, Y., & Kitagawa, T. (1987). Establishment and characterization of a chicken hepatocellular carcinoma cell line, LMH. Cancer Res, 47 (16), 4460-4464.
Kearse, M., Moir, R., Wilson, A., Stones-Havas, S., Cheung, M., Sturrock, S., . . . Drummond, A. (2012). Geneious Basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data.Bioinformatics, 28 (12), 1647-1649. doi:10.1093/bioinformatics/bts199
Kim, L. M., King, D. J., Curry, P. E., Suarez, D. L., Swayne, D. E., Stallknecht, D. E., . . . Afonso, C. L. (2007). Phylogenetic diversity among low-virulence newcastle disease viruses from waterfowl and shorebirds and comparison of genotype distributions to those of poultry-origin isolates. J Virol, 81 (22), 12641-12653. doi:10.1128/jvi.00843-07
Lamb, R. A., & Parks, G. D. (2007). Paramyxoviridae: the viruses and their replication. Fields virology, 5th ed. Wolters Kluwer-Lippincott Williams & Wilkins, Philadelphia, PA. , 1449-1496. doi:10.1039/b611613m
Miller, P. J., Decanini, E. L., & Afonso, C. L. (2010). Newcastle disease: evolution of genotypes and the related diagnostic challenges. Infect Genet Evol, 10 (1), 26-35. doi:10.1016/j.meegid.2009.09.012
Miller, P. J., Kim, L. M., Ip, H. S., & Afonso, C. L. (2009). Evolutionary dynamics of Newcastle disease virus. Virology, 391 (1), 64-72. doi:10.1016/j.virol.2009.05.033
Miller, P. J., & Koch, G. (2013). Newcastle disease, In: Swayne, D.E., Glisson, J.R., McDougald, L.R., Nolan, L.K., Suarez, D.L., Nair, V. (Eds.) Diseases of Poultry (13th ed.) Wiley-Blackwell, Hoboken, 89–138.
Minh, B. Q., Nguyen, M. A., & von Haeseler, A. (2013). Ultrafast approximation for phylogenetic bootstrap.Mol Biol Evol, 30 (5), 1188-1195. doi:10.1093/molbev/mst024
Mohamed, M. H., Kumar, S., Paldurai, A., & Samal, S. K. (2011). Sequence analysis of fusion protein gene of Newcastle disease virus isolated from outbreaks in Egypt during 2006.Virol J, 8 , 237. doi:10.1186/1743-422x-8-237
Moharam, I., Razik, A. A. E., Sultan, H., Ghezlan, M., Meseko, C., Franzke, K., . . . Grund, C. (2019). Investigation of suspected Newcastle disease (ND) outbreaks in Egypt uncovers a high virus velogenic ND virus burden in small-scale holdings and the presence of multiple pathogens. Avian Pathol, 48 (5), 406-415. doi:10.1080/03079457.2019.1612852
Nagai, Y., Klenk, H. D., & Rott, R. (1976). Proteolytic cleavage of the viral glycoproteins and its significance for the virulence of Newcastle disease virus.Virology, 72 (2), 494-508. doi:10.1016/0042-6822(76)90178-1
Naguib, M. M., El-Kady, M. F., Luschow, D., Hassan, K. E., Arafa, A. S., El-Zanaty, A., . . . Harder, T. C. (2017). New real time and conventional RT-PCRs for updated molecular diagnosis of infectious bronchitis virus infection (IBV) in chickens in Egypt associated with frequent co-infections with avian influenza and Newcastle Disease viruses. J Virol Methods, 245 , 19-27. doi:10.1016/j.jviromet.2017.02.018
Nagy, A., Ali, A., Zain El-Abideen, M. A., Kilany, W., & Elsayed, M. (2020). Characterization and genetic analysis of recent and emergent virulent newcastle disease viruses in Egypt. Transbound Emerg Dis . doi:10.1111/tbed.13543
Nguyen, L. T., Schmidt, H. A., von Haeseler, A., & Minh, B. Q. (2014). IQ-TREE: A fast and effective stochastic algorithm for estimating maximum likelihood phylogenies.Mol Biol Evol . doi:10.1093/molbev/msu300
OIE. (2012). Newcastle disease (infection with Newcastle disease virus). OIE terrestrial manual, Chapter 2.3.14 .
OIE. (2018). Newcastle disease. Terrestrial Manual: Chapter 3.3.14. Available online https://www.oie.int/fileadmin/Home/eng/Health_standards/tahm/3.03.14_NEWCASTLE_DIS.pdf. Accessed on 24.10.2020.
Orabi, A., Hussein, A., Saleh, A. A., El-Magd, M. A., & Munir, M. (2017). Evolutionary insights into the fusion protein of Newcastle disease virus isolated from vaccinated chickens in 2016 in Egypt. Arch Virol, 162 (10), 3069-3079. doi:10.1007/s00705-017-3483-1
Peeters, B. P., de Leeuw, O. S., Koch, G., & Gielkens, A. L. (1999). Rescue of Newcastle disease virus from cloned cDNA: evidence that cleavability of the fusion protein is a major determinant for virulence. J Virol, 73 (6), 5001-5009. doi:10.1128/jvi.73.6.5001-5009.1999
Radwan, M. M., Darwish, S. F., El-Sabagh, I. M., El-Sanousi, A. A., & Shalaby, M. A. (2013). Isolation and molecular characterization of Newcastle disease virus genotypes II and VIId in Egypt between 2011 and 2012. Virus Genes, 47 (2), 311-316. doi:10.1007/s11262-013-0950-y
Rima, B., Balkema-Buschmann, A., Dundon, W. G., Duprex, P., Easton, A., Fouchier, R., . . . Ictv Report, C. (2019). ICTV Virus Taxonomy Profile: Paramyxoviridae. J Gen Virol, 100 (12), 1593-1594. doi:10.1099/jgv.0.001328
Römer-Oberdörfer, A., Mundt, E., Mebatsion, T., Buchholz, U. J., & Mettenleiter, T. C. (1999). Generation of recombinant lentogenic Newcastle disease virus from cDNA.J Gen Virol, 80 ( Pt 11) , 2987-2995. doi:10.1099/0022-1317-80-11-2987
Rott, R. (1979). Molecular basis of infectivity and pathogenicity of myxovirus. Arch Virol, 59 (4), 285-298. doi:10.1007/BF01317469
Saad, A. M., Samy, A., Soliman, M. A., Arafa, A., Zanaty, A., Hassan, M. K., . . . Hussein, A. H. (2017). Genotypic and pathogenic characterization of genotype VII Newcastle disease viruses isolated from commercial farms in Egypt and evaluation of heterologous antibody responses. Arch Virol, 162 (7), 1985-1994. doi:10.1007/s00705-017-3336-y
Sabra, M., Dimitrov, K. M., Goraichuk, I. V., Wajid, A., Sharma, P., Williams-Coplin, D., . . . Afonso, C. L. (2017). Phylogenetic assessment reveals continuous evolution and circulation of pigeon-derived virulent avian avulaviruses 1 in Eastern Europe, Asia, and Africa. BMC Vet Res, 13 (1), 291. doi:10.1186/s12917-017-1211-4
Samy, A., & Naguib, M. M. (2018). Avian Respiratory Coinfection and Impact on Avian Influenza Pathogenicity in Domestic Poultry: Field and Experimental Findings.Vet Sci, 5 (1). doi:10.3390/vetsci5010023
Seal, B. S., King, D. J., & Bennett, J. D. (1996). Characterization of Newcastle disease virus vaccines by biological properties and sequence analysis of the hemagglutinin-neuraminidase protein gene. Vaccine, 14 (8), 761-766. doi:10.1016/0264-410x(95)00252-v
Snoeck, C. J., Owoade, A. A., Couacy-Hymann, E., Alkali, B. R., Okwen, M. P., Adeyanju, A. T., . . . Muller, C. P. (2013). High genetic diversity of Newcastle disease virus in poultry in West and Central Africa: cocirculation of genotype XIV and newly defined genotypes XVII and XVIII. J Clin Microbiol, 51 (7), 2250-2260. doi:10.1128/JCM.00684-13
Steward, M., Vipond, I. B., Millar, N. S., & Emmerson, P. T. (1993). RNA editing in Newcastle disease virus. J Gen Virol, 74 ( Pt 12) , 2539-2547. doi:10.1099/0022-1317-74-12-2539
Tan, L. T., Xu, H. Y., Wang, Y. L., Qin, Z. M., Sun, L., Liu, W. J., & Cui, Z. Z. (2008). Molecular characterization of three new virulent Newcastle disease virus variants isolated in China. J Clin Microbiol, 46 (2), 750-753. doi:10.1128/jcm.01587-07
Ujvári, D., Wehmann, E., Kaleta, E. F., Werner, O., Savić, V., Nagy, E., . . . Lomniczi, B. (2003). Phylogenetic analysis reveals extensive evolution of avian paramyxovirus type 1 strains of pigeons (Columba livia) and suggests multiple species transmission. Virus Res, 96 (1-2), 63-73. doi:10.1016/s0168-1702(03)00173-4
Wehmann, E., Czegledi, A., Werner, O., Kaleta, E. F., & Lomniczi, B. (2003). Occurrence of genotypes IV, V, VI and VIIa in Newcastle disease outbreaks in Germany between 1939 and 1995. Avian Pathol, 32 (2), 157-163. doi:10.1080/0307945021000071623
Wise, M. G., Suarez, D. L., Seal, B. S., Pedersen, J. C., Senne, D. A., King, D. J., . . . Spackman, E. (2004). Development of a real-time reverse-transcription PCR for detection of newcastle disease virus RNA in clinical samples. J Clin Microbiol, 42 (1), 329-338.