1
|
Godoy M, de Oca MM, Caro D, Pontigo JP, Kibenge M, Kibenge F. Evolution and Current Status of Influenza A Virus in Chile: A Review. Pathogens 2023; 12:1252. [PMID: 37887768 PMCID: PMC10610240 DOI: 10.3390/pathogens12101252] [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: 09/16/2023] [Revised: 10/10/2023] [Accepted: 10/13/2023] [Indexed: 10/28/2023] Open
Abstract
The influenza A virus (IAV) poses a significant global threat to public health and food security. Particularly concerning is the avian influenza virus (AIV) subtype H5N1, which has spread from Europe to North and Central/South America. This review presents recent developments in IAV evolution in birds, mammals, and humans in Chile. Chile's encounter with IAV began in 2002, with the highly pathogenic avian influenza (HPAI) H7N3 virus, derived from a unique South American low pathogenic avian influenza (LPAI) virus. In 2016-2017, LPAI H7N6 caused outbreaks in turkey, linked to wild birds in Chile and Bolivia. The pandemic influenza A (H1N1) 2009 (H1N1pdm09) virus in 2009 decreased egg production in turkeys. Since 2012, diverse IAV subtypes have emerged in backyard poultry and pigs. Reassortant AIVs, incorporating genes from both North and South American isolates, have been found in wild birds since 2007. Notably, from December 2022, HPAI H5N1 was detected in wild birds, sea lions, and a human, along Chile's north coast. It was introduced through Atlantic migratory flyways from North America. These findings emphasize the need for enhanced biosecurity on poultry farms and ongoing genomic surveillance to understand and manage AIVs in both wild and domestic bird populations in Chile.
Collapse
Affiliation(s)
- Marcos Godoy
- Centro de Investigaciones Biológicas Aplicadas (CIBA), Puerto Montt 5480000, Chile; (M.M.d.O.); (D.C.)
- Laboratorio de Biotecnología Aplicada, Facultad de Ciencias de la Naturaleza, Escuela de Medicina Veterinaria, Sede de la Patagonia, Universidad San Sebastián, Puerto Montt 5480000, Chile;
| | - Marco Montes de Oca
- Centro de Investigaciones Biológicas Aplicadas (CIBA), Puerto Montt 5480000, Chile; (M.M.d.O.); (D.C.)
| | - Diego Caro
- Centro de Investigaciones Biológicas Aplicadas (CIBA), Puerto Montt 5480000, Chile; (M.M.d.O.); (D.C.)
| | - Juan Pablo Pontigo
- Laboratorio de Biotecnología Aplicada, Facultad de Ciencias de la Naturaleza, Escuela de Medicina Veterinaria, Sede de la Patagonia, Universidad San Sebastián, Puerto Montt 5480000, Chile;
| | - Molly Kibenge
- Department of Pathology and Microbiology, Atlantic Veterinary College, University of Prince Edward Island, 550 University Ave, Charlottetown, PE C1A 4P3, Canada;
| | - Frederick Kibenge
- Department of Pathology and Microbiology, Atlantic Veterinary College, University of Prince Edward Island, 550 University Ave, Charlottetown, PE C1A 4P3, Canada;
| |
Collapse
|
2
|
Pardo-Roa C, Nelson MI, Ariyama N, Aguayo C, Almonacid LI, Munoz G, Navarro C, Avila C, Ulloa M, Reyes R, Luppichini EF, Mathieu C, Vergara R, González Á, González CG, Araya H, Fernández J, Fasce R, Johow M, Medina RA, Neira V. Cross-species transmission and PB2 mammalian adaptations of highly pathogenic avian influenza A/H5N1 viruses in Chile. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2023:2023.06.30.547205. [PMID: 37786724 PMCID: PMC10541606 DOI: 10.1101/2023.06.30.547205] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/04/2023]
Abstract
H5N1 highly pathogenic avian influenza viruses (HPAIV) emerged in wild birds in Chile in December 2022 and spilled over into poultry, marine mammals, and one human. Between December 9, 2022 - March 14, 2023, a coordinated government/academic response detected HPAIV by real-time RT-PCR in 8.5% (412/4735) of samples from 23 avian and 3 mammal orders. Whole-genome sequences obtained from 77 birds and 8 marine mammals revealed that all Chilean H5N1 viruses belong to lineage 2.3.4.4b and cluster monophyletically with viruses from Peru, indicating a single introduction from North America into Peru/Chile. Mammalian adaptations were identified in the PB2 segment: D701N in two sea lions, one human, and one shorebird, and Q591K in the human and one sea lion. Minor variant analysis revealed that D701N was present in 52.9 - 70.9% of sequence reads, indicating the presence of both genotypes within hosts. Further surveillance of spillover events is warranted to assess the emergence and potential onward transmission of mammalian adapted H5N1 HPAIV in South America.
Collapse
Affiliation(s)
- Catalina Pardo-Roa
- Department of Child and Adolescent Health, School of Nursing, Pontificia Universidad Católica de Chile, Santiago, Chile
- Department of Pediatric Infectious Diseases and Immunology, School of Medicine, Pontificia Universidad Católica de Chile, Santiago, Chile
| | - Martha I Nelson
- National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, Maryland 20892, USA
| | - Naomi Ariyama
- Departamento de Medicina Preventiva Animal, Facultad de Ciencias Veterinarias y Pecuarias, Universidad de Chile. 11735 Santa Rosa, La Pintana, Santiago, Chile
| | | | - Leonardo I Almonacid
- Molecular Bioinformatics Laboratory, Department of Molecular Genetics and Microbiology, Faculty of Biological Sciences, Pontificia Universidad Católica de Chile, Santiago, Chile
- Institute for Biological and Medical Engineering, Schools of Engineering, Medicine and Biological Sciences, Pontificia Universidad Católica de Chile, Santiago, Chile
| | | | - Carlos Navarro
- Servicio Nacional de Pesca y Acuicultura, SERNAPESCA, Chile
| | | | - Mauricio Ulloa
- Servicio Nacional de Pesca y Acuicultura, SERNAPESCA, Chile
- Veterinary Histology and Pathology, Institute of Animal Health and Food Safety, Veterinary School, University of Las Palmas de Gran Canaria, Las Palmas de Gran Canaria, Spain
| | - Rodolfo Reyes
- Veterinary Histology and Pathology, Institute of Animal Health and Food Safety, Veterinary School, University of Las Palmas de Gran Canaria, Las Palmas de Gran Canaria, Spain
| | - Eugenia Fuentes Luppichini
- Department of Pediatric Infectious Diseases and Immunology, School of Medicine, Pontificia Universidad Católica de Chile, Santiago, Chile
| | | | | | | | | | - Hugo Araya
- Servicio Agrícola y Ganadero, SAG, Chile
| | - Jorge Fernández
- Instituto de Salud Pública, ISP, Ministerio de Salud, Santiago, Chile
| | - Rodrigo Fasce
- Instituto de Salud Pública, ISP, Ministerio de Salud, Santiago, Chile
| | | | - Rafael A Medina
- Department of Pediatric Infectious Diseases and Immunology, School of Medicine, Pontificia Universidad Católica de Chile, Santiago, Chile
- Department of Pathology and Laboratory Medicine, School of Medicine, Emory Vaccine Center, Emory University, Atlanta, USA
- Department of Microbiology, Icahn School of Medicine at Mount Sinai, New York, USA
| | - Victor Neira
- Departamento de Medicina Preventiva Animal, Facultad de Ciencias Veterinarias y Pecuarias, Universidad de Chile. 11735 Santa Rosa, La Pintana, Santiago, Chile
| |
Collapse
|
3
|
Baumberger C, Di Pillo F, Galdames P, Oyarzun C, Marambio V, Jimenez-Bluhm P, Hamilton-West C. Swine Backyard Production Systems in Central Chile: Characterizing Farm Structure, Animal Management, and Production Value Chain. Animals (Basel) 2023; 13:2000. [PMID: 37370510 DOI: 10.3390/ani13122000] [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: 04/11/2023] [Revised: 06/07/2023] [Accepted: 06/09/2023] [Indexed: 06/29/2023] Open
Abstract
Backyard production systems (BPS) are highly distributed in central Chile. While poultry BPS have been extensively characterized, there remains a notable gap in the characterization of swine BPS in central Chile. In addition, there is evidence that zoonotic pathogens, such as influenza A virus and Salmonella spp., are circulating in backyard poultry and pigs. A total of 358 BPS located in central Chile were evaluated between 2013 and 2015 by interviewing farm owners. Severe deficiencies in biosecurity measures were observed. The value chain of swine backyard production identified food, veterinary care (visits and products), and replacement or breeding animals as the primary inputs to the backyard. The most common origin of swine replacements was from outside the BPS (63%). The main outputs of the system were identified as meat and live animals, including piglets and breeding animals. In 16% of BPS, breeding animals were lent to other BPS, indicating the existence of animals and animal product movement in and out of backyard farms. Results from this study indicate that swine BPS in central Chile represents an animal-human interface that demands special attention for implementing targeted preventive measures to prevent the introduction and spread of animal pathogens and the emergence of zoonotic pathogens.
Collapse
Affiliation(s)
- Cecilia Baumberger
- Departamento de Medicina Preventiva, Facultad de Ciencias Veterinarias y Pecuarias, Universidad de Chile, Santa Rosa 11315, Santiago 8820808, Chile
- Programa de Doctorado en Ciencias Silvoagropecuarias y Veterinarias, Campus Sur Universidad de Chile, Santa Rosa 11315, Santiago 8820808, Chile
| | - Francisca Di Pillo
- Núcleo de Investigaciones Aplicadas en Ciencias Veterinarias y Agronómicas, Facultad de Medicina Veterinaria y Agronomía, Universidad de Las Américas, Sede Providencia, Manuel Montt 948, Santiago 7500972, Chile
| | - Pablo Galdames
- Departamento de Medicina Preventiva, Facultad de Ciencias Veterinarias y Pecuarias, Universidad de Chile, Santa Rosa 11315, Santiago 8820808, Chile
| | - Cristobal Oyarzun
- Departamento de Medicina Preventiva, Facultad de Ciencias Veterinarias y Pecuarias, Universidad de Chile, Santa Rosa 11315, Santiago 8820808, Chile
| | - Victor Marambio
- Departamento de Medicina Preventiva, Facultad de Ciencias Veterinarias y Pecuarias, Universidad de Chile, Santa Rosa 11315, Santiago 8820808, Chile
- Programa de Doctorado en Ciencias Silvoagropecuarias y Veterinarias, Campus Sur Universidad de Chile, Santa Rosa 11315, Santiago 8820808, Chile
| | - Pedro Jimenez-Bluhm
- Escuela de Medicina Veterinaria, Facultad de Ciencias Biológicas, Facultad de Medicina y Facultad de Agronomía e Ingeniería Forestal, Pontificia Universidad Católica de Chile, Vicuña Mackenna 4860, Santiago 7820436, Chile
| | - Christopher Hamilton-West
- Departamento de Medicina Preventiva, Facultad de Ciencias Veterinarias y Pecuarias, Universidad de Chile, Santa Rosa 11315, Santiago 8820808, Chile
| |
Collapse
|
4
|
Ruiz S, Galdames P, Baumberger C, Gonzalez MA, Rojas C, Oyarzun C, Orozco K, Mattar C, Freiden P, Sharp B, Schultz-Cherry S, Hamilton-West C, Jimenez-Bluhm P. Remote Sensing and Ecological Variables Related to Influenza A Prevalence and Subtype Diversity in Wild Birds in the Lluta Wetland of Northern Chile. Viruses 2023; 15:1241. [PMID: 37376541 DOI: 10.3390/v15061241] [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: 05/03/2023] [Revised: 05/19/2023] [Accepted: 05/23/2023] [Indexed: 06/29/2023] Open
Abstract
The Lluta River is the northernmost coastal wetland in Chile, representing a unique ecosystem and an important source of water in the extremely arid Atacama Desert. During peak season, the wetland is home to more than 150 species of wild birds and is the first stopover point for many migratory species that arrive in the country along the Pacific migratory route, thereby representing a priority site for avian influenza virus (AIV) surveillance in Chile. The aim of this study was to determine the prevalence of influenza A virus (IAV) in the Lluta River wetland, identify subtype diversity, and evaluate ecological and environmental factors that drive the prevalence at the study site. The wetland was studied and sampled from September 2015 to October 2020. In each visit, fresh fecal samples of wild birds were collected for IAV detection by real-time RT-PCR. Furthermore, a count of wild birds present at the site was performed and environmental variables, such as temperature, rainfall, vegetation coverage (Normalized Difference Vegetation Index-NDVI), and water body size were determined. A generalized linear mixed model (GLMM) was built to assess the association between AIV prevalence and explanatory variables. Influenza positive samples were sequenced, and the host species was determined by barcoding. Of the 4349 samples screened during the study period, overall prevalence in the wetland was 2.07% (95% CI: 1.68 to 2.55) and monthly prevalence of AIV ranged widely from 0% to 8.6%. Several hemagglutinin (HA) and neuraminidase (NA) subtypes were identified, and 10 viruses were isolated and sequenced, including low pathogenic H5, H7, and H9 strains. In addition, several reservoir species were recognized (both migratory and resident birds), including the newly identified host Chilean flamingo (Phoenicopterus chilensis). Regarding environmental variables, prevalence of AIV was positively associated with NDVI (OR = 3.65, p < 0.05) and with the abundance of migratory birds (OR = 3.57, p < 0.05). These results emphasize the importance of the Lluta wetland as a gateway to Chile for viruses that come from the Northern Hemisphere and contribute to the understanding of AIV ecological drivers.
Collapse
Affiliation(s)
- Soledad Ruiz
- Escuela de Medicina Veterinaria, Facultad de Ciencias Biológicas, Facultad de Medicina, Facultad de Agronomía e Ingeniería Forestal, Pontificia Universidad Católica de Chile, Santiago 7820436, Chile
- Departamento de Medicina Preventiva Animal, Facultad de Ciencias Veterinarias y Pecuarias, Universidad de Chile, Santiago 8330111, Chile
| | - Pablo Galdames
- Departamento de Medicina Preventiva Animal, Facultad de Ciencias Veterinarias y Pecuarias, Universidad de Chile, Santiago 8330111, Chile
| | - Cecilia Baumberger
- Departamento de Medicina Preventiva Animal, Facultad de Ciencias Veterinarias y Pecuarias, Universidad de Chile, Santiago 8330111, Chile
| | - Maria Antonieta Gonzalez
- Departamento de Medicina Preventiva Animal, Facultad de Ciencias Veterinarias y Pecuarias, Universidad de Chile, Santiago 8330111, Chile
| | - Camila Rojas
- Departamento de Medicina Preventiva Animal, Facultad de Ciencias Veterinarias y Pecuarias, Universidad de Chile, Santiago 8330111, Chile
| | - Cristobal Oyarzun
- Departamento de Medicina Preventiva Animal, Facultad de Ciencias Veterinarias y Pecuarias, Universidad de Chile, Santiago 8330111, Chile
| | - Katherinne Orozco
- Departamento de Medicina Preventiva Animal, Facultad de Ciencias Veterinarias y Pecuarias, Universidad de Chile, Santiago 8330111, Chile
| | - Cristian Mattar
- Laboratory for Analysis of the Biosphere (LAB), Universidad de Chile, Santiago 8330111, Chile
| | - Pamela Freiden
- Department of Infectious Diseases, St. Jude Children's Research Hospital, Memphis, TN 38105, USA
| | - Bridgette Sharp
- Department of Infectious Diseases, St. Jude Children's Research Hospital, Memphis, TN 38105, USA
| | - Stacey Schultz-Cherry
- Department of Infectious Diseases, St. Jude Children's Research Hospital, Memphis, TN 38105, USA
| | - Christopher Hamilton-West
- Departamento de Medicina Preventiva Animal, Facultad de Ciencias Veterinarias y Pecuarias, Universidad de Chile, Santiago 8330111, Chile
| | - Pedro Jimenez-Bluhm
- Escuela de Medicina Veterinaria, Facultad de Ciencias Biológicas, Facultad de Medicina, Facultad de Agronomía e Ingeniería Forestal, Pontificia Universidad Católica de Chile, Santiago 7820436, Chile
| |
Collapse
|
5
|
Müller-Theissen ML, Azziz-Baumgartner E, Ortiz L, Szablewski CM, Alvarez D, Gonzalez-Reiche AS, Jara J, Davis CT, Cordon-Rosales C. Influenza A virus circulation in backyard animals in the Pacific coast of Guatemala, 2013-2014. Zoonoses Public Health 2022; 69:826-834. [PMID: 35611690 DOI: 10.1111/zph.12972] [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: 05/28/2021] [Revised: 03/18/2022] [Accepted: 04/30/2022] [Indexed: 11/30/2022]
Abstract
Due to their documented epidemiological relevance as hosts for influenza A viruses (IAV), humans, poultry and pigs in backyard production systems (BPS) within wetlands could be key to the emergence of novel IAV variants able to transmit between humans or animals. To better understand the circulation of IAV at the human-animal interface of BPS within wetlands, we studied IAV in backyard duck flocks and pig herds in the Pacific Coast of Guatemala. From April 2013 to October 2014, we estimated the monthly IAV per cent seropositive and viral positive flocks and herds in two resource-limited communities. We detected antibodies in sera against the IAV nucleoprotein through ELISA. We also detected IAV viral RNA in respiratory (ducks and pigs) and cloacal (ducks) swabs through rRT-PCR directed at the matrix gene. We attempted viral isolation in eggs or MDCK cells followed by sequencing from swabs positive for IAV. During our study period, IAV seropositivity in duck flocks was 38%, and viral positivity was 23% (n = 86 BPS sampled). IAV seropositivity in pig herds was 42%, and viral positivity was 20% (n = 90 BPS sampled). Both flocks and herds had detectable antibodies against IAV mostly year-round, and IAV was detected in several months. We isolated an H3N2 virus from one pig sampled at the end of 2013. Standard nucleotide BLAST searches indicate that the isolated virus was similar to seasonal viruses circulating in humans, suggesting human-to-pig transmission. Our data show concurrent circulation of IAV in multiple species of poultry and pigs that were commingled in rudimentary conditions in proximity to humans, but no significant risk factors could be identified.
Collapse
Affiliation(s)
| | - Eduardo Azziz-Baumgartner
- Influenza Division, National Center for Immunization and Respiratory Diseases, Centers for Disease Control and Prevention, Atlanta, Georgia, USA
| | - Lucia Ortiz
- Centro de Estudios en Salud, Universidad del Valle de Guatemala, Guatemala, Guatemala
| | - Christine M Szablewski
- Influenza Division, National Center for Immunization and Respiratory Diseases, Centers for Disease Control and Prevention, Atlanta, Georgia, USA
| | - Danilo Alvarez
- Centro de Estudios en Salud, Universidad del Valle de Guatemala, Guatemala, Guatemala
| | - Ana S Gonzalez-Reiche
- Centro de Estudios en Salud, Universidad del Valle de Guatemala, Guatemala, Guatemala
| | - Jorge Jara
- Centro de Estudios en Salud, Universidad del Valle de Guatemala, Guatemala, Guatemala
| | - C Todd Davis
- Influenza Division, National Center for Immunization and Respiratory Diseases, Centers for Disease Control and Prevention, Atlanta, Georgia, USA
| | - Celia Cordon-Rosales
- Centro de Estudios en Salud, Universidad del Valle de Guatemala, Guatemala, Guatemala
| |
Collapse
|
6
|
Novel Low Pathogenic Avian Influenza H6N1 in Backyard Chicken in Easter Island (Rapa Nui), Chilean Polynesia. Viruses 2022; 14:v14040718. [PMID: 35458448 PMCID: PMC9031230 DOI: 10.3390/v14040718] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2022] [Revised: 03/18/2022] [Accepted: 03/25/2022] [Indexed: 01/08/2023] Open
Abstract
Little is known about the prevalence of avian influenza viruses (AIV) in wildlife and domestic animals in Polynesia. Here, we present the results of active AIV surveillance performed during two sampling seasons in 2019 on Easter Island (Rapa Nui). Tracheal and cloacal swabs as well as sera samples were obtained from domestic backyard poultry, while fresh faeces were collected from wild birds. In addition to detecting antibodies against AIV in 46% of the domestic chickens in backyard production systems tested, we isolated a novel low pathogenic H6N1 virus from a chicken. Phylogenetic analysis of all genetic segments revealed that the virus was closely related to AIV’s circulating in South America. Our analysis showed different geographical origins of the genetic segments, with the PA, HA, NA, NP, and MP gene segments coming from central Chile and the PB2, PB1, and NS being closely related to viruses isolated in Argentina. While the route of introduction can only be speculated, our analysis shows the persistence and independent evolution of this strain in the island since its putative introduction between 2015 and 2016. The results of this research are the first evidence of AIV circulation in domestic birds on a Polynesian island and increase our understanding of AIV ecology in region, warranting further surveillance on Rapa Nui and beyond.
Collapse
|
7
|
Chauhan RP, Gordon ML. A systematic review of influenza A virus prevalence and transmission dynamics in backyard swine populations globally. Porcine Health Manag 2022; 8:10. [PMID: 35287744 PMCID: PMC8919175 DOI: 10.1186/s40813-022-00251-4] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/08/2021] [Accepted: 02/25/2022] [Indexed: 01/01/2023] Open
Abstract
Background Backyard swine farming is critical to generating subsistence and food security in rural and peri-urban households in several developing countries. The objective of this systematic review was to analyze the molecular and serological prevalence of influenza A virus (IAV) in backyard swine populations globally. Results We identified 34 full-text research articles in NCBI-PubMed and Google Scholar databases that have reported IAV sero- and/or virological prevalence in backyard swine up to 11 July 2021. The highest number of studies were reported from Asia (n = 11) followed by North America (n = 10), South America (n = 6), Africa (n = 6), and Europe (n = 1). While the maximum number of studies (44.12%) reported human-to-swine transmission of IAV, swine-to-human (5.88%), poultry-to-swine (5.88%), and wild birds-to-swine (2.94%) transmissions were also reported. An overall higher IAV seroprevalence (18.28%) in backyard swine was detected compared to the virological prevalence (1.32%). The human-origin pandemic A(H1N1)pdm09 virus clade 1A.3.3.2 was the more frequently detected IAV subtype in virological studies (27.27%) than serological studies (18.92%). In addition, the avian-origin highly pathogenic H5N1 and H5N8 viruses were also detected, which further substantiated the evidence of avian–swine interactions in the backyards. Conclusion Human–swine and avian–swine interactions in backyards may transmit IAV between species. Monitoring the circulation and evolution of IAV in backyard swine would help stakeholders make informed decisions to ensure sustainable backyard swine farming and public safety.
Collapse
|
8
|
Dolinski AC, Homola JJ, Jankowski MD, Robinson JD, Owen JC. Differential gene expression reveals host factors for viral shedding variation in mallards ( Anas platyrhynchos) infected with low-pathogenic avian influenza virus. J Gen Virol 2022; 103:10.1099/jgv.0.001724. [PMID: 35353676 PMCID: PMC10519146 DOI: 10.1099/jgv.0.001724] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022] Open
Abstract
Intraspecific variation in pathogen shedding impacts disease transmission dynamics; therefore, understanding the host factors associated with individual variation in pathogen shedding is key to controlling and preventing outbreaks. In this study, ileum and bursa of Fabricius tissues of wild-bred mallards (Anas platyrhynchos) infected with low-pathogenic avian influenza (LPAIV) were evaluated at various post-infection time points to determine genetic host factors associated with intraspecific variation in viral shedding. By analysing transcriptome sequencing data (RNA-seq), we found that LPAIV-infected wild-bred mallards do not exhibit differential gene expression compared to uninfected birds, but that gene expression was associated with cloacal viral shedding quantity early in the infection. In both tissues, immune gene expression was higher in high/moderate shedding birds compared to low shedding birds, and significant positive relationships with viral shedding were observed. In the ileum, expression for host genes involved in viral cell entry was lower in low shedders compared to moderate shedders at 1 day post-infection (DPI), and expression for host genes promoting viral replication was higher in high shedders compared to low shedders at 2 DPI. Our findings indicate that viral shedding is a key factor for gene expression differences in LPAIV-infected wild-bred mallards, and the genes identified in this study could be important for understanding the molecular mechanisms driving intraspecific variation in pathogen shedding.
Collapse
Affiliation(s)
- Amanda C. Dolinski
- Department of Fisheries and Wildlife, Michigan State
University, East Lansing, MI
| | - Jared J. Homola
- Department of Fisheries and Wildlife, Michigan State
University, East Lansing, MI
| | - Mark D. Jankowski
- Department of Fisheries and Wildlife, Michigan State
University, East Lansing, MI
- U.S. Environmental Protection Agency, Region 10, Seattle,
WA 98101
| | - John D. Robinson
- Department of Fisheries and Wildlife, Michigan State
University, East Lansing, MI
| | - Jennifer C. Owen
- Department of Fisheries and Wildlife, Michigan State
University, East Lansing, MI
- Department of Large Animal Clinical Sciences, Michigan
State University, East Lansing, MI, USA
| |
Collapse
|
9
|
Pavez-Muñoz E, Fernández-Sanhueza B, Urzúa-Encina C, Galarce N, Alegría-Morán R. Risk Factors for Positivity to Shiga Toxin-Producing Escherichia coli and Salmonella enterica in Backyard Production Systems Animals from Metropolitana Region, Chile: A Threat to Public Health? INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH 2021; 18:ijerph182010730. [PMID: 34682504 PMCID: PMC8535594 DOI: 10.3390/ijerph182010730] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Received: 09/01/2021] [Revised: 10/11/2021] [Accepted: 10/11/2021] [Indexed: 12/29/2022]
Abstract
In the Metropolitana region of Chile there are 3836 backyard production systems (BPS), characterized as small-scale systems. They act as a source of zoonotic pathogens, such as Salmonella enterica and Shiga toxin-producing Escherichia coli (STEC), whose prevalence in BPS has not been fully described. The objective of this study was to determine the positivity for both agents in BPS and to establish the risk factors related to their presence. In each BPS, an epidemiological survey was undertaken, and stool samples were collected to detect these pathogens via bacteriological culture and conventional PCR techniques. Subsequently, multivariable logistic regression models were applied to establish the risk factors associated with their presence. BPS positivity rates of 11.76% for STEC and 4.7% for S. enterica were observed. The systems showed poor welfare standards and a lack of biosecurity measures. The risk factor analysis concluded that the Gini–Simpson index (p = 0.030; OR = 1.717) and the presence of neighboring intensive poultry or swine production systems (p = 0.019; OR = 20.645) act as factors that increased the risk of positivity with respect to STEC. In the case of S. enterica, exchanging embryonated eggs (p = 0.021; OR = 39) and the presence of debeaked chickens (p = 0.001; OR = 156) were determined as factors that increased the risk of positivity for this agent. For positivity with respect to both pathogens, the Gini–Simpson index (p = 0.030; OR = 1.544) and being INDAP/PRODESAL users (p = 0.023; OR = 15.026) were determined as factors that increased the risk, whereas the type of confinement (p = 0.002; OR = 0.019) decreased it. Epidemiological surveillance of these neglected populations is lacking, highlighting the fact that STEC and S. enterica maintenance on BPS represents a potential threat to public health.
Collapse
Affiliation(s)
- Erika Pavez-Muñoz
- Departamento de Medicina Preventiva Animal, Facultad de Ciencias Veterinarias y Pecuarias, Universidad de Chile, Santiago 8820808, Chile; (E.P.-M.); (B.F.-S.); (C.U.-E.); (N.G.)
- Central Veterinary Research Laboratory, Facultad de Ciencias Veterinarias y Pecuarias, Universidad de Chile, Santiago 8820808, Chile
| | - Bastián Fernández-Sanhueza
- Departamento de Medicina Preventiva Animal, Facultad de Ciencias Veterinarias y Pecuarias, Universidad de Chile, Santiago 8820808, Chile; (E.P.-M.); (B.F.-S.); (C.U.-E.); (N.G.)
- Central Veterinary Research Laboratory, Facultad de Ciencias Veterinarias y Pecuarias, Universidad de Chile, Santiago 8820808, Chile
| | - Constanza Urzúa-Encina
- Departamento de Medicina Preventiva Animal, Facultad de Ciencias Veterinarias y Pecuarias, Universidad de Chile, Santiago 8820808, Chile; (E.P.-M.); (B.F.-S.); (C.U.-E.); (N.G.)
- Central Veterinary Research Laboratory, Facultad de Ciencias Veterinarias y Pecuarias, Universidad de Chile, Santiago 8820808, Chile
| | - Nicolás Galarce
- Departamento de Medicina Preventiva Animal, Facultad de Ciencias Veterinarias y Pecuarias, Universidad de Chile, Santiago 8820808, Chile; (E.P.-M.); (B.F.-S.); (C.U.-E.); (N.G.)
| | - Raúl Alegría-Morán
- Central Veterinary Research Laboratory, Facultad de Ciencias Veterinarias y Pecuarias, Universidad de Chile, Santiago 8820808, Chile
- Facultad de Ciencias Agropecuarias y Ambientales, Universidad del Alba, Santiago 8370007, Chile
- Correspondence: or ; Tel.: +56-9-98223891
| |
Collapse
|
10
|
Mateus-Anzola J, Gaytan-Cruz L, Montoya-Carrillo C, Ivan Sánchez-Betancourt J, Zarza H, Segura-Velázquez R, Ojeda-Flores R. Molecular identification and phylogenetic characterization of influenza A virus at a wildlife-livestock interface in Mexico. Transbound Emerg Dis 2020; 68:3563-3573. [PMID: 33350099 DOI: 10.1111/tbed.13962] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2020] [Revised: 12/14/2020] [Accepted: 12/16/2020] [Indexed: 12/22/2022]
Abstract
Influenza A virus (IAV) outbreaks constitute a constant threat to public health and pose a remarkable impact on socio-economic systems worldwide. Interactions between wild and domestic birds, humans and swine can lead to spillover events. Backyard livestock systems in proximity to wetlands represent high-risk areas for viral spread. However, some gaps remain in our knowledge of IAV transmission at the wildlife-livestock interface in Mexico. Hence, the study aimed at molecular identification and phylogenetic characterization of IAV in the wild duck-backyard livestock interface at a wetland of Mexico. A total of 875 animals were tested by real-time RT-PCR (qRT-PCR). We detected IAV in 3.68% of the wild ducks sampled during the winter season 2016-2017. Nonetheless, the samples obtained from backyard poultry and swine tested negative. The highest IAV frequency (11.10%) was found in the Mexican duck (Anas diazi). Subtypes H1N1, H3N2 and H5N2 were detected. Phylogenetic analyses revealed that IAV detected in wild birds from the Lerma wetlands was mostly related to swine and poultry IAV strains previously isolated in the United States and Mexico. Except, the UIFMVZ377/H5N2 related to North American waterbirds. In conclusion, the co-circulation of three IAV subtypes in wild ducks close to backyard farms in Mexico, as well as the local identification of influenza viruses genetically related to Mexican and North American IAV strains, highlights the importance of the Lerma marshes for influenza surveillance given the close interaction among wild birds, poultry, pigs and humans.
Collapse
Affiliation(s)
- Jessica Mateus-Anzola
- Departamento de Etología, Fauna Silvestre y Animales de Laboratorio, Facultad de Medicina Veterinaria y Zootecnia, Universidad Nacional Autónoma de México, Ciudad de México, México
| | - Liliana Gaytan-Cruz
- Departamento de Etología, Fauna Silvestre y Animales de Laboratorio, Facultad de Medicina Veterinaria y Zootecnia, Universidad Nacional Autónoma de México, Ciudad de México, México
| | - Cecilia Montoya-Carrillo
- Departamento de Etología, Fauna Silvestre y Animales de Laboratorio, Facultad de Medicina Veterinaria y Zootecnia, Universidad Nacional Autónoma de México, Ciudad de México, México
| | - José Ivan Sánchez-Betancourt
- Departamento de Medicina y Zootecnia de Cerdos, Facultad de Medicina Veterinaria y Zootecnia, Universidad Nacional Autónoma de México, Ciudad de México, México
| | - Heliot Zarza
- Departamento de Ciencias Ambientales, CBS, Universidad Autónoma Metropolitana Unidad Lerma, México, México
| | - René Segura-Velázquez
- Facultad de Medicina Veterinaria y Zootecnia, Universidad Nacional Autónoma de México, Unidad de Investigación, Ciudad de México, México
| | - Rafael Ojeda-Flores
- Departamento de Etología, Fauna Silvestre y Animales de Laboratorio, Facultad de Medicina Veterinaria y Zootecnia, Universidad Nacional Autónoma de México, Ciudad de México, México
| |
Collapse
|
11
|
Moriguchi S, Hosoda R, Ushine N, Kato T, Hayama SI. Surveillance system for avian influenza in wild birds and implications of its improvement with insights into the highly pathogenic avian influenza outbreaks in Japan. Prev Vet Med 2020; 187:105234. [PMID: 33360671 DOI: 10.1016/j.prevetmed.2020.105234] [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: 05/11/2020] [Revised: 11/03/2020] [Accepted: 12/09/2020] [Indexed: 12/09/2022]
Abstract
Since the re-emergence of a highly pathogenic avian influenza (HPAI) in 2004, outbreaks of the viral subtypes HPAI, H5N1, H5N8, and H5N6 in wild birds, poultry, and zoo birds have occurred in Japan. In 2008, a nation-wide avian influenza (AI) surveillance program was started for the early detection of the HPAI virus (HPAIV) and for the assessment of HPAIV infection among wild birds. In this study, we aimed to conduct an overview of the AI surveillance system of wild birds in Japan, including those in the regions and prefectures, to assess its overall performance and develop insights on its improvement. We analyzed past surveillance data in Japan and conducted questionnaire surveys for the officers in 11 regional branches of the Ministry of Environment and the nature conservation divisions of 47 prefectures to acquire details regarding those AI surveillance. We found that the early detection of HPAIV in wild birds was successfully achieved in only one of the five outbreak seasons during the 2008-2019 period in Japan, and the assessment of HPAIV infection had possibly not been adequate in the national surveillance system. In the winter season, AI surveillance in most prefectures were mainly conducted by means of passive surveillance through reported dead birds and active surveillance through collected waterbird feces. Conversely, less than half of the prefectures conducted bird monitoring, patrolling in migratory bird habitats, and AI antigen testing in rescued birds. In areas surrounding HPAI occurrence sites (<10 km), bird monitoring and patrolling efforts were enhanced. However, AI testing efforts in waterbird feces and rescued birds were decreased. The AI surveillance for endangered bird species and in national wildlife protection areas was conducted by the branches of the Ministry of Environment and by the prefectures. Based on our results, we concluded that for maximum efficiency, legislation which specialized in wildlife pathogens should be necessary to prepare adequate national budget and testing capacity for appropriate surveillance system with periodical assessment for surveillance results and the system.
Collapse
Affiliation(s)
- Sachiko Moriguchi
- Laboratory of Wildlife Medicine, School of Veterinary Medicine, Nippon Veterinary and Life Science University, Tokyo, Japan.
| | - Rin Hosoda
- Laboratory of Wildlife Medicine, School of Veterinary Medicine, Nippon Veterinary and Life Science University, Tokyo, Japan
| | - Nana Ushine
- Laboratory of Wildlife Medicine, School of Veterinary Medicine, Nippon Veterinary and Life Science University, Tokyo, Japan
| | - Takuya Kato
- Laboratory of Wildlife Medicine, School of Veterinary Medicine, Nippon Veterinary and Life Science University, Tokyo, Japan
| | - Shin-Ichi Hayama
- Laboratory of Wildlife Medicine, School of Veterinary Medicine, Nippon Veterinary and Life Science University, Tokyo, Japan
| |
Collapse
|
12
|
Ruiz S, Jimenez-Bluhm P, Di Pillo F, Baumberger C, Galdames P, Marambio V, Salazar C, Mattar C, Sanhueza J, Schultz-Cherry S, Hamilton-West C. Temporal dynamics and the influence of environmental variables on the prevalence of avian influenza virus in main wetlands in central Chile. Transbound Emerg Dis 2020; 68:1601-1614. [PMID: 32931631 DOI: 10.1111/tbed.13831] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/26/2020] [Revised: 08/04/2020] [Accepted: 09/06/2020] [Indexed: 11/28/2022]
Abstract
Although wild birds are considered the main reservoir of the influenza A virus (IAV) in nature, empirical investigations exploring the interaction between the IAV prevalence in these populations and environmental drivers remain scarce. Chile has a coastline of more than 4000 kilometres with hundreds of wetlands, which are important habitats for both resident and inter-hemispheric migratory species. The aim of this study was to characterize the temporal dynamics of IAV in main wetlands in central Chile and to assess the influence of environmental variables on AIV prevalence. For that purpose, four wetlands were studied from September 2015 to June 2018. Fresh faecal samples of wild birds were collected for IAV detection by real-time RT-PCR. Furthermore, a count of wild birds present at the site was performed and environmental variables, such as temperature, rainfall, vegetation coverage (Normalized Difference Vegetation Index (NDVI)) and water body size, were determined. A generalized linear mixed model was built to assess the association between IAV prevalence and explanatory variables. An overall prevalence of 4.28% ± 0.28% was detected with important fluctuations among seasons, being greater during summer (OR = 4.87, 95% CI 2.11 to 11.21) and fall (OR = 2.59, 95% CI 1.12 to 5.97). Prevalence was positively associated with minimum temperature for the month of sampling and negatively associated with water body size measured two months before sampling, and NDVI measured three months before sampling. These results contribute to the understanding of IAV ecological drivers in Chilean wetlands providing important considerations for the global surveillance of IAV.
Collapse
Affiliation(s)
- Soledad Ruiz
- Department of Preventive Veterinary Medicine, Faculty of Veterinary Science, Universidad de Chile, Santiago, Chile.,Programa de Doctorado en Ciencias Silvoagropecuarias y Veterinarias, Campus Sur Universidad de Chile, Santiago, Chile.,Núcleo de Investigaciones Aplicadas en Ciencias Veterinarias y Agronómicas, Facultad de Medicina Veterinaria y Agronomía, Universidad de Las Américas, Santiago, Chile
| | - Pedro Jimenez-Bluhm
- Department of Preventive Veterinary Medicine, Faculty of Veterinary Science, Universidad de Chile, Santiago, Chile
| | - Francisca Di Pillo
- Núcleo de Investigaciones Aplicadas en Ciencias Veterinarias y Agronómicas, Facultad de Medicina Veterinaria y Agronomía, Universidad de Las Américas, Santiago, Chile
| | - Cecilia Baumberger
- Department of Preventive Veterinary Medicine, Faculty of Veterinary Science, Universidad de Chile, Santiago, Chile
| | - Pablo Galdames
- Department of Preventive Veterinary Medicine, Faculty of Veterinary Science, Universidad de Chile, Santiago, Chile
| | - Victor Marambio
- Department of Preventive Veterinary Medicine, Faculty of Veterinary Science, Universidad de Chile, Santiago, Chile
| | - Carla Salazar
- Department of Preventive Veterinary Medicine, Faculty of Veterinary Science, Universidad de Chile, Santiago, Chile
| | - Cristian Mattar
- Laboratory for Analysis of the Biosphere (LAB), University of Chile, Santiago, Chile
| | - Juan Sanhueza
- Departamento de Ciencias Veterinarias y Salud Pública, Facultad de Recursos Naturales, Universidad Católica de Temuco, Temuco, Chile
| | - Stacey Schultz-Cherry
- Department of Infectious Diseases, St Jude Children's Research Hospital, Memphis, TN, USA
| | - Christopher Hamilton-West
- Department of Preventive Veterinary Medicine, Faculty of Veterinary Science, Universidad de Chile, Santiago, Chile
| |
Collapse
|
13
|
Di Pillo F, Jimenez-Bluhm P, Baumberger C, Marambio V, Galdames P, Monti G, Schultz-Cherry S, Hamilton-West C. Movement Restriction and Increased Surveillance as Efficient Measures to Control the Spread of Highly Pathogenic Avian Influenza in Backyard Productive Systems in Central Chile. Front Vet Sci 2020; 7:424. [PMID: 32793648 PMCID: PMC7393644 DOI: 10.3389/fvets.2020.00424] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2019] [Accepted: 06/12/2020] [Indexed: 11/13/2022] Open
Abstract
During the last 5 years there has been an alarming number of reports of highly pathogenic avian influenza worldwide. However, little is known about the status of this disease in South America. Chile has been the only country in South America where an HPAI outbreak was reported. This outbreak occurred in 2002 and was due to an H7N3 HPAI, where the most plausible hypothesis that explained the entrance of the disease to the country, had relation to migratory wild birds. Commercial poultry farms in Chile are highly integrated and have high biosecurity standards. Nevertheless, poultry backyard production systems lack biosecurity measures and are widely distributed. Since 2002 outbreak, avian influenza viruses have been identified in wild birds and different animal species kept in backyard productive systems (BPS) in Chile. The aim of this study was to simulate the possible natural history of HPAI after its introduction to BPS in central Chile and to simulate different intervention strategies. To do so, the North American Animal Disease Spread Model version 3.3 was used. The results showed that a median of 15,930 BPS would be affected if HPAI spread among BPS in central Chile, representing 97.8% of the current amount of BPS existing in study zone. Movement restrictions, pre-emptive destruction, passive surveillance, tracing of infected premises and combinations of the three, where the intervention strategies tested in the simulation model. From all the interventions simulated, movement restrictions together with increasing surveillance (through increasing passive surveillance and good tracing of infected premises) had the biggest effect, reducing the median number of infected BPS in 90.8%. However, more studies are needed to more accurately estimate local contact rates. These results can guide the official veterinary services to consider potential mechanisms to control or prevent an HPAI emergency situation.
Collapse
Affiliation(s)
- Francisca Di Pillo
- Nucleo de Investigaciones Aplicadas en Ciencias Veterinarias y Agronómicas, Universidad de Las Américas, Santiago, Chile
| | - Pedro Jimenez-Bluhm
- Departamento de Medicina Preventiva, Facultad de Ciencias Veterinarias y Pecuarias, Universidad de Chile, Santiago, Chile
| | - Cecilia Baumberger
- Departamento de Medicina Preventiva, Facultad de Ciencias Veterinarias y Pecuarias, Universidad de Chile, Santiago, Chile
| | - Víctor Marambio
- Departamento de Medicina Preventiva, Facultad de Ciencias Veterinarias y Pecuarias, Universidad de Chile, Santiago, Chile
| | - Pablo Galdames
- Departamento de Medicina Preventiva, Facultad de Ciencias Veterinarias y Pecuarias, Universidad de Chile, Santiago, Chile
| | - Gustavo Monti
- Instituto de Medicina Preventiva Veterinaria, Facultad de Ciencias Veterinarias, Universidad Austral de Chile, Valdivia, Chile
| | - Stacey Schultz-Cherry
- Department of Infectious Diseases, St. Jude Children's Research Hospital, Memphis, TN, United States
| | - Christopher Hamilton-West
- Departamento de Medicina Preventiva, Facultad de Ciencias Veterinarias y Pecuarias, Universidad de Chile, Santiago, Chile
| |
Collapse
|
14
|
Assessing Antibiotic Residues in Poultry Eggs from Backyard Production Systems in Chile, First Approach to a Non-Addressed Issue in Farm Animals. Animals (Basel) 2020; 10:ani10061056. [PMID: 32575363 PMCID: PMC7341250 DOI: 10.3390/ani10061056] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2020] [Revised: 06/11/2020] [Accepted: 06/12/2020] [Indexed: 02/06/2023] Open
Abstract
Eggs are the main product generated from backyard poultry production systems (BPS) because they can quickly be consumed and sold to meet essential family needs. Nevertheless, antimicrobial residues can accumulate in this product. The objective of this study was to evaluate the presence of antimicrobial residues in eggs produced by poultry kept in BPS in central Chile. To assess this, eggs were obtained from 83 BPS and analysed to evaluate the presence of antibiotic residues (families: tetracyclines, beta-lactams, aminoglycosides and macrolides), using a Four-Plate Test screening method for the detection, based on a bacterial growth inhibition method. Results show a lack of biosecurity procedures at BPS level, making these systems susceptible to the dissemination of antimicrobial residues. These include intensive animal production units in the proximity, and the presence of shared watercourses with other farms. Furthermore, 66% of the surveyed owners are indicated as giving pharmacological treatments to their chickens. Eggs from 61 BPS were positive for at least one antimicrobial. Fifty-three BPS were positive for more than one antimicrobial, and one BPS was positive for all four antimicrobials tested. Consequently, there is a risk that poultry eggs produced in BPS in central Chile carry residues of different families of antimicrobials.
Collapse
|
15
|
Chauhan RP, Gordon ML. A Systematic Review Analyzing the Prevalence and Circulation of Influenza Viruses in Swine Population Worldwide. Pathogens 2020; 9:pathogens9050355. [PMID: 32397138 PMCID: PMC7281378 DOI: 10.3390/pathogens9050355] [Citation(s) in RCA: 27] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2020] [Revised: 04/02/2020] [Accepted: 04/09/2020] [Indexed: 01/04/2023] Open
Abstract
The global anxiety and a significant threat to public health due to the current COVID-19 pandemic reiterate the need for active surveillance for the zoonotic virus diseases of pandemic potential. Influenza virus due to its wide host range and zoonotic potential poses such a significant threat to public health. Swine serve as a “mixing vessel” for influenza virus reassortment and evolution which as a result may facilitate the emergence of new strains or subtypes of zoonotic potential. In this context, the currently available scientific data hold a high significance to unravel influenza virus epidemiology and evolution. With this objective, the current systematic review summarizes the original research articles and case reports of all the four types of influenza viruses reported in swine populations worldwide. A total of 281 articles were found eligible through screening of PubMed and Google Scholar databases and hence were included in this systematic review. The highest number of research articles (n = 107) were reported from Asia, followed by Americas (n = 97), Europe (n = 55), Africa (n = 18), and Australia (n = 4). The H1N1, H1N2, H3N2, and A(H1N1)pdm09 viruses were the most common influenza A virus subtypes reported in swine in most countries across the globe, however, few strains of influenza B, C, and D viruses were also reported in certain countries. Multiple reports of the avian influenza virus strains documented in the last two decades in swine in China, the United States, Canada, South Korea, Nigeria, and Egypt provided the evidence of interspecies transmission of influenza viruses from birds to swine. Inter-species transmission of equine influenza virus H3N8 from horse to swine in China expanded the genetic diversity of swine influenza viruses. Additionally, numerous reports of the double and triple-reassortant strains which emerged due to reassortments among avian, human, and swine strains within swine further increased the genetic diversity of swine influenza viruses. These findings are alarming hence active surveillance should be in place to prevent future influenza pandemics.
Collapse
|
16
|
Bravo-Vasquez N, Baumberger C, Jimenez-Bluhm P, Di Pillo F, Lazo A, Sanhueza J, Schultz-Cherry S, Hamilton-West C. Risk factors and spatial relative risk assessment for influenza A virus in poultry and swine in backyard production systems of central Chile. Vet Med Sci 2020; 6:518-526. [PMID: 32086880 PMCID: PMC7397882 DOI: 10.1002/vms3.254] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/02/2019] [Revised: 10/24/2019] [Accepted: 02/06/2020] [Indexed: 11/18/2022] Open
Abstract
Backyard production systems (BPS) are a common form of poultry and swine production worldwide. The limited implementation of biosecurity standards in these operations makes BPS a potential source for the emergence of pathogens that have an impact on both animal and public health. Information regarding circulation of influenza A virus (IAV) in poultry and swine raised in BPS is scarce; particularly in South American countries. The objective of this study was to estimate prevalence and seroprevalence of IAV in BPS in central Chile, identify subtype diversity, evaluate risk factors and spatial relative risk for IAV. Samples were collected from 329 BPS from central Chile. Seroprevalence at BPS level was 34.7% (95% CI: 23.1%–46.2%), 19.7% (95% CI: 9.9%–30.6%) and 11.7% (95% CI: 7.2%–16.4%), whereas prevalence at BPS level was 4.2% (95% CI: 0.0%–8.8%), 8.2% (95% CI: 0.8%–14.0%) and 9.2% (95% CI: 4.8%–13.1%), for the Metropolitan, Valparaiso and LGB O’Higgins regions, respectively. Spatial analysis revealed that central‐western area of Metropolitan region and the southern province of Valparaiso region could be considered as high‐risk areas for IAV (spatial relative risk = 2.2, p < .05). Logistic regression models identified the practice of breeding both poultry and pigs at the BPS as a risk factor (95% CI 1.06–3.75). From 75 IAV ELISA‐positive sera, 20 chicken sera had haemagglutination inhibition titres ranging from 20 to 160, and of these, 11 had microneutralization titres ranging from 40 to 960 for one or more IAV subtypes. Identified subtypes were H1, H3, H4, H9, H10 and H12. Results from this study highlight the need for further IAV surveillance programmes in BPS in Chile. Early detection of IAV strains circulating in backyard animals, especially in regions with large human populations, could have an enormous impact on animal and public health.
Collapse
Affiliation(s)
- Nicolas Bravo-Vasquez
- Department of Infectious Diseases, Saint Jude Children's Research Hospital, Memphis, TN, USA
| | - Cecilia Baumberger
- Department of Preventive Veterinary Medicine, University of Chile, Santiago de Chile, Chile
| | - Pedro Jimenez-Bluhm
- Department of Preventive Veterinary Medicine, University of Chile, Santiago de Chile, Chile
| | - Francisca Di Pillo
- Núcleo de Investigaciones Aplicadas en Ciencias Veterinarias y Agronómicas, Universidad de Las Americas, Santiago, Chile
| | - Andres Lazo
- Department of Preventive Veterinary Medicine, University of Chile, Santiago de Chile, Chile
| | - Juan Sanhueza
- Department of Veterinary Population Medicine, University of Minnesota Twin Cities, St Paul, MN, USA
| | - Stacey Schultz-Cherry
- Department of Infectious Diseases, Saint Jude Children's Research Hospital, Memphis, TN, USA
| | | |
Collapse
|
17
|
Jimenez-Bluhm P, Bravo-Vasquez N, Torchetti MK, Killian ML, Livingston B, Herrera J, Fuentes M, Schultz-Cherry S, Hamilton-West C. Low pathogenic avian influenza (H7N6) virus causing an outbreak in commercial Turkey farms in Chile. Emerg Microbes Infect 2019; 8:479-485. [PMID: 30924394 PMCID: PMC6456847 DOI: 10.1080/22221751.2019.1595162] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
In late 2016, an H7N6 low pathogenic avian influenza virus outbreak occurred in domestic turkeys in Central Chile. We characterized the genetic and antigenic properties of the outbreak virus and its experimental transmission in chickens. Our studies demonstrate that the outbreak virus is a reassortment of genes identified from Chilean wild bird viruses between 2013 and 2017 and displays molecular adaptations to poultry and antiviral resistance to adamantanes. Further, these wild bird viruses are also able to transmit in experimentally infected chickens highlighting the need for continued surveillance and improvement of biosecurity in poultry farms.
Collapse
Affiliation(s)
- Pedro Jimenez-Bluhm
- a Department of Preventive Veterinary Medicine, Faculty of Veterinary Sciences , Universidad de Chile , Santiago , Chile
| | | | - Mia K Torchetti
- c National Veterinary Services Laboratories , Ames , IA , USA
| | - Mary L Killian
- c National Veterinary Services Laboratories , Ames , IA , USA
| | | | - Jose Herrera
- d Servicio Agrícola y Ganadero , Santiago , Chile
| | | | | | - Christopher Hamilton-West
- a Department of Preventive Veterinary Medicine, Faculty of Veterinary Sciences , Universidad de Chile , Santiago , Chile
| |
Collapse
|
18
|
Di Pillo F, Anríquez G, Alarcón P, Jimenez-Bluhm P, Galdames P, Nieto V, Schultz-Cherry S, Hamilton-West C. Backyard poultry production in Chile: animal health management and contribution to food access in an upper middle-income country. Prev Vet Med 2019; 164:41-48. [PMID: 30771893 DOI: 10.1016/j.prevetmed.2019.01.008] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2018] [Revised: 01/09/2019] [Accepted: 01/18/2019] [Indexed: 11/16/2022]
Abstract
Backyard production systems (BPS) that involve poultry are a good way to improve food security and poverty alleviation. Few studies have been carried out to quantify the contribution of poultry production to these households and the constraints they might face if a priority animal disease enters these systems. This study aims to characterize the poultry-rearing BPS in central Chile and to identify socio-economic factors associated to households' consumption of poultry. Data was collected from 384 BPS through a face-to-face semi-structured questionnaire. Value chain framework associated with BPS poultry rearing and cash flow analysis of BPS was done to identify the inputs/outputs of the system and to know the profitability of the system. Multiple linear regression was performed to identify the BPS and household factors associated to poultry consumption. The results of this study suggest that BPS in central Chile have biosecurity deficiencies such as: lack of confinement, lack of veterinary assistance and incorrect handling of dead animals. Cash flow analysis indicated that 62% of the BPS had a positive balance from production. Distance to closest market and per capita income were factors associated to poultry value to farmers. Different factors were significant predictors of household poultry consumption. Positive predictors of consumption were identified as: (i) older owners, (ii) higher transportation price to closest market, (iii) larger flock size (iv) birds raised by women and (v) owning a car. On the contrary, (i) higher per capita income and (ii) bigger household size predicted a reduction in consumption. The results indicate the importance of BPS to low-income families and those living in remote areas while also highlighting the vulnerability of these systems to disease risks.
Collapse
Affiliation(s)
- Francisca Di Pillo
- Facultad de Medicina Veterinaria y Agronomía, Universidad de las Américas, Sede Providencia, Manuel Montt 948, Santiago, Chile; Doctoral Program in Agriculture, Forestry and Veterinary Sciences, University of Chile
| | - Gustavo Anríquez
- Department of Agricultural Economics, Pontificia Universidad Católica de Chile, Santiago, Chile
| | - Pablo Alarcón
- Department of Pathobiology and Population Medicine, Royal Veterinary College, University of London, UK
| | - Pedro Jimenez-Bluhm
- Epidemiology Unit, Department of Preventive Veterinary Medicine, Faculty of Veterinary Science, Universidad de Chile, Santiago, Chile
| | - Pablo Galdames
- Epidemiology Unit, Department of Preventive Veterinary Medicine, Faculty of Veterinary Science, Universidad de Chile, Santiago, Chile; Master Program in Veterinary and Animals Sciences, Faculty of Veterinary Sciences, University of Chile, Chile
| | - Vanesa Nieto
- Facultad de Medicina Veterinaria y Agronomía, Universidad de las Américas, Sede Providencia, Manuel Montt 948, Santiago, Chile
| | - Stacey Schultz-Cherry
- Department of Infectious Diseases, St. Jude Children's Research Hospital, United States
| | - Christopher Hamilton-West
- Epidemiology Unit, Department of Preventive Veterinary Medicine, Faculty of Veterinary Science, Universidad de Chile, Santiago, Chile.
| |
Collapse
|