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Lee YJ, Park JY, Shang K, Zhang JF, Choi YR, Kim SW, Cha SY, Kang M, Wei B, Jang HK. Genetic Characterization of Avian Paramyxovirus Isolated from Wild Waterfowl in Korea between 2015 and 2021. Animals (Basel) 2024; 14:780. [PMID: 38473165 DOI: 10.3390/ani14050780] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2023] [Revised: 02/28/2024] [Accepted: 02/28/2024] [Indexed: 03/14/2024] Open
Abstract
Avian paramyxoviruses (APMVs) are often carried by wild waterfowl, and the wild waterfowl may play an important role in the maintenance and spread of these viruses. In this study, we investigated APMVs in the population of migratory wild waterfowl from 2015 to 2021 in Korea and analyzed their genetic characteristics. Fourteen viruses were isolated and subsequently identified as APMV-1 (n = 13) and APMV-13 (n = 1). Phylogenetic analysis of the full fusion gene of 13 APMV-1 isolates showed that 10 APMV-1 isolates belonged to the class II sub-genotype I.2, which was epidemiologically linked to viruses from the Eurasian continent, and 3 viruses belonged to class I, which linked to viruses from the USA. The APMV-13 isolates from wild geese in this study were highly homology to the virus isolated from China. Sequence analysis of 14 isolates showed that all isolates had a typical lentogenic motif at the cleavage site. In summary, we identified the wild species likely to be infected with APMV and our data suggest possible intercontinental transmission of APMV by wild waterfowl. Our current study also provides the first evidence for the presence of class I of APMV-1 and APMV-13 in wild waterfowl surveyed in Korea.
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Affiliation(s)
- Yea-Jin Lee
- Department of Avian Diseases, College of Veterinary Medicine and Center for Avian Disease, Jeonbuk National University, Iksan 54596, Republic of Korea
| | - Jong-Yeol Park
- Department of Avian Diseases, College of Veterinary Medicine and Center for Avian Disease, Jeonbuk National University, Iksan 54596, Republic of Korea
| | - Ke Shang
- Department of Avian Diseases, College of Veterinary Medicine and Center for Avian Disease, Jeonbuk National University, Iksan 54596, Republic of Korea
| | - Jun-Feng Zhang
- Department of Avian Diseases, College of Veterinary Medicine and Center for Avian Disease, Jeonbuk National University, Iksan 54596, Republic of Korea
| | - Yu-Ri Choi
- Department of Avian Diseases, College of Veterinary Medicine and Center for Avian Disease, Jeonbuk National University, Iksan 54596, Republic of Korea
| | - Sang-Won Kim
- Department of Avian Diseases, College of Veterinary Medicine and Center for Avian Disease, Jeonbuk National University, Iksan 54596, Republic of Korea
| | - Se-Yeoun Cha
- Department of Avian Diseases, College of Veterinary Medicine and Center for Avian Disease, Jeonbuk National University, Iksan 54596, Republic of Korea
| | - Min Kang
- Department of Avian Diseases, College of Veterinary Medicine and Center for Avian Disease, Jeonbuk National University, Iksan 54596, Republic of Korea
- Bio Disease Control (BIOD) Co., Ltd., Iksan 54596, Republic of Korea
| | - Bai Wei
- Department of Avian Diseases, College of Veterinary Medicine and Center for Avian Disease, Jeonbuk National University, Iksan 54596, Republic of Korea
| | - Hyung-Kwan Jang
- Department of Avian Diseases, College of Veterinary Medicine and Center for Avian Disease, Jeonbuk National University, Iksan 54596, Republic of Korea
- Bio Disease Control (BIOD) Co., Ltd., Iksan 54596, Republic of Korea
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Vashi Y, Nehru G, Kumar S. Niclosamide inhibits Newcastle disease virus replication in chickens by perturbing the cellular glycolysis. Virology 2023; 585:196-204. [PMID: 37384966 DOI: 10.1016/j.virol.2023.06.010] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/12/2023] [Revised: 06/10/2023] [Accepted: 06/12/2023] [Indexed: 07/01/2023]
Abstract
Newcastle disease virus (NDV), a member of Paramyxoviridae family, is one of the most important pathogens in poultry. To ensure optimal environments for their replication and spread, viruses rely largely on host cellular metabolism. In the present study, we evaluated the small drug molecule niclosamide for its anti-NDV activity. Our study has shown that a sublethal dose of 1 μM niclosamide could drastically reduce NDV replication. The results showed that niclosamide has antiviral activity against NDV infection during in vitro, in ovo and in vivo assays. Pharmacologically inhibiting the glycolytic pathway remarkably reduced NDV RNA synthesis and infectious virion production. Our results suggest that the effect of niclosamide on cellular glycolysis could be the possible reason for the specific anti-NDV effect. This study could help us understand antiviral strategies against similar pathogens and may lead to novel therapeutic approaches through targeted inhibition of specific cellular metabolic pathways.
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Affiliation(s)
- Yoya Vashi
- Department of Biosciences and Bioengineering, Indian Institute of Technology Guwahati, Guwahati, 781039, Assam, India
| | - Ganesh Nehru
- Department of Biosciences and Bioengineering, Indian Institute of Technology Guwahati, Guwahati, 781039, Assam, India
| | - Sachin Kumar
- Department of Biosciences and Bioengineering, Indian Institute of Technology Guwahati, Guwahati, 781039, Assam, India.
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3
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Guseva NA, Kolosov SN, Zinyakov NG, Andriyasov AV, Yin R, Scherbakova LO, Ovchinnikova EV, Nikonova ZB, Andreychuk DB, Sprygin AV, Chvala IA, Moroz NV. Analysis of Avian Orthoavulavirus 1 Detected in the Russian Federation between 2017 and 2021. Vaccines (Basel) 2023; 11:1032. [PMID: 37376421 DOI: 10.3390/vaccines11061032] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2023] [Revised: 05/18/2023] [Accepted: 05/25/2023] [Indexed: 06/29/2023] Open
Abstract
Newcastle disease virus (NDV, Avian orthoavulavirus type 1, AOAV-1) is a contagious high-impact poultry pathogen with infections detected worldwide. In the present study, 19,500 clinical samples from wild bird species and poultry collected from 28 regions of Russia between 2017 and 2021 were screened for the presence of the AOAV-1 genome. NDV RNA was detected in 15 samples from wild birds and 63 samples from poultry. All isolates were screened for a partial sequence of the fusion (F) gene that included the cleavage site. Phylogenetic analysis demonstrated that lentogenic AOAV-1 I.1.1, I.1.2.1, and II genotypes were dominant among vaccine-like viruses in the territory of the Russian Federation. A vaccine-like virus with a mutated cleavage site (112-RKQGR^L-117) was detected in turkeys. Among the virulent AOAV-1 strains, viruses of the XXI.1.1, VII.1.1, and VII.2 genotypes were identified. The cleavage site of viruses of the XXI.1.1 genotype had a 112-KRQKR^F-117 amino acid sequence. The cleavage site of viruses with VII.1.1 and VII.2 genotypes had a 112-RRQKR^F-117 amino acid sequence. The data collected by the present study demonstrate the distribution and dominance of the virulent VII.1.1 genotype in the Russian Federation between 2017 and 2021.
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Affiliation(s)
- Nelly A Guseva
- Reference Laboratory for Avian Viral Diseases, FGBI "Federal Centre for Animal Health" (FGBI "ARRIAH"), 600901 Vladimir, Russia
| | - Sergey N Kolosov
- Reference Laboratory for Avian Viral Diseases, FGBI "Federal Centre for Animal Health" (FGBI "ARRIAH"), 600901 Vladimir, Russia
| | - Nikolay G Zinyakov
- Reference Laboratory for Avian Viral Diseases, FGBI "Federal Centre for Animal Health" (FGBI "ARRIAH"), 600901 Vladimir, Russia
| | - Artem V Andriyasov
- Reference Laboratory for Avian Viral Diseases, FGBI "Federal Centre for Animal Health" (FGBI "ARRIAH"), 600901 Vladimir, Russia
| | - Renfu Yin
- Key Laboratory of Zoonosis Research, Ministry of Education, College of Veterinary Medicine, Jilin University, Changchun 130062, China
| | - Lidya O Scherbakova
- Reference Laboratory for Avian Viral Diseases, FGBI "Federal Centre for Animal Health" (FGBI "ARRIAH"), 600901 Vladimir, Russia
| | - Evgenia V Ovchinnikova
- Reference Laboratory for Avian Viral Diseases, FGBI "Federal Centre for Animal Health" (FGBI "ARRIAH"), 600901 Vladimir, Russia
| | - Zoya B Nikonova
- Reference Laboratory for Avian Viral Diseases, FGBI "Federal Centre for Animal Health" (FGBI "ARRIAH"), 600901 Vladimir, Russia
| | - Dmitry B Andreychuk
- Reference Laboratory for Avian Viral Diseases, FGBI "Federal Centre for Animal Health" (FGBI "ARRIAH"), 600901 Vladimir, Russia
| | - Alexander V Sprygin
- Reference Laboratory for Avian Viral Diseases, FGBI "Federal Centre for Animal Health" (FGBI "ARRIAH"), 600901 Vladimir, Russia
| | - Ilya A Chvala
- Reference Laboratory for Avian Viral Diseases, FGBI "Federal Centre for Animal Health" (FGBI "ARRIAH"), 600901 Vladimir, Russia
| | - Natalia V Moroz
- Reference Laboratory for Avian Viral Diseases, FGBI "Federal Centre for Animal Health" (FGBI "ARRIAH"), 600901 Vladimir, Russia
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Goraichuk IV, Gerilovych A, Bolotin V, Solodiankin O, Dimitrov KM, Rula O, Muzyka N, Mezinov O, Stegniy B, Kolesnyk O, Pantin-Jackwood MJ, Miller PJ, Afonso CL, Muzyka D. Genetic diversity of Newcastle disease viruses circulating in wild and synanthropic birds in Ukraine between 2006 and 2015. Front Vet Sci 2023; 10:1026296. [PMID: 36742982 PMCID: PMC9893288 DOI: 10.3389/fvets.2023.1026296] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/23/2022] [Accepted: 01/02/2023] [Indexed: 01/20/2023] Open
Abstract
Newcastle disease virus (NDV) infects a wide range of bird species worldwide and is of importance to the poultry industry. Although certain virus genotypes are clearly associated with wild bird species, the role of those species in the movement of viruses and the migratory routes they follow is still unclear. In this study, we performed a phylogenetic analysis of nineteen NDV sequences that were identified among 21,924 samples collected from wild and synanthropic birds from different regions of Ukraine from 2006 to 2015 and compared them with isolates from other continents. In synanthropic birds, NDV strains of genotype II, VI, VII, and XXI of class II were detected. The fusion gene sequences of these strains were similar to strains detected in birds from different geographical regions of Europe and Asia. However, it is noteworthy to mention the isolation of vaccine viruses from synanthropic birds, suggesting the possibility of their role in viral transmission from vaccinated poultry to wild birds, which may lead to the further spreading of vaccine viruses into other regions during wild bird migration. Moreover, here we present the first publicly available complete NDV F gene from a crow (genus Corvus). Additionally, our phylogenetic results indicated a possible connection of Ukrainian NDV isolates with genotype XXI strains circulating in Kazakhstan. Among strains from wild birds, NDVs of genotype 1 of class I and genotype I of class II were detected. The phylogenetic analysis highlighted the possible exchange of these NDV strains between wild waterfowl from the Azov-Black Sea region of Ukraine and waterfowl from different continents, including Europe, Asia, and Africa.
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Affiliation(s)
- Iryna V. Goraichuk
- National Scientific Centre, Institute of Experimental and Clinical Veterinary Medicine, Kharkiv, Ukraine,Exotic and Emerging Avian Viral Diseases Research Unit, Southeast Poultry Research Laboratory, US National Poultry Research Center, Agricultural Research Service, USDA, Athens, GA, United States
| | - Anton Gerilovych
- National Scientific Centre, Institute of Experimental and Clinical Veterinary Medicine, Kharkiv, Ukraine
| | - Vitaliy Bolotin
- National Scientific Centre, Institute of Experimental and Clinical Veterinary Medicine, Kharkiv, Ukraine
| | - Olexii Solodiankin
- National Scientific Centre, Institute of Experimental and Clinical Veterinary Medicine, Kharkiv, Ukraine
| | - Kiril M. Dimitrov
- Exotic and Emerging Avian Viral Diseases Research Unit, Southeast Poultry Research Laboratory, US National Poultry Research Center, Agricultural Research Service, USDA, Athens, GA, United States
| | - Oleksandr Rula
- National Scientific Centre, Institute of Experimental and Clinical Veterinary Medicine, Kharkiv, Ukraine
| | - Nataliia Muzyka
- National Scientific Centre, Institute of Experimental and Clinical Veterinary Medicine, Kharkiv, Ukraine
| | - Oleksandr Mezinov
- The F.E. Falz-Fein Biosphere Reserve “Askania Nova”, National Academy of Agrarian Sciences of Ukraine, Askania-Nova, Kherson Oblast, Ukraine
| | - Borys Stegniy
- National Scientific Centre, Institute of Experimental and Clinical Veterinary Medicine, Kharkiv, Ukraine
| | - Olena Kolesnyk
- National Scientific Centre, Institute of Experimental and Clinical Veterinary Medicine, Kharkiv, Ukraine
| | - Mary J. Pantin-Jackwood
- Exotic and Emerging Avian Viral Diseases Research Unit, Southeast Poultry Research Laboratory, US National Poultry Research Center, Agricultural Research Service, USDA, Athens, GA, United States
| | - Patti J. Miller
- Exotic and Emerging Avian Viral Diseases Research Unit, Southeast Poultry Research Laboratory, US National Poultry Research Center, Agricultural Research Service, USDA, Athens, GA, United States
| | - Claudio L. Afonso
- Exotic and Emerging Avian Viral Diseases Research Unit, Southeast Poultry Research Laboratory, US National Poultry Research Center, Agricultural Research Service, USDA, Athens, GA, United States
| | - Denys Muzyka
- National Scientific Centre, Institute of Experimental and Clinical Veterinary Medicine, Kharkiv, Ukraine,Department of Zoology, H.S. Skovoroda Kharkiv National Pedagogical University, Kharkiv, Ukraine,*Correspondence: Denys Muzyka ✉
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Bover CG, del Castillo JMS, Moniz VC, Sevilla-Navarro S, Orenga CM, Catala-Gregori P. Dynamic paramyxovirus type 1 seroprevalence maps in broilers in the Valencian Community (eastern Spain) during a five-year period (2008-2012). VET MED-CZECH 2022; 67:471-478. [PMID: 38846343 PMCID: PMC11154878 DOI: 10.17221/145/2020-vetmed] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/10/2020] [Accepted: 05/13/2022] [Indexed: 06/09/2024] Open
Abstract
Newcastle disease is a devasting disease in poultry production worldwide, thus it is important to implement control measures to avoid entrance of the disease and its spread in the field. In this context, the aim of this study was to design and implement a seroprevalence map based on business intelligence for avian paramyxovirus type 1 (APMV-1) in broilers in the Valencia Community (eastern Spain). This tool consists in software mapping based on data collection, data analysis and data representation. In order to obtain the serological data, 12 495 sera from 131 broiler farms over 5 years were analysed (2008-2012). The data were represented on a map of the Valencian Community including geographical information of flock locations to facilitate disease monitoring. No clinical signs of APMV-1 were reported in the studied flocks. The data from this study showed no evidence contact with APMV-1 in broiler flocks and the novel software mapping tool as a valuable method for easily monitoring the serological response to avian paramyxovirus type 1 (APMV-1) including geographical information.
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Affiliation(s)
- Cristina Garcia Bover
- Center for Poultry Quality and Animal Feed of the Community Valenciana (CECAV), Castellón, Spain
| | | | - Veronica Cortes Moniz
- Center for Poultry Quality and Animal Feed of the Community Valenciana (CECAV), Castellón, Spain
| | - Sandra Sevilla-Navarro
- Center for Poultry Quality and Animal Feed of the Community Valenciana (CECAV), Castellón, Spain
| | - Clara Marin Orenga
- Department of Animal Production and Health, Veterinary Public Health and Food Science and Technology, Institute of Biomedical Sciences, Faculty of Veterinary Medicine, Cardenal Herrera-CEU University, CEU Universities, Moncada, Spain
| | - Pablo Catala-Gregori
- Center for Poultry Quality and Animal Feed of the Community Valenciana (CECAV), Castellón, Spain
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Risky business in Georgia's wild birds: Contact rates between wild birds and backyard chickens is influenced by supplemental feed. Epidemiol Infect 2022; 150:e102. [PMID: 35508913 PMCID: PMC9128352 DOI: 10.1017/s0950268822000851] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
Backyard chickens are increasingly popular, and their husbandry varies widely. How backyard chickens are housed may influence the accessibility of chicken feed and water to wild birds, and thus, the contact rates between both groups. Increased contacts have implications for pathogen transmission; for instance, Newcastle disease virus or avian influenza virus may be transmitted to and from backyard chickens from contaminated water or feed. Given this potentially increased pathogen risk to wild birds and backyard chickens, we examined which wild bird species are likely to encounter backyard chickens and their resources. We performed a supplemental feeding experiment followed by observations at three sites associated with backyard chickens in North Georgia, USA. At each site, we identified the species of wild birds that: (a) shared habitat with the chickens, (b) had a higher frequency of detection relative to other species and (c) encountered the coops. We identified 14 wild bird species that entered the coops to consume supplemental feed and were considered high-risk for pathogen transmission. Our results provide evidence that contact between wild birds and backyard chickens is frequent and more common than previously believed, which has crucial epidemiological implications for wildlife managers and backyard chicken owners.
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Thymic transcriptome analysis after Newcastle disease virus inoculation in chickens and the influence of host small RNAs on NDV replication. Sci Rep 2021; 11:10270. [PMID: 33986327 PMCID: PMC8119446 DOI: 10.1038/s41598-021-89464-1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2020] [Accepted: 04/19/2021] [Indexed: 12/17/2022] Open
Abstract
Newcastle disease (ND), caused by virulent Newcastle disease virus (NDV), is a contagious viral disease affecting various birds and poultry worldwide. In this project, differentially expressed (DE) circRNAs, miRNAs and mRNAs were identified by high-throughput RNA sequencing (RNA-Seq) in chicken thymus at 24, 48, 72 or 96 h post LaSota NDV vaccine injection versus pre-inoculation group. The vital terms or pathways enriched by vaccine-influenced genes were tested through KEGG and GO analysis. DE genes implicated in innate immunity were preliminarily screened out through GO, InnateDB and Reactome Pathway databases. The interaction networks of DE innate immune genes were established by STRING website. Considering the high expression of gga-miR-6631-5p across all the four time points, DE circRNAs or mRNAs with the possibility to bind to gga-miR-6631-5p were screened out. Among DE genes that had the probability to interact with gga-miR-6631-5p, 7 genes were found to be related to innate immunity. Furthermore, gga-miR-6631-5p promoted LaSota NDV replication by targeting insulin induced gene 1 (INSIG1) in DF-1 chicken fibroblast cells. Taken together, our data provided the comprehensive information about molecular responses to NDV LaSota vaccine in Chinese Partridge Shank Chickens and elucidated the vital roles of gga-miR-6631-5p/INSIG1 axis in LaSota NDV replication.
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da Silva AP, Aston EJ, Chiwanga GH, Birakos A, Muhairwa AP, Kayang BB, Kelly T, Zhou H, Gallardo RA. Molecular Characterization of Newcastle Disease Viruses Isolated from Chickens in Tanzania and Ghana. Viruses 2020; 12:v12090916. [PMID: 32825492 PMCID: PMC7551648 DOI: 10.3390/v12090916] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/01/2020] [Revised: 08/13/2020] [Accepted: 08/18/2020] [Indexed: 11/27/2022] Open
Abstract
Newcastle disease (ND) is one of the most challenging infectious diseases affecting poultry production in Africa, causing major economic losses. To date, Newcastle disease virus isolates from several African countries have been grouped into class II NDV genotypes I, IV, V, VI, VII, XI, XIII, XIV, XVII, XVIII and XXI. Although ND is endemic in many African countries, information on circulating genotypes is still scarce. In Tanzania, outbreaks with genotypes V and XIII have been reported. In West and Central Africa, genotypes XIV, XVII, and XVIII are the most predominant. To investigate other genotypes circulating in Tanzania and Ghana, we performed molecular genotyping on isolates from Tanzania and Ghana using the MinION, a third-generation portable sequencing device from Oxford Nanopore Technologies. Using the MinION, we successfully sequenced the NDV F gene hypervariable region of 24 isolates from Tanzania and four samples from Ghana. In Tanzania, genotypes V, VII and XIII were detected. All isolates from Ghana belonged to genotype XVIII. The data obtained in this study reflect the genetic diversity of NDV in Africa and highlight the importance of surveillance for monitoring the distribution of NDV genotypes and viral evolution.
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Affiliation(s)
- Ana P. da Silva
- Department of Population Health and Reproduction, School of Veterinary Medicine, University of California, Davis, CA 95616, USA; (A.P.d.S.); (A.B.)
| | - Emily J. Aston
- Department of Animal Science, College of Agricultural and Environmental Sciences, University of California, Davis, CA 95616, USA; (E.J.A.); (H.Z.)
| | - Gaspar H. Chiwanga
- Department of Veterinary Medicine and Public Health, College of Veterinary Medicine and Biomedical Sciences, Sokoine University of Agriculture, Morogoro, Tanzania; (G.H.C.); (A.P.M.)
| | - Ashley Birakos
- Department of Population Health and Reproduction, School of Veterinary Medicine, University of California, Davis, CA 95616, USA; (A.P.d.S.); (A.B.)
| | - Amandus P. Muhairwa
- Department of Veterinary Medicine and Public Health, College of Veterinary Medicine and Biomedical Sciences, Sokoine University of Agriculture, Morogoro, Tanzania; (G.H.C.); (A.P.M.)
| | - Boniface B. Kayang
- Department of Animal Science, University of Ghana, Legon, Accra 233, Ghana;
| | - Terra Kelly
- One Health Institute, School of Veterinary Medicine, University of California, Davis, CA 95616, USA;
| | - Huaijun Zhou
- Department of Animal Science, College of Agricultural and Environmental Sciences, University of California, Davis, CA 95616, USA; (E.J.A.); (H.Z.)
| | - Rodrigo A. Gallardo
- Department of Population Health and Reproduction, School of Veterinary Medicine, University of California, Davis, CA 95616, USA; (A.P.d.S.); (A.B.)
- Correspondence: ; Tel.: +1-530-752-1078
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Complete Genome Sequences of 11 Newcastle Disease Virus Isolates of Subgenotype VII.2 from Indonesia. Microbiol Resour Announc 2020; 9:9/5/e01519-19. [PMID: 32001570 PMCID: PMC6992874 DOI: 10.1128/mra.01519-19] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022] Open
Abstract
We report the complete genome sequences of 11 virulent Newcastle disease viruses. The isolates were obtained from vaccinated broiler and layer chickens in three different provinces of Indonesia in 2013 and 2014. Phylogenetic analysis revealed that all isolates belong to subgenotype VII.2 in the class II cluster. We report the complete genome sequences of 11 virulent Newcastle disease viruses. The isolates were obtained from vaccinated broiler and layer chickens in three different provinces of Indonesia in 2013 and 2014. Phylogenetic analysis revealed that all isolates belong to subgenotype VII.2 in the class II cluster.
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Hicks JT, Dimitrov KM, Afonso CL, Ramey AM, Bahl J. Global phylodynamic analysis of avian paramyxovirus-1 provides evidence of inter-host transmission and intercontinental spatial diffusion. BMC Evol Biol 2019; 19:108. [PMID: 31126244 PMCID: PMC6534909 DOI: 10.1186/s12862-019-1431-2] [Citation(s) in RCA: 33] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/10/2018] [Accepted: 05/03/2019] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND Avian avulavirus (commonly known as avian paramyxovirus-1 or APMV-1) can cause disease of varying severity in both domestic and wild birds. Understanding how viruses move among hosts and geography would be useful for informing prevention and control efforts. A Bayesian statistical framework was employed to estimate the evolutionary history of 1602 complete fusion gene APMV-1 sequences collected from 1970 to 2016 in order to infer viral transmission between avian host orders and diffusion among geographic regions. Ancestral states were estimated with a non-reversible continuous-time Markov chain model, allowing transition rates between discrete states to be calculated. The evolutionary analyses were stratified by APMV-1 classes I (n = 198) and II (n = 1404), and only those sequences collected between 2006 and 2016 were allowed to contribute host and location information to the viral migration networks. RESULTS While the current data was unable to assess impact of host domestication status on APMV-1 diffusion, these analyses supported the sharing of APMV-1 among divergent host taxa. The highest supported transition rate for both classes existed from domestic chickens to Anseriformes (class I:6.18 transitions/year, 95% highest posterior density (HPD) 0.31-20.02, Bayes factor (BF) = 367.2; class II:2.88 transitions/year, 95%HPD 1.9-4.06, BF = 34,582.9). Further, among class II viruses, domestic chickens also acted as a source for Columbiformes (BF = 34,582.9), other Galliformes (BF = 34,582.9), and Psittaciformes (BF = 34,582.9). Columbiformes was also a highly supported source to Anseriformes (BF = 322.0) and domestic chickens (BF = 402.6). Additionally, our results provide support for the diffusion of viruses among continents and regions, but no interhemispheric viral exchange between 2006 and 2016. Among class II viruses, the highest transition rates were estimated from South Asia to the Middle East (1.21 transitions/year; 95%HPD 0.36-2.45; BF = 67,107.8), from Europe to East Asia (1.17 transitions/year; 95%HPD 0.12-2.61; BF = 436.2) and from Europe to Africa (1.06 transitions/year, 95%HPD 0.07-2.51; BF = 169.3). CONCLUSIONS While migration appears to occur infrequently, geographic movement may be important in determining viral diversification and population structure. In contrast, inter-order transmission of APMV-1 may occur readily, but most events are transient with few lineages persisting in novel hosts.
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Affiliation(s)
- Joseph T Hicks
- Department of Infectious Diseases, College of Veterinary Medicine, University of Georgia, 501 D. W. Brooks Drive, Athens, GA, 30602, USA.
| | - Kiril M Dimitrov
- Exotic and Emerging Avian Viral Disease Research Unit, Southeast Poultry Research Laboratory, US National Poultry Research Center, ARS, USDA, Athens, GA, USA
| | - Claudio L Afonso
- Exotic and Emerging Avian Viral Disease Research Unit, Southeast Poultry Research Laboratory, US National Poultry Research Center, ARS, USDA, Athens, GA, USA
| | - Andrew M Ramey
- US Geological Survey, Alaska Science Center, Anchorage, AK, USA
| | - Justin Bahl
- Department of Infectious Diseases, College of Veterinary Medicine, University of Georgia, 501 D. W. Brooks Drive, Athens, GA, 30602, USA. .,Program in Emerging Infectious Diseases, Duke-National University of Singapore Graduate Medical School, 8 College Road, Singapore, 169857, Singapore.
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11
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Welch CN, Shittu I, Abolnik C, Solomon P, Dimitrov KM, Taylor TL, Williams-Coplin D, Goraichuk IV, Meseko CA, Ibu JO, Gado DA, Joannis TM, Afonso CL. Genomic comparison of Newcastle disease viruses isolated in Nigeria between 2002 and 2015 reveals circulation of highly diverse genotypes and spillover into wild birds. Arch Virol 2019; 164:2031-2047. [PMID: 31123963 DOI: 10.1007/s00705-019-04288-9] [Citation(s) in RCA: 27] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2019] [Accepted: 04/23/2019] [Indexed: 02/07/2023]
Abstract
Newcastle disease virus (NDV) has a wide avian host range and a high degree of genetic variability, and virulent strains cause Newcastle disease (ND), a worldwide concern for poultry health. Although NDV has been studied in Nigeria, genetic information about the viruses involved in the endemicity of the disease and the transmission that likely occurs at the poultry-wildlife interface is still largely incomplete. Next-generation and Sanger sequencing was performed to provide complete (n = 73) and partial genomic sequence data (n = 38) for NDV isolates collected from domestic and wild birds in Nigeria during 2002-2015, including the first complete genome sequences of genotype IV and subgenotype VIh from the African continent. Phylogenetic analysis revealed that viruses of seven different genotypes circulated in that period, demonstrating high genetic diversity of NDV for a single country. In addition, a high degree of similarity between NDV isolates from domestic and wild birds was observed, suggesting that spillovers had occurred, including to three species that had not previously been shown to be susceptible to NDV infection. Furthermore, the first spillover of a mesogenic Komarov vaccine virus is documented, suggesting a previous spillover and evolution of this virus. The similarities between viruses from poultry and multiple bird species and the lack of evidence for host adaptation in codon usage suggest that transmission of NDV between poultry and non-poultry birds occurred recently. This is especially significant when considering that some viruses were isolated from species of conservation concern. The high diversity of NDV observed in both domestic and wild birds in Nigeria emphasizes the need for active surveillance and epidemiology of NDV in all bird species.
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Affiliation(s)
- Catharine N Welch
- Exotic and Emerging Avian Viral Disease Research Unit, Southeast Poultry Research Laboratory, U.S. National Poultry Research Lab, United States Department of Agriculture, 934 College Station Road, Athens, GA, 30605, USA.,Daniel B. Warnell School of Forestry and Natural Resources, University of Georgia, 180 East Green Street, Athens, GA, 30602, USA
| | - Ismaila Shittu
- National Veterinary Research Institute, PMB 01 Vom, Plateau State, Nigeria
| | - Celia Abolnik
- Department of Production Animal Studies, Faculty of Veterinary Science, University of Pretoria, P/Bag X04, Onderstepoort, 0110, South Africa
| | - Ponman Solomon
- National Veterinary Research Institute, PMB 01 Vom, Plateau State, Nigeria.,Department of Production Animal Studies, Faculty of Veterinary Science, University of Pretoria, P/Bag X04, Onderstepoort, 0110, South Africa
| | - Kiril M Dimitrov
- Exotic and Emerging Avian Viral Disease Research Unit, Southeast Poultry Research Laboratory, U.S. National Poultry Research Lab, United States Department of Agriculture, 934 College Station Road, Athens, GA, 30605, USA
| | - Tonya L Taylor
- Exotic and Emerging Avian Viral Disease Research Unit, Southeast Poultry Research Laboratory, U.S. National Poultry Research Lab, United States Department of Agriculture, 934 College Station Road, Athens, GA, 30605, USA
| | - Dawn Williams-Coplin
- Exotic and Emerging Avian Viral Disease Research Unit, Southeast Poultry Research Laboratory, U.S. National Poultry Research Lab, United States Department of Agriculture, 934 College Station Road, Athens, GA, 30605, USA
| | - Iryna V Goraichuk
- Exotic and Emerging Avian Viral Disease Research Unit, Southeast Poultry Research Laboratory, U.S. National Poultry Research Lab, United States Department of Agriculture, 934 College Station Road, Athens, GA, 30605, USA
| | - Clement A Meseko
- National Veterinary Research Institute, PMB 01 Vom, Plateau State, Nigeria
| | - John O Ibu
- Department of Veterinary Pathology and Microbiology, University of Agriculture, Makurdi, Benue, Nigeria
| | - Dorcas A Gado
- National Veterinary Research Institute, PMB 01 Vom, Plateau State, Nigeria.,Department of Production Animal Studies, Faculty of Veterinary Science, University of Pretoria, P/Bag X04, Onderstepoort, 0110, South Africa
| | - Tony M Joannis
- National Veterinary Research Institute, PMB 01 Vom, Plateau State, Nigeria
| | - Claudio L Afonso
- Exotic and Emerging Avian Viral Disease Research Unit, Southeast Poultry Research Laboratory, U.S. National Poultry Research Lab, United States Department of Agriculture, 934 College Station Road, Athens, GA, 30605, USA.
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12
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RETRACTED: Evaluation of imidazole and its derivative against Newcastle disease virus infection in chicken: A drug repurposing approach. Virus Res 2019; 260:114-122. [DOI: 10.1016/j.virusres.2018.11.013] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2018] [Revised: 11/27/2018] [Accepted: 11/27/2018] [Indexed: 11/20/2022]
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13
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Butt SL, Taylor TL, Volkening JD, Dimitrov KM, Williams-Coplin D, Lahmers KK, Miller PJ, Rana AM, Suarez DL, Afonso CL, Stanton JB. Rapid virulence prediction and identification of Newcastle disease virus genotypes using third-generation sequencing. Virol J 2018; 15:179. [PMID: 30466441 PMCID: PMC6251111 DOI: 10.1186/s12985-018-1077-5] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2018] [Accepted: 10/10/2018] [Indexed: 11/30/2022] Open
Abstract
BACKGROUND Newcastle disease (ND) outbreaks are global challenges to the poultry industry. Effective management requires rapid identification and virulence prediction of the circulating Newcastle disease viruses (NDV), the causative agent of ND. However, these diagnostics are hindered by the genetic diversity and rapid evolution of NDVs. METHODS An amplicon sequencing (AmpSeq) workflow for virulence and genotype prediction of NDV samples using a third-generation, real-time DNA sequencing platform is described here. 1D MinION sequencing of barcoded NDV amplicons was performed using 33 egg-grown isolates, (15 NDV genotypes), and 15 clinical swab samples collected from field outbreaks. Assembly-based data analysis was performed in a customized, Galaxy-based AmpSeq workflow. MinION-based results were compared to previously published sequences and to sequences obtained using a previously published Illumina MiSeq workflow. RESULTS For all egg-grown isolates, NDV was detected and virulence and genotype were accurately predicted. For clinical samples, NDV was detected in ten of eleven NDV samples. Six of the clinical samples contained two mixed genotypes as determined by MiSeq, of which the MinION method detected both genotypes in four samples. Additionally, testing a dilution series of one NDV isolate resulted in NDV detection in a dilution as low as 101 50% egg infectious dose per milliliter. This was accomplished in as little as 7 min of sequencing time, with a 98.37% sequence identity compared to the expected consensus obtained by MiSeq. CONCLUSION The depth of sequencing, fast sequencing capabilities, accuracy of the consensus sequences, and the low cost of multiplexing allowed for effective virulence prediction and genotype identification of NDVs currently circulating worldwide. The sensitivity of this protocol was preliminary tested using only one genotype. After more extensive evaluation of the sensitivity and specificity, this protocol will likely be applicable to the detection and characterization of NDV.
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Affiliation(s)
- Salman L. Butt
- Southeast Poultry Research Laboratory, US National Poultry Research Center, Agricultural Research Service, USDA, 934 College Station Road, Athens, GA 30605 USA
- Department of Pathology, College of Veterinary Medicine, University of Georgia, Athens, GA 30602 USA
| | - Tonya L. Taylor
- Southeast Poultry Research Laboratory, US National Poultry Research Center, Agricultural Research Service, USDA, 934 College Station Road, Athens, GA 30605 USA
| | | | - Kiril M. Dimitrov
- Southeast Poultry Research Laboratory, US National Poultry Research Center, Agricultural Research Service, USDA, 934 College Station Road, Athens, GA 30605 USA
| | - Dawn Williams-Coplin
- Southeast Poultry Research Laboratory, US National Poultry Research Center, Agricultural Research Service, USDA, 934 College Station Road, Athens, GA 30605 USA
| | - Kevin K. Lahmers
- Department of Biomedical Sciences & Pathobiology,VA-MD College of Veterinary Medicine, Virginia Tech, Blacksburg, VA USA
| | - Patti J. Miller
- Southeast Poultry Research Laboratory, US National Poultry Research Center, Agricultural Research Service, USDA, 934 College Station Road, Athens, GA 30605 USA
- Department of Population Health, College of Veterinary Medicine, 953 College Station Road, Athens, GA 30602 USA
| | - Asif M. Rana
- Hivet Animal Health Business, 667-P, Johar Town, Lahore, Pakistan
| | - David L. Suarez
- Southeast Poultry Research Laboratory, US National Poultry Research Center, Agricultural Research Service, USDA, 934 College Station Road, Athens, GA 30605 USA
| | - Claudio L. Afonso
- Southeast Poultry Research Laboratory, US National Poultry Research Center, Agricultural Research Service, USDA, 934 College Station Road, Athens, GA 30605 USA
| | - James B. Stanton
- Department of Pathology, College of Veterinary Medicine, University of Georgia, Athens, GA 30602 USA
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14
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Genomic and biological characterization of Newcastle disease viruses isolated from migratory mallards (Anas platyrhynchos). Arch Virol 2018; 163:2179-2188. [PMID: 29707734 DOI: 10.1007/s00705-018-3840-8] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2017] [Accepted: 03/06/2018] [Indexed: 10/17/2022]
Abstract
Given the global evolutionary dynamics of Newcastle disease viruses (NDVs), it is imperative to continue extensive surveillance, routine monitoring and characterization of isolates originating from natural reservoirs (waterfowls). In this report, we isolated and characterized two virulent NDV strains from clinically healthy mallard (Anas platyrhynchos). Both isolates had a genome of 15,192 nucleotides encoding six genes in an order of 3´-NP-P-M-F-HN-L-5´. The biological characteristics (mean death time: 49.5-50 hr, EID50108.5 ml-1) and presence of a typical cleavage site in the fusion (F) protein (112R-R-Q-K-R↓F117) confirmed the velogenic nature of these isolates. Phylogenetic analysis classified both isolates as members of genotype VII within class-II. Furthermore, based upon the hypervariable region of the F gene (375 nt), isolates showed clustering within sub-genotype VIIi. Similarity index and parallel comparison revealed a higher nucleotide divergence from commonly used vaccine strains; LaSota (21%) and Mukteswar (17%). A comparative residues analysis with representative strains of different genotypes, including vaccine strains, revealed a number of substitutions at important structural and functional domains within the F and hemagglutinin-neuraminidase (HN) proteins. Together, the results highlight consistent evolution among circulating NDVs supporting extensive surveillance of the virus in waterfowl to better elucidate epidemiology, evolutionary relationships and their impacts on commercial and backyard poultry.
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15
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Susta L, Segovia D, Olivier TL, Dimitrov KM, Shittu I, Marcano V, Miller PJ. Newcastle Disease Virus Infection in Quail. Vet Pathol 2018; 55:682-692. [PMID: 29661124 DOI: 10.1177/0300985818767996] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
Abstract
Newcastle disease (ND), caused by virulent strains of Newcastle disease virus (NDV), is a devastating disease of poultry worldwide. The pathogenesis of ND in quail is poorly documented. To characterize the ability of virulent NDV strains to replicate and cause disease in quail, groups of 14 two-week-old Japanese quail ( Coturnix japonica) were experimentally inoculated with 108 EID50 (embryo infectious dose 50%) units of 1 of 4 virulent NDV strains: 2 isolated from quail ( N2, N23) and 2 from chickens ( Israel, Pakistan). At day 2 postinfection, noninfected quail (contact group) were added to each infection group to assess the efficacy of virus transmission. Tested NDV strains showed moderate pathogenicity, with highest mortality being 28% for the N2 strain and below 10% for the others. Two N2-inoculated birds showed neurological signs, such as head tremor and ataxia. Microscopic lesions were present in N2-, Israel-, and Pakistan-inoculated birds and consisted of nonsuppurative encephalitis. Contact birds showed no clinical signs or lesions. In both inoculated and contact birds, virus replication was moderate to minimal, respectively, as observed by immunohistochemistry in tissues and virus isolation from oropharyngeal and cloacal swabs. Strains originally isolated from quail resulted in higher numbers of birds shedding in the inoculation group; however, transmission appeared slightly more efficient with chicken-derived isolates. This study shows that virulent NDV strains have limited replicative potential and mild to moderate disease-inducing ability in Japanese quail.
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Affiliation(s)
- Leonardo Susta
- 1 Department of Pathobiology, Ontario Veterinary College, University of Guelph, Ontario, Canada
| | - Diego Segovia
- 1 Department of Pathobiology, Ontario Veterinary College, University of Guelph, Ontario, Canada
| | - Timothy L Olivier
- 2 Southeast Poultry Research Laboratory, Agricultural Research Service, USDA, Athens, GA, USA
| | - Kiril M Dimitrov
- 2 Southeast Poultry Research Laboratory, Agricultural Research Service, USDA, Athens, GA, USA
| | - Ismaila Shittu
- 3 Regional Laboratory for Animal Influenza and Transboundary Animal Diseases, National Veterinary Research Institute, Vom, Nigeria
| | - Valerie Marcano
- 2 Southeast Poultry Research Laboratory, Agricultural Research Service, USDA, Athens, GA, USA.,4 Department of Veterinary Pathology, College of Veterinary Medicine, University of Georgia, Athens, GA, USA
| | - Patti J Miller
- 2 Southeast Poultry Research Laboratory, Agricultural Research Service, USDA, Athens, GA, USA.,5 Department of Population Health, College of Veterinary Medicine, University of Georgia, Athens, GA, USA
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16
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Wiseman A, Berman E, Klement E. Risk factors for Newcastle disease in broiler farms in Israel. Prev Vet Med 2018; 149:92-97. [DOI: 10.1016/j.prevetmed.2017.11.009] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2017] [Revised: 11/07/2017] [Accepted: 11/08/2017] [Indexed: 10/18/2022]
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17
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Sabra M, Dimitrov KM, Goraichuk IV, Wajid A, Sharma P, Williams-Coplin D, Basharat A, Rehmani SF, Muzyka DV, Miller PJ, Afonso CL. Phylogenetic assessment reveals continuous evolution and circulation of pigeon-derived virulent avian avulaviruses 1 in Eastern Europe, Asia, and Africa. BMC Vet Res 2017; 13:291. [PMID: 28950869 PMCID: PMC5615457 DOI: 10.1186/s12917-017-1211-4] [Citation(s) in RCA: 38] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/08/2017] [Accepted: 09/22/2017] [Indexed: 01/24/2023] Open
Abstract
Background The remarkable diversity and mobility of Newcastle disease viruses (NDV) includes virulent viruses of genotype VI. These viruses are often referred to as pigeon paramyxoviruses 1 because they are normally isolated and cause clinical disease in birds from the Columbidae family. Genotype VI viruses occasionally infect, and may also cause clinical disease in poultry. Thus, the evolution, current spread and detection of these viruses are relevant to avian health. Results Here, we describe the isolation and genomic characterization of six Egyptian (2015), four Pakistani (2015), and two Ukrainian (2007, 2013) recent pigeon-derived NDV isolates of sub-genotype VIg. These viruses are closely related to isolates from Kazakhstan, Nigeria and Russia. In addition, eight genetically related NDV isolates from Pakistan (2014–2016) that define a new sub-genotype (VIm) are described. All of these viruses, and the ancestral Bulgarian (n = 2) and South Korean (n = 2) viruses described here, have predicted virulent cleavage sites of the fusion protein, and those selected for further characterization have intracerebral pathogenicity index assay values characteristic of NDV of genotype VI (1.31 to 1.48). A validated matrix gene real-time RT-PCR (rRT-PCR) NDV test detect all tested isolates. However, the validated rRT-PCR test that is normally used to identify the virulent fusion gene fails to detect the Egyptian and Ukrainian viruses due to mismatches in primers and probe. A new rapid rRT-PCR test to determine the presence of virulent cleavage sites for viruses from sub-genotypes VIg was developed and evaluated on these and other viruses. Conclusions We describe the almost simultaneous circulation and continuous evolution of genotype VI Newcastle disease viruses in distant locations, suggesting epidemiological connections among three continents. As pigeons are not migratory, this study suggests the need to understand the possible role of human activity in the dispersal of these viruses. Complete genomic characterization identified previously unrecognized genetic diversity that contributes to diagnostic failure and will facilitate future evolutionary studies. These results highlight the importance of conducting active surveillance on pigeons worldwide and the need to update existent rapid diagnostic protocols to detect emerging viral variants and help manage the disease in affected regions. Electronic supplementary material The online version of this article (10.1186/s12917-017-1211-4) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Mahmoud Sabra
- Department of Poultry Diseases, Faculty of Veterinary Medicine, South Valley University, Qena, 83523, Egypt.,Exotic and Emerging Avian Viral Diseases Research Unit, Southeast Poultry Research Laboratory, US National Poultry Research Center, Agricultural Research Service, USDA, 934 College Station Road, Athens, GA, 30605, USA
| | - Kiril M Dimitrov
- Exotic and Emerging Avian Viral Diseases Research Unit, Southeast Poultry Research Laboratory, US National Poultry Research Center, Agricultural Research Service, USDA, 934 College Station Road, Athens, GA, 30605, USA
| | - Iryna V Goraichuk
- Exotic and Emerging Avian Viral Diseases Research Unit, Southeast Poultry Research Laboratory, US National Poultry Research Center, Agricultural Research Service, USDA, 934 College Station Road, Athens, GA, 30605, USA.,National Scientific Center Institute of Experimental and Clinical Veterinary Medicine, 83 Pushkinskaya Street, Kharkiv, 61023, Ukraine
| | - Abdul Wajid
- Quality Operations Laboratory (QOL), University of Veterinary and Animal Sciences, Syed Abdul Qadir Jilani Road, Lahore, 54000, Pakistan.,Institute of Biochemistry and Biotechnology, University of Veterinary and Animal Sciences, Syed Abdul Qadir Jilani Road, Lahore, 54000, Pakistan
| | - Poonam Sharma
- Exotic and Emerging Avian Viral Diseases Research Unit, Southeast Poultry Research Laboratory, US National Poultry Research Center, Agricultural Research Service, USDA, 934 College Station Road, Athens, GA, 30605, USA
| | - Dawn Williams-Coplin
- Exotic and Emerging Avian Viral Diseases Research Unit, Southeast Poultry Research Laboratory, US National Poultry Research Center, Agricultural Research Service, USDA, 934 College Station Road, Athens, GA, 30605, USA
| | - Asma Basharat
- Quality Operations Laboratory (QOL), University of Veterinary and Animal Sciences, Syed Abdul Qadir Jilani Road, Lahore, 54000, Pakistan
| | - Shafqat F Rehmani
- Quality Operations Laboratory (QOL), University of Veterinary and Animal Sciences, Syed Abdul Qadir Jilani Road, Lahore, 54000, Pakistan
| | - Denys V Muzyka
- National Scientific Center Institute of Experimental and Clinical Veterinary Medicine, 83 Pushkinskaya Street, Kharkiv, 61023, Ukraine
| | - Patti J Miller
- Exotic and Emerging Avian Viral Diseases Research Unit, Southeast Poultry Research Laboratory, US National Poultry Research Center, Agricultural Research Service, USDA, 934 College Station Road, Athens, GA, 30605, USA
| | - Claudio L Afonso
- Exotic and Emerging Avian Viral Diseases Research Unit, Southeast Poultry Research Laboratory, US National Poultry Research Center, Agricultural Research Service, USDA, 934 College Station Road, Athens, GA, 30605, USA.
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18
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Emerging variant of genotype XIII Newcastle disease virus from Northeast India. Acta Trop 2017; 172:64-69. [PMID: 28450210 DOI: 10.1016/j.actatropica.2017.04.018] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2017] [Revised: 04/18/2017] [Accepted: 04/21/2017] [Indexed: 01/12/2023]
Abstract
Northeast India with its rich and diverse avifauna acts as a hotbed for emerging virulent Newcastle disease virus (NDV) strains. The present work describes the molecular and pathogenic characterization of NDV strain isolated from Pandu, Assam, India. Clinicopathological and genetic analysis showed the virulent nature of NDV strain Pandu. On molecular phylogenetic and evolutionary distance analysis, the NDV strain Pandu formed a distinct clade within the genotype XIII of class II NDV, suggesting a new sub-genotype XIIIc. The accumulation of mutations in the NDV strain Pandu makes it divergent enough to be considered as a new sub-genotype. The proposed NDV sub-genotype XIIIc consists of strains recently reported from eastern and northeastern India.
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19
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Wajid A, Dimitrov KM, Wasim M, Rehmani SF, Basharat A, Bibi T, Arif S, Yaqub T, Tayyab M, Ababneh M, Sharma P, Miller PJ, Afonso CL. Repeated isolation of virulent Newcastle disease viruses in poultry and captive non-poultry avian species in Pakistan from 2011 to 2016. Prev Vet Med 2017; 142:1-6. [DOI: 10.1016/j.prevetmed.2017.04.010] [Citation(s) in RCA: 36] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/12/2016] [Revised: 04/03/2017] [Accepted: 04/26/2017] [Indexed: 01/11/2023]
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20
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Emergence of a deviating genotype VI pigeon paramyxovirus type-1 isolated from India. Arch Virol 2017; 162:2169-2174. [PMID: 28349356 DOI: 10.1007/s00705-017-3340-2] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2017] [Accepted: 02/17/2017] [Indexed: 01/13/2023]
Abstract
Pigeon paramyxovirus type 1 (PPMV-1) is an antigenic variant of avian paramyxovirus type 1 (APMV-1), which infects pigeons. The virus causes high morbidity and mortality, creating an alarming state for the poultry industry. The present work describes the molecular and pathogenic characterization of a PPMV-1 strain isolated from pigeon in Bhopal, India. Complete genome sequence analysis revealed a genome of 15,192 nucleotides encoding six genes organized in the order 3'-N-P-M-F-HN-L-5'. The fusion gene sequence analysis showed the presence of multiple basic amino acids 112R-R-Q-K-R-F117 at the cleavage site corresponding to pathogenic strains. The mean death time and intracerebral pathogenicity index values indicated a mesogenic nature for the PPMV-1 isolate. On phylogenetic analysis, the strain clustered with genotype VI viruses, including isolates from pigeon and dove. The Bhopal strain showed significant intra and inter-genotype evolutionary distance, suggesting the emergence of a new sub-genotype, VIj.
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21
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Abstract
Due to the ongoing need to protect poultry from virulent Newcastle disease virus, all commercial poultry flocks in Israel are vaccinated according to a defined programme using a combination of live and inactivated vaccines. The vaccination protocol for broilers during the years of the study comprised a live vaccine administered by spray on the day of hatching, inactivated vaccine by subcutaneous injection at 10-12 days of age, and another live vaccine given by aerosol at 17-21 days of age. A cross-sectional study was designed in order to examine the influence of herd immunity on the risk of Newcastle disease outbreak in broiler flocks. The study was based on the extensive field data kept in the Poultry Health Laboratories database. The results of serology tests employing haemagglutination inhibition for Newcastle disease virus were analysed and crossed with the list of flocks that had been diagnosed with ND in the years 2007-2014. At the peak of induced immunization (fifth week of growth), 87.5% of the tested flocks had achieved herd immunity (≥85% of birds in the flock with an HI titre ≥4). Based on a logistic regression model, the odds ratio for ND in flocks without herd immunity was 3.7 (95% CI 1.8-7.3, P-value < 0.001). The higher the percentage of birds with low HI titres the higher the risk of ND outbreak. Under field conditions, herd immunity is an important indicator for the risk of ND outbreak.
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Affiliation(s)
- Anat Wiseman
- a The Poultry Health Laboratories , The Egg and Poultry Board , Kiryat Malachi , Israel
| | - Elyakum M Berman
- a The Poultry Health Laboratories , The Egg and Poultry Board , Kiryat Malachi , Israel
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22
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Assessment of contemporary genetic diversity and inter-taxa/inter-region exchange of avian paramyxovirus serotype 1 in wild birds sampled in North America. Virol J 2017; 14:43. [PMID: 28253898 PMCID: PMC5335501 DOI: 10.1186/s12985-017-0714-8] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/05/2017] [Accepted: 02/17/2017] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND Avian paramyxovirus serotype 1 (APMV-1) viruses are globally distributed, infect wild, peridomestic, and domestic birds, and sometimes lead to outbreaks of disease. Thus, the maintenance, evolution, and spread of APMV-1 viruses are relevant to avian health. METHODS In this study we sequenced the fusion gene from 58 APMV-1 isolates recovered from thirteen species of wild birds sampled throughout the USA during 2007-2014. We analyzed sequence information with previously reported data in order to assess contemporary genetic diversity and inter-taxa/inter-region exchange of APMV-1 in wild birds sampled in North America. RESULTS Our results suggest that wild birds maintain previously undescribed genetic diversity of APMV-1; however, such diversity is unlikely to be pathogenic to domestic poultry. Phylogenetic analyses revealed that APMV-1 diversity detected in wild birds of North America has been found in birds belonging to numerous taxonomic host orders and within hosts inhabiting multiple geographic regions suggesting some level of viral exchange. However, our results also provide statistical support for associations between phylogenetic tree topology and host taxonomic order/region of sample origin which supports restricted exchange among taxa and geographical regions of North America for some APMV-1 sub-genotypes. CONCLUSIONS We identify previously unrecognized genetic diversity of APMV-1 in wild birds in North America which is likely a function of continued viral evolution in reservoir hosts. We did not, however, find support for the emergence or maintenance of APMV-1 strains predicted to be pathogenic to poultry in wild birds of North America outside of the order Suliformes (i.e., cormorants). Furthermore, genetic evidence suggests that ecological drivers or other mechanisms may restrict viral exchange among taxa and regions of North America. Additional and more systematic sampling for APMV-1 in North America would likely provide further inference on viral dynamics for this infectious agent in wild bird populations.
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23
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Das M, Kumar S. Evidence of independent evolution of genotype XIII Newcastle disease viruses in India. Arch Virol 2016; 162:997-1007. [PMID: 28035479 DOI: 10.1007/s00705-016-3182-3] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/12/2016] [Accepted: 11/22/2016] [Indexed: 12/19/2022]
Abstract
Despite the prevalence of Newcastle disease virus (NDV) outbreaks in India through the decades, there has been little genetic characterisation of the virulent strains circulating in Northeast India. In 2014, a poultry farm in the Kamrup district of Assam reported an ND outbreak. In this study, genetic analysis and clinicopathological tests showed the virulent nature of the isolate Kamrup. Based on prudent classification criteria, the virulent strain Kamrup was found to be most closely related to members of genotype XIII of class II NDV. A phylogenetic analysis of NDV strains suggested three sub-genotypes: XIIIa, XIIIb and XIIIc. NDV strain Kamrup belonged to sub-genotype XIIIc. Sub-genotype XIIIc isolates were similar to the 1982 isolate from cockatoo and appeared to have evolved parallel to the preceding genotype XIII viruses circulating in India. The high genetic diversity and frequency of mutations observed in the envelope glycoproteins of strain Kamrup demonstrate the evolution of the pandemic genotype XIII NDV in India, which further undermines and complicates of NDV management in India.
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Affiliation(s)
- Moushumee Das
- Department of Biosciences and Bioengineering, Indian Institute of Technology Guwahati, Guwahati, Assam, 781039, India
| | - Sachin Kumar
- Department of Biosciences and Bioengineering, Indian Institute of Technology Guwahati, Guwahati, Assam, 781039, India.
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24
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Ayala AJ, Dimitrov KM, Becker CR, Goraichuk IV, Arns CW, Bolotin VI, Ferreira HL, Gerilovych AP, Goujgoulova GV, Martini MC, Muzyka DV, Orsi MA, Scagion GP, Silva RK, Solodiankin OS, Stegniy BT, Miller PJ, Afonso CL. Presence of Vaccine-Derived Newcastle Disease Viruses in Wild Birds. PLoS One 2016; 11:e0162484. [PMID: 27626272 PMCID: PMC5023329 DOI: 10.1371/journal.pone.0162484] [Citation(s) in RCA: 39] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2016] [Accepted: 08/23/2016] [Indexed: 01/28/2023] Open
Abstract
Our study demonstrates the repeated isolation of vaccine-derived Newcastle disease viruses from different species of wild birds across four continents from 1997 through 2014. The data indicate that at least 17 species from ten avian orders occupying different habitats excrete vaccine-derived Newcastle disease viruses. The most frequently reported isolates were detected among individuals in the order Columbiformes (n = 23), followed in frequency by the order Anseriformes (n = 13). Samples were isolated from both free-ranging (n = 47) and wild birds kept in captivity (n = 7). The number of recovered vaccine-derived viruses corresponded with the most widely utilized vaccines, LaSota (n = 28) and Hitchner B1 (n = 19). Other detected vaccine-derived viruses resembled the PHY-LMV2 and V4 vaccines, with five and two cases, respectively. These results and the ubiquitous and synanthropic nature of wild pigeons highlight their potential role as indicator species for the presence of Newcastle disease virus of low virulence in the environment. The reverse spillover of live agents from domestic animals to wildlife as a result of the expansion of livestock industries employing massive amounts of live virus vaccines represent an underappreciated and poorly studied effect of human activity on wildlife.
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Affiliation(s)
- Andrea J. Ayala
- College of Veterinary Medicine, University of Georgia, Athens, Georgia, United States of America
- Exotic and Emerging Avian Viral Diseases Research Unit, Southeast Poultry Research Laboratory, United States National Poultry Research Center, Agricultural Research Service, United States Department of Agriculture, Athens, Georgia, United States of America
| | - Kiril M. Dimitrov
- Exotic and Emerging Avian Viral Diseases Research Unit, Southeast Poultry Research Laboratory, United States National Poultry Research Center, Agricultural Research Service, United States Department of Agriculture, Athens, Georgia, United States of America
- National Diagnostic Research Veterinary Medical Institute, Sofia, Bulgaria
| | - Cassidy R. Becker
- Odum School of Ecology, University of Georgia, Athens, Georgia, United States of America
| | - Iryna V. Goraichuk
- Exotic and Emerging Avian Viral Diseases Research Unit, Southeast Poultry Research Laboratory, United States National Poultry Research Center, Agricultural Research Service, United States Department of Agriculture, Athens, Georgia, United States of America
- National Scientific Center Institute of Experimental and Clinical Veterinary Medicine, Kharkiv, Ukraine
| | - Clarice W. Arns
- Laboratory of Animal Virology, Institute of Biology, University of Campinas-UNICAMP, Campinas, Brazil
| | - Vitaly I. Bolotin
- National Scientific Center Institute of Experimental and Clinical Veterinary Medicine, Kharkiv, Ukraine
| | - Helena L. Ferreira
- Department of Veterinary Medicine, College of Animal Science and Food Engineering and Graduate Program in Experimental Epidemiology of Zoonosis, University of São Paulo, São Paulo, Brazil
- Post-Graduate Program in the Experimental Epidemiology of Zoonoses, School of Veterinary Medicine and Animal Science, University of São Paulo, São Paulo, Brazil
| | - Anton P. Gerilovych
- National Scientific Center Institute of Experimental and Clinical Veterinary Medicine, Kharkiv, Ukraine
| | | | - Matheus C. Martini
- Laboratory of Animal Virology, Institute of Biology, University of Campinas-UNICAMP, Campinas, Brazil
| | - Denys V. Muzyka
- National Scientific Center Institute of Experimental and Clinical Veterinary Medicine, Kharkiv, Ukraine
| | - Maria A. Orsi
- National Agricultural Laboratory of São Paulo, Lanagro/SP, Campinas, Brazil
| | - Guilherme P. Scagion
- Laboratory of Animal Virology, Institute of Biology, University of Campinas-UNICAMP, Campinas, Brazil
| | - Renata K. Silva
- Post-Graduate Program in the Experimental Epidemiology of Zoonoses, School of Veterinary Medicine and Animal Science, University of São Paulo, São Paulo, Brazil
| | - Olexii S. Solodiankin
- National Scientific Center Institute of Experimental and Clinical Veterinary Medicine, Kharkiv, Ukraine
| | - Boris T. Stegniy
- National Scientific Center Institute of Experimental and Clinical Veterinary Medicine, Kharkiv, Ukraine
| | - Patti J. Miller
- Exotic and Emerging Avian Viral Diseases Research Unit, Southeast Poultry Research Laboratory, United States National Poultry Research Center, Agricultural Research Service, United States Department of Agriculture, Athens, Georgia, United States of America
| | - Claudio L. Afonso
- Exotic and Emerging Avian Viral Diseases Research Unit, Southeast Poultry Research Laboratory, United States National Poultry Research Center, Agricultural Research Service, United States Department of Agriculture, Athens, Georgia, United States of America
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Newcastle Disease Viruses Causing Recent Outbreaks Worldwide Show Unexpectedly High Genetic Similarity to Historical Virulent Isolates from the 1940s. J Clin Microbiol 2016; 54:1228-35. [PMID: 26888902 DOI: 10.1128/jcm.03044-15] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2015] [Accepted: 02/07/2016] [Indexed: 11/20/2022] Open
Abstract
Virulent strains of Newcastle disease virus (NDV) cause Newcastle disease (ND), a devastating disease of poultry and wild birds. Phylogenetic analyses clearly distinguish historical isolates (obtained prior to 1960) from currently circulating viruses of class II genotypes V, VI, VII, and XII through XVIII. Here, partial and complete genomic sequences of recent virulent isolates of genotypes II and IX from China, Egypt, and India were found to be nearly identical to those of historical viruses isolated in the 1940s. Phylogenetic analysis, nucleotide distances, and rates of change demonstrate that these recent isolates have not evolved significantly from the most closely related ancestors from the 1940s. The low rates of change for these virulent viruses (7.05 × 10(-5) and 2.05 × 10(-5) per year, respectively) and the minimal genetic distances existing between these and historical viruses (0.3 to 1.2%) of the same genotypes indicate an unnatural origin. As with any other RNA virus, Newcastle disease virus is expected to evolve naturally; thus, these findings suggest that some recent field isolates should be excluded from evolutionary studies. Furthermore, phylogenetic analyses show that these recent virulent isolates are more closely related to virulent strains isolated during the 1940s, which have been and continue to be used in laboratory and experimental challenge studies. Since the preservation of viable viruses in the environment for over 6 decades is highly unlikely, it is possible that the source of some of the recent virulent viruses isolated from poultry and wild birds might be laboratory viruses.
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Gaikwad S, Kim JY, Lee HJ, Jung SC, Choi KS. Genetic characterization and evolutionary analysis of Newcastle disease virus isolated from domestic duck in South Korea. Gene 2015; 579:34-40. [PMID: 26721461 DOI: 10.1016/j.gene.2015.12.040] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2015] [Revised: 12/17/2015] [Accepted: 12/18/2015] [Indexed: 01/02/2023]
Abstract
Domestic ducks are considered a potential reservoir of Newcastle disease virus. In the study, a Newcastle disease virus (NDV) isolated from a domestic duck during surveillance in South Korea was characterized. The complete genome of the NDV isolate was sequenced, and the phylogenetic relationship to reference strains was studied. Phylogenetic analysis revealed that the strain clustered in genotype I of Class II ND viruses, has highly phylogenetic similarity to NDV strains isolated from waterfowl in China, but was distant from the viruses isolated in chickens and vaccine strains used in South Korea. Pathogenicity experiment in chickens revealed it to be a lentogenic virus. The deduced amino acid sequence of the cleavage site of the fusion (F) protein confirmed that the isolate contained the avirulent motif (112)GKQGRL(117) at the cleavage site and caused no apparent disease in chickens and ducks. With phylogeographic analysis based on fusion gene, we estimate the origin of an ancestral virus of the isolate and its sister strain located in China around 1998. It highlights the need of continuous surveillance to enhance current understanding of the molecular epidemiology and evolution of the pathogenic strains.
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Affiliation(s)
- Satish Gaikwad
- OIE reference laboratory for Newcastle disease, Avian Diseases Division, Animal and Plant Quarantine Agency, Anyang, Gyeonggi 430-757, Republic of Korea
| | - Ji-Ye Kim
- OIE reference laboratory for Newcastle disease, Avian Diseases Division, Animal and Plant Quarantine Agency, Anyang, Gyeonggi 430-757, Republic of Korea
| | - Hyun-Jeong Lee
- OIE reference laboratory for Newcastle disease, Avian Diseases Division, Animal and Plant Quarantine Agency, Anyang, Gyeonggi 430-757, Republic of Korea
| | - Suk Chan Jung
- OIE reference laboratory for Newcastle disease, Avian Diseases Division, Animal and Plant Quarantine Agency, Anyang, Gyeonggi 430-757, Republic of Korea
| | - Kang-Seuk Choi
- OIE reference laboratory for Newcastle disease, Avian Diseases Division, Animal and Plant Quarantine Agency, Anyang, Gyeonggi 430-757, Republic of Korea.
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