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Mollarasouli F, Bahrani S, Amrollahimiyandeh Y, Paimard G. Nanomaterials-based immunosensors for avian influenza virus detection. Talanta 2024; 279:126591. [PMID: 39059066 DOI: 10.1016/j.talanta.2024.126591] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2024] [Revised: 07/01/2024] [Accepted: 07/18/2024] [Indexed: 07/28/2024]
Abstract
Avian influenza viruses (AIV) are capable of infecting a considerable proportion of the world's population each year, leading to severe epidemics with high rates of morbidity and mortality. The methods now used to diagnose influenza virus A include the Western blot test (WB), hemagglutination inhibition (HI), and enzyme-linked immunosorbent assays (ELISAs). But because of their labor-intensiveness, lengthy procedures, need for costly equipment, and inexperienced staff, these approaches are considered inappropriate. The present review elucidates the recent advancements in the field of avian influenza detection through the utilization of nanomaterials-based immunosensors between 2014 and 2024. The classification of detection techniques has been taken into account to provide a comprehensive overview of the literature. The review encompasses a detailed illustration of the commonly employed detection mechanisms in immunosensors, namely, colorimetry, fluorescence assay, surface plasmon resonance (SPR), surface-enhanced Raman spectroscopy (SERS), electrochemical detection, quartz crystal microbalance (QCM) piezoelectric, and field-effect transistor (FET). Furthermore, the challenges and future prospects for the immunosensors have been deliberated upon. The present review aims to enhance the understanding of immunosensors-based sensing platforms for virus detection and to stimulate the development of novel immunosensors by providing novel ideas and inspirations. Therefore, the aim of this paper is to provide an updated information about biosensors, as a recent detection technique of influenza with its details regarding the various types of biosensors, which can be used for this review.
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Affiliation(s)
| | - Sonia Bahrani
- Borjobaru Fars Company, Nanotechnology Department, Fars Science and Technology Park, Shiraz, 7197687811, Iran; Department of Medical Nanotechnology, School of Advanced Medical Sciences and Technologies, Shiraz University of Medical Sciences, Shiraz, Iran
| | - Yousef Amrollahimiyandeh
- Borjobaru Fars Company, Nanotechnology Department, Fars Science and Technology Park, Shiraz, 7197687811, Iran
| | - Giti Paimard
- Laboratory of Nanoscale Biosensing and Bioimaging (NBAB), School of Ophthalmology and Optometry, School of Biomedical Engineering, State Key Laboratory of Ophthalmology Optometry, and Vision Science, Wenzhou Medical University, Wenzhou, Zhejiang, 325027, China
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2
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Spackman E, Anderson N, Walker S, Suarez DL, Jones DR, McCoig A, Colonius T, Roddy T, Chaplinski NJ. Inactivation of Highly Pathogenic Avian Influenza Virus with High-temperature Short Time Continuous Flow Pasteurization and Virus Detection in Bulk Milk Tanks. J Food Prot 2024; 87:100349. [PMID: 39154916 DOI: 10.1016/j.jfp.2024.100349] [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: 06/28/2024] [Revised: 07/31/2024] [Accepted: 08/13/2024] [Indexed: 08/20/2024]
Abstract
Infections of dairy cattle with clade 2.3.4.4b H5N1 highly pathogenic avian influenza virus (HPAIV) were reported in March 2024 in the U.S. and viable virus was detected at high levels in raw milk from infected cows. This study aimed to determine the potential quantities of infectious HPAIV in raw milk in affected states where herds were confirmed positive by USDA for HPAIV (and therefore were not representative of the entire population), and to confirm that the commonly used continuous flow pasteurization using the FDA approved 72 °C (161°F) for 15 s conditions for high-temperature short time (HTST) processing, will inactivate the virus. Double-blinded raw milk samples from bulk storage tanks from farms (n = 275) were collected in four affected states. Samples were screened for influenza A using quantitative real-time RT-PCR (qrRT-PCR) of which 158 (57.5%) were positive and were subsequently quantified in embryonating chicken eggs. Thirty-nine qrRT-PCR positive samples (24.8%) were positive for infectious virus with a median titer of 3.5 log10 50% egg infectious doses (EID50) per mL. To closely simulate commercial milk pasteurization processing systems, a pilot-scale continuous flow pasteurizer was used to evaluate HPAIV inactivation in artificially contaminated raw milk using the most common legal conditions in the US: 72 °C (161°F) for 15 s. Among all replicates at two flow rates (n = 5 at 0.5 L/min; n = 4 at 1 L/min), no viable virus was detected. A mean reduction of ≥5.8 ± 0.2 log10 EID50/mL occurred during the heating phase where the milk is brought to 72.5 °C before the holding tube. Estimates from heat-transfer analysis support that standard U.S. continuous flow HTST pasteurization parameters will inactivate >12 log10 EID50/mL of HPAIV, which is ∼9 log10 EID50/mL greater than the median quantity of infectious virus detected in raw milk from bulk storage tank samples. These findings demonstrate that the US milk supply is safe when pasteurized.
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Affiliation(s)
- Erica Spackman
- Exotic and Emerging Avian Viral Disease Research Unit, Southeast Poultry Research Center, US National Poultry Research Center, USDA-Agricultural Research Service, Athens, GA, USA.
| | - Nathan Anderson
- Office of Food Safety, Center for Food Safety and Applied Nutrition, US Food and Drug Administration, Bedford Park, IL, USA
| | - Stephen Walker
- Office of Food Safety, Center for Food Safety and Applied Nutrition, US Food and Drug Administration, Bedford Park, IL, USA.
| | - David L Suarez
- Exotic and Emerging Avian Viral Disease Research Unit, Southeast Poultry Research Center, US National Poultry Research Center, USDA-Agricultural Research Service, Athens, GA, USA
| | - Deana R Jones
- US National Poultry Research Center, USDA-Agricultural Research Service, Athens, GA, USA
| | - Amber McCoig
- Center for Veterinary Medicine, US Food and Drug Administration, Rockville, MD, USA
| | - Tristan Colonius
- Center for Veterinary Medicine, US Food and Drug Administration, Rockville, MD, USA
| | - Timothy Roddy
- Office of State Cooperative Programs, US Food and Drug Administration, Kansas City, MO, USA
| | - Nicholas J Chaplinski
- US National Poultry Research Center, USDA-Agricultural Research Service, Athens, GA, USA
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3
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Lee SH, Jeong S, Cho AY, Kim TH, Choi YJ, Lee H, Song CS, Nahm SS, Swayne DE, Lee DH. Caught Right on the Spot: Isolation and Characterization of Clade 2.3.4.4b H5N8 High Pathogenicity Avian Influenza Virus from a Common Pochard ( Aythya ferina) Being Attacked by a Peregrine Falcon ( Falco peregrinus). Avian Dis 2024; 68:72-79. [PMID: 38687111 DOI: 10.1637/aviandiseases-d-23-00062] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/04/2023] [Accepted: 12/12/2023] [Indexed: 05/02/2024]
Abstract
We isolated a high pathogenicity avian influenza (HPAI) virus from a common pochard (Aythya ferina) that was being attacked by a bird of prey in South Korea in December 2020. Genetic analyses indicated that the isolate was closely related to the clade 2.3.4.4b H5N8 HPAI viruses found in South Korea and Japan during the winter season of 2020-2021. The histopathological examination revealed multifocal necrotizing inflammation in the liver, kidney, and spleen. Viral antigens were detected in the liver, kidney, spleen, trachea, intestine, and pancreas, indicating the HPAI virus caused a systemic infection. The presence of immunoreactivity for the viral antigen was observed in the cells involved in multifocal necrotic inflammation. Notably, epitheliotropic-positive patterns were identified in the epithelial cells of the trachea, mucosal epithelium of the intestine, and ductular epithelium of the pancreas. These findings provide direct evidence supporting the possibility of HPAI transmission from infected waterfowl to predators.
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Affiliation(s)
- Sun-Hak Lee
- Avian Disease Laboratory, College of Veterinary Medicine, Konkuk University, 120 Neungdong-ro, Gwangjin-gu, Seoul, Republic of Korea
| | - Sol Jeong
- National Institute of Wildlife Disease Control and Prevention (NIWDC), 1, Songam-gil, Gwangsan-gu, Gwangju, Republic of Korea
| | - Andrew Y Cho
- Avian Disease Laboratory, College of Veterinary Medicine, Konkuk University, 120 Neungdong-ro, Gwangjin-gu, Seoul, Republic of Korea
| | - Tae-Hyeon Kim
- Avian Disease Laboratory, College of Veterinary Medicine, Konkuk University, 120 Neungdong-ro, Gwangjin-gu, Seoul, Republic of Korea
| | - Yun-Jeong Choi
- Avian Disease Laboratory, College of Veterinary Medicine, Konkuk University, 120 Neungdong-ro, Gwangjin-gu, Seoul, Republic of Korea
| | - Heesu Lee
- Avian Disease Laboratory, College of Veterinary Medicine, Konkuk University, 120 Neungdong-ro, Gwangjin-gu, Seoul, Republic of Korea
| | - Chang-Seon Song
- Avian Disease Laboratory, College of Veterinary Medicine, Konkuk University, 120 Neungdong-ro, Gwangjin-gu, Seoul, Republic of Korea
- Konkuk University Zoonotic Diseases Research Center, Konkuk University, Seoul, Republic of Korea
| | - Sang-Soep Nahm
- Department of Veterinary Anatomy, College of Veterinary Medicine, Konkuk University, Seoul, Korea
| | | | - Dong-Hun Lee
- Konkuk University Zoonotic Diseases Research Center, Konkuk University, Seoul, Republic of Korea,
- Wildlife Health Laboratory, College of Veterinary Medicine, Konkuk University, Seoul, Republic of Korea
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Kent CM, Bevins SN, Mullinax JM, Sullivan JD, Prosser DJ. Waterfowl show spatiotemporal trends in influenza A H5 and H7 infections but limited taxonomic variation. ECOLOGICAL APPLICATIONS : A PUBLICATION OF THE ECOLOGICAL SOCIETY OF AMERICA 2023; 33:e2906. [PMID: 37522765 DOI: 10.1002/eap.2906] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/28/2023] [Revised: 05/31/2023] [Accepted: 06/21/2023] [Indexed: 08/01/2023]
Abstract
Influenza A viruses in wild birds pose threats to the poultry industry, wild birds, and human health under certain conditions. Of particular importance are wild waterfowl, which are the primary reservoir of low-pathogenicity influenza viruses that ultimately cause high-pathogenicity outbreaks in poultry farms. Despite much work on the drivers of influenza A virus prevalence, the underlying viral subtype dynamics are still mostly unexplored. Nevertheless, understanding these dynamics, particularly for the agriculturally significant H5 and H7 subtypes, is important for mitigating the risk of outbreaks in domestic poultry farms. Here, using an expansive surveillance database, we take a large-scale look at the spatial, temporal, and taxonomic drivers in the prevalence of these two subtypes among influenza A-positive wild waterfowl. We document spatiotemporal trends that are consistent with past work, particularly an uptick in H5 viruses in late autumn and H7 viruses in spring. Interestingly, despite large species differences in temporal trends in overall influenza A virus prevalence, we document only modest differences in the relative abundance of these two subtypes and little, if any, temporal differences among species. As such, it appears that differences in species' phenology, physiology, and behaviors that influence overall susceptibility to influenza A viruses play a much lesser role in relative susceptibility to different subtypes. Instead, species are likely to freely pass viruses among each other regardless of subtype. Importantly, despite the similarities among species documented here, individual species still may play important roles in moving viruses across large geographic areas or sustaining local outbreaks through their different migratory behaviors.
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Affiliation(s)
- Cody M Kent
- Department of Environmental Science and Technology, University of Maryland, College Park, Maryland, USA
- Department of Biology, Frostburg State University, Frostburg, Maryland, USA
| | - Sarah N Bevins
- US Department of Agriculture, Wildlife Services, National Wildlife Disease Program, Fort Collins, Colorado, USA
| | - Jennifer M Mullinax
- Department of Environmental Science and Technology, University of Maryland, College Park, Maryland, USA
| | - Jeffery D Sullivan
- US Geological Survey, Eastern Ecological Science Center, Laurel, Maryland, USA
| | - Diann J Prosser
- US Geological Survey, Eastern Ecological Science Center, Laurel, Maryland, USA
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Wang M, Yu Y, Wu J, Wang S, Giménez-Lirola LG, Piñeyro P, Wang Y, Cui H, He X, Zimmerman JJ, Tu Y, Cai X, Wang G. Genetic and In Vitro Characteristics of a Porcine Circovirus Type 3 Isolate from Northeast China. Vet Sci 2023; 10:517. [PMID: 37624304 PMCID: PMC10459391 DOI: 10.3390/vetsci10080517] [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: 06/09/2023] [Revised: 08/01/2023] [Accepted: 08/02/2023] [Indexed: 08/26/2023] Open
Abstract
Porcine circovirus 3 (PCV3) is an emerging virus first discovered in the United States in 2015, and since then, PCV3 has been found in many regions of the world, including America, Asia, and Europe. Although several PCV3 investigations have been carried out, there is a lack of knowledge regarding the pathogenicity of PCV3, mostly due to the limited number of PCV3 isolates that are readily available. In this study, PCV3-DB-1 was isolated in PK-15 cells and characterized in vitro. Electron microscopy revealed the presence of PCV-like particles, and in situ hybridization RNA analysis demonstrated the replication of PCV3 in PK-15 cell culture. Based on phylogenetic analysis of PCV3 isolates from the Heilongjiang province of China, PCV3-DB-1 with 24 alanine and 27 lysine in the Cap protein was originally isolated and determined to belong to the clade PCV3a.
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Affiliation(s)
- Menghang Wang
- Heilongjiang Research Center for Veterinary Biopharmaceutical Technology, State Key Laboratory for Animal Disease Control and Prevention, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin 150069, China; (M.W.)
| | - Ying Yu
- College of Veterinary Medicine, Qingdao Agricultural University, Qingdao 266109, China
| | - Jianan Wu
- Heilongjiang Research Center for Veterinary Biopharmaceutical Technology, State Key Laboratory for Animal Disease Control and Prevention, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin 150069, China; (M.W.)
| | - Shujie Wang
- Heilongjiang Research Center for Veterinary Biopharmaceutical Technology, State Key Laboratory for Animal Disease Control and Prevention, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin 150069, China; (M.W.)
| | - Luis G Giménez-Lirola
- Department of Veterinary Diagnostic and Production Animal Medicine, College of Veterinary Medicine, Iowa State University, Ames, IA 50011, USA
| | - Pablo Piñeyro
- Department of Veterinary Diagnostic and Production Animal Medicine, College of Veterinary Medicine, Iowa State University, Ames, IA 50011, USA
| | - Yu Wang
- Heilongjiang Research Center for Veterinary Biopharmaceutical Technology, State Key Laboratory for Animal Disease Control and Prevention, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin 150069, China; (M.W.)
| | - Hongliang Cui
- Heilongjiang Research Center for Veterinary Biopharmaceutical Technology, State Key Laboratory for Animal Disease Control and Prevention, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin 150069, China; (M.W.)
| | - Xijun He
- Heilongjiang Research Center for Veterinary Biopharmaceutical Technology, State Key Laboratory for Animal Disease Control and Prevention, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin 150069, China; (M.W.)
| | - Jeffrey J. Zimmerman
- Department of Veterinary Diagnostic and Production Animal Medicine, College of Veterinary Medicine, Iowa State University, Ames, IA 50011, USA
| | - Yabin Tu
- Heilongjiang Research Center for Veterinary Biopharmaceutical Technology, State Key Laboratory for Animal Disease Control and Prevention, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin 150069, China; (M.W.)
| | - Xuehui Cai
- Heilongjiang Research Center for Veterinary Biopharmaceutical Technology, State Key Laboratory for Animal Disease Control and Prevention, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin 150069, China; (M.W.)
| | - Gang Wang
- Heilongjiang Research Center for Veterinary Biopharmaceutical Technology, State Key Laboratory for Animal Disease Control and Prevention, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin 150069, China; (M.W.)
- Shandong Provincial Key Laboratory of Animal Biotechnology and Disease Control and Prevention, College of Veterinary Medicine, Shandong Agricultural University, Tai’an 271002, China
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6
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Lee SH, Lee J, Noh JY, Jeong JH, Kim JB, Kwon JH, Youk S, Song CS, Lee DH. Age is a determinant factor in the susceptibility of domestic ducks to H5 clade 2.3.2.1c and 2.3.4.4e high pathogenicity avian influenza viruses. Front Vet Sci 2023; 10:1207289. [PMID: 37546334 PMCID: PMC10400362 DOI: 10.3389/fvets.2023.1207289] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/17/2023] [Accepted: 07/03/2023] [Indexed: 08/08/2023] Open
Abstract
High pathogenicity avian influenza (HPAI) is a viral disease with devastating consequences for the poultry industry worldwide. Domestic ducks are a major source of HPAI viruses in many Eurasian countries. The infectivity and pathogenicity of HPAI viruses in ducks vary depending on host and viral factors. To assess the factors influencing the infectivity and pathogenicity of HPAI viruses in ducks, we compared the pathobiology of two HPAI viruses (H5N1 clade 2.3.2.1c and H5N6 clade 2.3.4.4e) in 5- and 25-week-old ducks. Both HPAI viruses caused mortality in a dose-dependent manner (104, 106, and 108 EID50) in young ducks. By contrast, adult ducks were infected but exhibited no mortality due to either virus. Viral excretion was higher in young ducks than in adults, regardless of the HPAI strain. These findings demonstrate the age-dependent mortality of clade 2.3.2.1c and clade 2.3.4.4e H5 HPAI viruses in ducks.
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Affiliation(s)
- Sun-Hak Lee
- Avian Disease Laboratory, College of Veterinary Medicine, Konkuk University, Seoul, Republic of Korea
| | - Jiho Lee
- Avian Disease Laboratory, College of Veterinary Medicine, Konkuk University, Seoul, Republic of Korea
| | - Jin-Yong Noh
- Avian Disease Laboratory, College of Veterinary Medicine, Konkuk University, Seoul, Republic of Korea
- KHAV Co., Ltd., Seoul, Republic of Korea
| | - Jei-Hyun Jeong
- Avian Disease Laboratory, College of Veterinary Medicine, Konkuk University, Seoul, Republic of Korea
- KHAV Co., Ltd., Seoul, Republic of Korea
| | - Jun-Beom Kim
- Avian Disease Laboratory, College of Veterinary Medicine, Konkuk University, Seoul, Republic of Korea
- KHAV Co., Ltd., Seoul, Republic of Korea
| | - Jung-Hoon Kwon
- Laboratory of Veterinary Microbiology, College of Veterinary Medicine, Kyungpook National University, Daegu, Republic of Korea
| | - Sungsu Youk
- Department of Microbiology, College of Medicine, Chungbuk National University, Cheongju-si, Republic of Korea
| | - Chang-Seon Song
- Avian Disease Laboratory, College of Veterinary Medicine, Konkuk University, Seoul, Republic of Korea
- KHAV Co., Ltd., Seoul, Republic of Korea
| | - Dong-Hun Lee
- Wildlife Health Laboratory, College of Veterinary Medicine, Konkuk University, Seoul, Republic of Korea
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Kim JY, Lee SH, Kim DW, Lee DW, Song CS, Lee DH, Kwon JH. Detection of intercontinental reassortant H6 avian influenza viruses from wild birds in South Korea, 2015 and 2017. Front Vet Sci 2023; 10:1157984. [PMID: 37377949 PMCID: PMC10291271 DOI: 10.3389/fvets.2023.1157984] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2023] [Accepted: 05/10/2023] [Indexed: 06/29/2023] Open
Abstract
Avian influenza viruses (AIVs) in wild birds are phylogenetically separated in Eurasian and North American lineages due to the separated distribution and migration of wild birds. However, AIVs are occasionally dispersed between two continents by migratory wild birds flying across the Bering Strait. In this study, we isolated three AIVs from wild bird feces collected in South Korea that contain gene segments derived from American lineage AIVs, including an H6N2 isolated in 2015 and two H6N1 in 2017. Phylogenetic analysis suggests that the H6N2 virus had American lineage matrix gene and the H6N1 viruses had American lineage nucleoprotein and non-structural genes. These results highlight that novel AIVs have continuously emerged by reassortment between viruses from the two continents. Therefore, continuous monitoring for the emergence and intercontinental spread of novel reassortant AIV is required to prepare for a possible future outbreak.
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Affiliation(s)
- Ji-Yun Kim
- College of Veterinary Medicine, Kyungpook National University, Daegu, Republic of Korea
| | - Sun-Hak Lee
- Avian Disease Laboratory, College of Veterinary Medicine, Konkuk University, Seoul, Republic of Korea
| | - Da-Won Kim
- College of Veterinary Medicine, Kyungpook National University, Daegu, Republic of Korea
| | - Dong-Wook Lee
- College of Veterinary Medicine, Kyungpook National University, Daegu, Republic of Korea
| | - Chang-Seon Song
- Avian Disease Laboratory, College of Veterinary Medicine, Konkuk University, Seoul, Republic of Korea
| | - Dong-Hun Lee
- Wildlife Health Laboratory, College of Veterinary Medicine, Konkuk University, Seoul, Republic of Korea
| | - Jung-Hoon Kwon
- College of Veterinary Medicine, Kyungpook National University, Daegu, Republic of Korea
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Vereecke N, Zwickl S, Gumbert S, Graaf A, Harder T, Ritzmann M, Lillie-Jaschniski K, Theuns S, Stadler J. Viral and Bacterial Profiles in Endemic Influenza A Virus Infected Swine Herds Using Nanopore Metagenomic Sequencing on Tracheobronchial Swabs. Microbiol Spectr 2023; 11:e0009823. [PMID: 36853049 PMCID: PMC10100764 DOI: 10.1128/spectrum.00098-23] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/08/2023] [Accepted: 02/03/2023] [Indexed: 03/01/2023] Open
Abstract
Swine influenza A virus (swIAV) plays an important role in porcine respiratory infections. In addition to its ability to cause severe disease by itself, it is important in the multietiological porcine respiratory disease complex. Still, to date, no comprehensive diagnostics with which to study polymicrobial infections in detail have been offered. Hence, veterinary practitioners rely on monospecific and costly diagnostics, such as Reverse Transcription quantitative PCR (RT-qPCR), antigen detection, and serology. This prevents the proper understanding of the entire disease context, thereby hampering effective preventive and therapeutic actions. A new, nanopore-based, metagenomic diagnostic platform was applied to study viral and bacterial profiles across 4 age groups on 25 endemic swIAV-infected German farms with respiratory distress in the nursery. Farms were screened for swIAV using RT-qPCR on nasal and tracheobronchial swabs (TBS). TBS samples were pooled per age, prior to metagenomic characterization. The resulting data showed a correlation between the swIAV loads and the normalized reads, supporting a (semi-)quantitative interpretation of the metagenomic data. Interestingly, an in-depth characterization using beta diversity and PERMANOVA analyses allowed for the observation of an age-dependent interplay of known microbial agents. Also, lesser-known microbes, such as porcine polyoma, parainfluenza, and hemagglutinating encephalomyelitis viruses, were observed. Analyses of swIAV incidence and clinical signs showed differing microbial communities, highlighting age-specific observations of various microbes in porcine respiratory disease. In conclusion, nanopore metagenomics were shown to enable a panoramic view on viral and bacterial profiles as well as putative pathogen dynamics in endemic swIAV-infected herds. The results also highlighted the need for better insights into lesser studied agents that are potentially associated with porcine respiratory disease. IMPORTANCE To date, no comprehensive diagnostics for the study of polymicrobial infections that are associated with porcine respiratory disease have been offered. This precludes the proper understanding of the entire disease landscape, thereby hampering effective preventive and therapeutic actions. Compared to the often-costly diagnostic procedures that are applied for the diagnostics of porcine respiratory disease nowadays, a third-generation nanopore sequencing diagnostics workflow presents a cost-efficient and informative tool. This approach offers a panoramic view of microbial agents and contributes to the in-depth observation and characterization of viral and bacterial profiles within the respiratory disease context. While these data allow for the study of age-associated, swIAV-associated, and clinical symptom-associated observations, it also suggests that more effort should be put toward the investigation of coinfections and lesser-known pathogens (e.g., PHEV and PPIV), along with their potential roles in porcine respiratory disease. Overall, this approach will allow veterinary practitioners to tailor treatment and/or management changes on farms in a quicker, more complete, and cost-efficient way.
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Affiliation(s)
- Nick Vereecke
- Laboratory of Virology, Faculty of Veterinary Medicine, Ghent University, Merelbeke, Belgium
- PathoSense BV, Lier, Belgium
| | - Sophia Zwickl
- Clinic for Swine at the Centre for Clinical Veterinary Medicine, LMU Munich, Germany
| | - Sophie Gumbert
- Clinic for Swine at the Centre for Clinical Veterinary Medicine, LMU Munich, Germany
| | - Annika Graaf
- Institute of Diagnostic Virology, Friedrich-Loeffler-Institut, Germany
| | - Timm Harder
- Institute of Diagnostic Virology, Friedrich-Loeffler-Institut, Germany
| | - Mathias Ritzmann
- Clinic for Swine at the Centre for Clinical Veterinary Medicine, LMU Munich, Germany
| | | | - Sebastiaan Theuns
- Laboratory of Virology, Faculty of Veterinary Medicine, Ghent University, Merelbeke, Belgium
- PathoSense BV, Lier, Belgium
| | - Julia Stadler
- Clinic for Swine at the Centre for Clinical Veterinary Medicine, LMU Munich, Germany
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9
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Spatiotemporal changes in influenza A virus prevalence among wild waterfowl inhabiting the continental United States throughout the annual cycle. Sci Rep 2022; 12:13083. [PMID: 35906292 PMCID: PMC9338306 DOI: 10.1038/s41598-022-17396-5] [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: 01/05/2022] [Accepted: 07/25/2022] [Indexed: 11/08/2022] Open
Abstract
Avian influenza viruses can pose serious risks to agricultural production, human health, and wildlife. An understanding of viruses in wild reservoir species across time and space is important to informing surveillance programs, risk models, and potential population impacts for vulnerable species. Although it is recognized that influenza A virus prevalence peaks in reservoir waterfowl in late summer through autumn, temporal and spatial variation across species has not been fully characterized. We combined two large influenza databases for North America and applied spatiotemporal models to explore patterns in prevalence throughout the annual cycle and across the continental United States for 30 waterfowl species. Peaks in prevalence in late summer through autumn were pronounced for dabbling ducks in the genera Anas and Spatula, but not Mareca. Spatially, areas of high prevalence appeared to be related to regional duck density, with highest predicted prevalence found across the upper Midwest during early fall, though further study is needed. We documented elevated prevalence in late winter and early spring, particularly in the Mississippi Alluvial Valley. Our results suggest that spatiotemporal variation in prevalence outside autumn staging areas may also represent a dynamic parameter to be considered in IAV ecology and associated risks.
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10
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Stallknecht DE, Fojtik A, Carter DL, Crum-Bradley JA, Perez DR, Poulson RL. Naturally Acquired Antibodies to Influenza A Virus in Fall-Migrating North American Mallards. Vet Sci 2022; 9:214. [PMID: 35622742 PMCID: PMC9148056 DOI: 10.3390/vetsci9050214] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/10/2022] [Revised: 04/15/2022] [Accepted: 04/23/2022] [Indexed: 01/27/2023] Open
Abstract
Although waterfowl are the primary reservoir for multiple subtypes of influenza A virus (IAV), our understanding of population immunity in naturally infected waterfowl is poorly understood. Population immunity may be an important driver of seasonal subtype predominance in waterfowl populations and may affect the potential for establishment of introduced IAV such as the Eurasian-like A/Goose/Guangdong/1/1996 lineage in these populations. Here, we examine the prevalence of naturally acquired antibodies to nucleoprotein (NP), hemagglutinin (H3, H4, H5), and neuraminidase (N1, N2, N6, N8) in early migrating mallards (Anas platyrhynchos) sampled in Northwest Minnesota during staging and early fall migration in September 2014, 2015, 2017, and 2018. Serologic results were compared to historic and contemporary virus isolation results from these same study sites. The prevalence of antibodies to NP ranged from 60.8−76.1% in hatch-year (HY) birds and from 86.0−92.7% in after-hatch-year (AHY, >1-year-old) mallards indicating a high level of previous infection with IAV early in the fall migration season. Neutralizing antibodies were detected against H3, H4, and H5 in all years as were antibodies to N1, N2, N6, and N8. A high proportion of NP seropositive ducks tested positive for antibodies to multiple HA and NA subtypes, and this was more common in the AHY age class. Antibody prevalence to the HA and NA subtypes included in this study were consistent with the predominance of H4N6 in these populations during all years and reflected a broadening of the antibody response with age. Additional work is needed to document the longevity of these immune responses, if and how they correlate with protection against IAV transmission, infection, and disease, and if, as detected in this study, they adequately describe the true extent of exposure to IAV or specific HA or NA subtypes.
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Affiliation(s)
- David E. Stallknecht
- Southeastern Cooperative Wildlife Disease Study, Department of Population Health, College of Veterinary Medicine, University of Georgia, 589 D.W. Brooks Drive, Athens, GA 30602, USA; (D.E.S.); (A.F.); (D.L.C.); (J.A.C.-B.)
| | - Alinde Fojtik
- Southeastern Cooperative Wildlife Disease Study, Department of Population Health, College of Veterinary Medicine, University of Georgia, 589 D.W. Brooks Drive, Athens, GA 30602, USA; (D.E.S.); (A.F.); (D.L.C.); (J.A.C.-B.)
| | - Deborah L. Carter
- Southeastern Cooperative Wildlife Disease Study, Department of Population Health, College of Veterinary Medicine, University of Georgia, 589 D.W. Brooks Drive, Athens, GA 30602, USA; (D.E.S.); (A.F.); (D.L.C.); (J.A.C.-B.)
| | - Jo Anne Crum-Bradley
- Southeastern Cooperative Wildlife Disease Study, Department of Population Health, College of Veterinary Medicine, University of Georgia, 589 D.W. Brooks Drive, Athens, GA 30602, USA; (D.E.S.); (A.F.); (D.L.C.); (J.A.C.-B.)
- Poultry Diagnostic and Research Center, Department of Population Health, College of Veterinary Medicine, University of Georgia, 953 College Station Road, Athens, GA 30602, USA;
| | - Daniel R. Perez
- Poultry Diagnostic and Research Center, Department of Population Health, College of Veterinary Medicine, University of Georgia, 953 College Station Road, Athens, GA 30602, USA;
| | - Rebecca L. Poulson
- Southeastern Cooperative Wildlife Disease Study, Department of Population Health, College of Veterinary Medicine, University of Georgia, 589 D.W. Brooks Drive, Athens, GA 30602, USA; (D.E.S.); (A.F.); (D.L.C.); (J.A.C.-B.)
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Spackman E, Pantin-Jackwood MJ, Sitaras I, Stephens CB, Suarez DL. Identification of Efficacious Vaccines Against Contemporary North American H7 Avian Influenza Viruses. Avian Dis 2020; 65:113-121. [PMID: 34339130 DOI: 10.1637/aviandiseases-d-20-00109] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/01/2020] [Accepted: 11/05/2020] [Indexed: 11/05/2022]
Abstract
Five vaccines, including four inactivated, whole-virus water-in-oil adjuvanted vaccines and a commercial nonreplicating alphavirus-vectored RNA particle (RP) vaccine were evaluated in chickens for their ability to provide protection against challenge with a recent H7 highly pathogenic avian influenza virus (AIV) from the United States (A/turkey/IN/1403-1/2016 H7N8). One of the inactivated vaccines and the RP vaccine were prepared with A/turkey/IN/16-01571-6/2016 H7N8 low pathogenic AIV (LPAIV; TK/IN/16), which is identical to the challenge virus, except for the proteolytic cleavage site of the hemagglutinin protein. The remaining three inactivated vaccines were prepared with other North American H7 LPAIVs. The hemagglutination inhibition assay was used to evaluate the antigenic relationships among the vaccines and selected recent H7 AIV isolates. All five vaccines provided protection against mortality. The inactivated vaccines reduced virus shedding significantly at 2 and 4 days post challenge compared with sham-vaccinated chickens. In contrast, the RP vaccine did not significantly reduce virus shedding. The inactivated vaccine prepared with TK/IN/16 elicited the highest antibody responses, which suggests it is a strong candidate for use as an antigen for North American H7 AIVs. Antigenic distance calculations showed that the four inactivated vaccine strains and other recent North American H7 isolates are antigenically similar, which suggests that the vaccines evaluated here would be similar enough to provide protection to other North American H7 AIVs. If future H7 outbreaks in poultry warrant vaccination, the field strain can be rapidly evaluated with these antigens and, if adequately related, one of these characterized strains may be used.
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Affiliation(s)
- Erica Spackman
- Exotic and Emerging Avian Viral Diseases Unit, US National Poultry Research Center, USDA-Agricultural Research Service, Athens, GA 30605,
| | - Mary J Pantin-Jackwood
- Exotic and Emerging Avian Viral Diseases Unit, US National Poultry Research Center, USDA-Agricultural Research Service, Athens, GA 30605
| | - Ioannis Sitaras
- Exotic and Emerging Avian Viral Diseases Unit, US National Poultry Research Center, USDA-Agricultural Research Service, Athens, GA 30605
| | - Christopher B Stephens
- Exotic and Emerging Avian Viral Diseases Unit, US National Poultry Research Center, USDA-Agricultural Research Service, Athens, GA 30605
| | - David L Suarez
- Exotic and Emerging Avian Viral Diseases Unit, US National Poultry Research Center, USDA-Agricultural Research Service, Athens, GA 30605
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