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Kowitdamrong E, Anoma S, Loykaew T, Hansasuta P, Bhattarakosol P. ƩS COVID-19 is a rapid high throughput and sensitive one-step quadruplex real-time RT-PCR assay. Sci Rep 2024; 14:20590. [PMID: 39232060 PMCID: PMC11374890 DOI: 10.1038/s41598-024-71705-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2024] [Accepted: 08/30/2024] [Indexed: 09/06/2024] Open
Abstract
Real-time reverse transcription polymerase chain reaction (RT-PCR), a standard method recommended for the diagnosis of coronavirus disease 2019 (COVID-19) requires 2-4 h to get the result. Although antigen test kit (ATK) is used for COVID-19 screening within 15-30 min, the drawback is its limited sensitivity. Hence, a rapid one-step quadruplex real-time RT-PCR assay: termed ƩS COVID-19 targeting ORF1ab, ORF3a, and N genes of SARS-CoV-2; and Avocado sunblotch viroid (ASBVd) as an internal control was developed. Based on strategies including designing high melting temperature primers with short amplicons, applying a fast ramp rate, minimizing hold time, and reducing the range between denaturation and annealing/extension temperatures; the assay could be accomplished within 25 min. The limit of detection of ORF1ab, ORF3a, and N genes were 1.835, 1.310, and 1 copy/reaction, respectively. Validation was performed in 205 combined nasopharyngeal and oropharyngeal swabs. The sensitivity, specificity, positive predictive value, and negative predictive value were 92.8%, 100%, 100%, and 97.1%, respectively with 96.7% accuracy. Cohen's Kappa was 0.93. The newly developed rapid real-time RT-PCR assay was highly sensitive, specific, and fast, making it suitable for use as an alternative method to support laboratory diagnosis of COVID-19 in outpatient and emergency departments.
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Affiliation(s)
- Ekasit Kowitdamrong
- Department of Microbiology, Faculty of Medicine, Chulalongkorn University, Bangkok, 10330, Thailand.
- Center of Excellence in Applied Medical Virology, Chulalongkorn University, Bangkok, 10330, Thailand.
| | - Sasiprapa Anoma
- Department of Microbiology, Faculty of Medicine, Chulalongkorn University, Bangkok, 10330, Thailand
- Center of Excellence in Applied Medical Virology, Chulalongkorn University, Bangkok, 10330, Thailand
| | - Thitiya Loykaew
- Department of Microbiology, King Chulalongkorn Memorial Hospital, Thai Red Cross, Bangkok, 10330, Thailand
| | - Pokrath Hansasuta
- Department of Microbiology, Faculty of Medicine, Chulalongkorn University, Bangkok, 10330, Thailand
| | - Parvapan Bhattarakosol
- Department of Microbiology, Faculty of Medicine, Chulalongkorn University, Bangkok, 10330, Thailand
- Center of Excellence in Applied Medical Virology, Chulalongkorn University, Bangkok, 10330, Thailand
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Prevalence, Genetics, and Evolutionary Properties of Eurasian Avian-Like H1N1 Swine Influenza Viruses in Liaoning. Viruses 2022; 14:v14030643. [PMID: 35337050 PMCID: PMC8953428 DOI: 10.3390/v14030643] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2022] [Revised: 03/10/2022] [Accepted: 03/17/2022] [Indexed: 02/01/2023] Open
Abstract
Swine influenza virus (SIV) is an important zoonosis pathogen. The 2009 pandemic of H1N1 influenza A virus (2009/H1N1) highlighted the importance of the role of pigs as intermediate hosts. Liaoning province, located in northeastern China, has become one of the largest pig-farming areas since 2016. However, the epidemiology and evolutionary properties of SIVs in Liaoning are largely unknown. We performed systematic epidemiological and genetic dynamics surveillance of SIVs in Liaoning province during 2020. In total, 33,195 pig nasal swabs were collected, with an SIV detection rate of 2%. Our analysis revealed that multiple subtypes of SIVs are co-circulating in the pig population in Liaoning, including H1N1, H1N2 and H3N2 SIVs. Furthermore, 24 H1N1 SIVs were confirmed to belong to the EA H1N1 lineage and divided into two genotypes. The two genotypes were both triple reassortant, and the predominant one with polymerase, nucleoprotein (NP), and matrix protein (M) genes originating from 2009/H1N1; hemagglutinin (HA) and neuraminidase (NA) genes originating from EA H1N1; and the nonstructural protein (NS) gene originating from triple reassortant H1N2 (TR H1N2) was detected in Liaoning for the first time. According to our evolutionary analysis, the EA H1N1 virus in Liaoning will undergo further genome variation.
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MacPhillamy I, Young J, Earp F, Khounsy S, Windsor P, Toribio JA, Bush R. Foot-and-mouth disease seroprevalence and reporting behaviours in nine northern provinces in Lao PDR: The current situation and challenges for control. Transbound Emerg Dis 2021; 69:645-659. [PMID: 33559340 DOI: 10.1111/tbed.14031] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/23/2020] [Revised: 01/28/2021] [Accepted: 02/05/2021] [Indexed: 12/18/2022]
Abstract
Foot-and-mouth disease (FMD), caused by the FMD virus (FMDV), is one of the most important of global livestock diseases, impacting even-toed ungulates and distributed mostly in less developed countries that are home to 75% of the human population. A progressive control pathway for FMD (PCP-FMD) was developed to assist countries to better manage FMD risks and progress towards control and eradication. This requires evidence of current FMD seroprevalence to enable the informed risk assessment and the disease control planning required to progress along the initial stages of the PCP-FMD. Despite Laos being an active member of the South East Asia and China FMD campaign, these data have been challenging to obtain. To address this gap, a cross-sectional seroprevalence study in nine northern Lao provinces was conducted in early 2019. The study sampled 602 large ruminants and 19 goats from 30 villages. Overall, the large ruminant seroprevalence was 43.7% (95% CI 39.7-47.8), and 90% of sampled villages had at least one seropositive animal. Large ruminants suspected of having had clinical FMD in their lifetime were found to have an increased risk of being seropositive (odds ratio 1.96, 95% CI 1.06-3.65, p = .03). An examination of current reporting behaviours of farmers, village veterinary workers and district and provincial officials found that individuals were using their discretion as to whether disease events required reporting along the chain of command. This, plus the lack of a computerized reporting system, contributed to a loss of historical data, potentially compromising progression on the PCP-FMD. Laos requires ongoing support from donor agencies to improve the current animal disease surveillance system and implement effective FMD control strategies that can enable progress on the PCP-FMD.
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Affiliation(s)
- Isabel MacPhillamy
- Sydney School of Veterinary Science, University of Sydney, Camden, NSW, Australia
| | - James Young
- Sydney School of Veterinary Science, University of Sydney, Camden, NSW, Australia
| | - Francesca Earp
- Sydney School of Veterinary Science, University of Sydney, Camden, NSW, Australia
| | | | - Peter Windsor
- Sydney School of Veterinary Science, University of Sydney, Camden, NSW, Australia
| | - Jenny-Ann Toribio
- Sydney School of Veterinary Science, University of Sydney, Camden, NSW, Australia
| | - Russell Bush
- Sydney School of Veterinary Science, University of Sydney, Camden, NSW, Australia
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"FastCheck FLI PPR-like"-A Molecular Tool for the Fast Genome Detection of PPRV and Differential Diagnostic Pathogens. Viruses 2020; 12:v12111227. [PMID: 33138260 PMCID: PMC7694148 DOI: 10.3390/v12111227] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2020] [Revised: 10/16/2020] [Accepted: 10/28/2020] [Indexed: 11/17/2022] Open
Abstract
To assist the global eradication of peste des petits ruminants virus (PPRV), a molecular test for the rapid and reliable detection of PPRV was developed which additionally enables the detection of pathogens relevant for differential diagnostics. For this purpose, the necessary time frame of a magnetic bead-based nucleic acid extraction protocol was markedly shortened to 7 min and 13 s. The optimized extraction was run on a BioSprint 15 platform. Furthermore, a high-speed multi-well RT-qPCR for the genome detection of PPRV and additional important pathogens such as Foot-and-mouth disease virus, Parapoxvirus ovis, Goatpox virus, and Mycoplasma capricolum subsp. capripneumoniae was established and combined with suitable internal control assays. The here-described qPCR is based on a lyophilized master mix and takes only around 30 to 40 min. Several qPCR cyclers were evaluated regarding their suitability for fast-cycling approaches and for their diagnostic performance in a high-speed RT-qPCR. The final evaluation was conducted on the BioRad CFX96 and also on a portable Liberty16 qPCR cycler. The new molecular test designated as "FastCheckFLI PPR-like", which is based on rapid nucleic acid extraction and high-speed RT-qPCR, delivered reliable results in less than one hour, allowing its use also in a pen-side scenario.
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Singanallur NB, Nampanya S, MacPhillamy I, Soukvilay V, Keokhamphet C, Bush RD, Khounsy S, Dhand NK, Windsor P, Vosloo W. Serological Evidence of Foot-and-Mouth Disease Infection in Goats in Lao PDR. Front Vet Sci 2020; 7:544. [PMID: 32974404 PMCID: PMC7469533 DOI: 10.3389/fvets.2020.00544] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/11/2020] [Accepted: 07/13/2020] [Indexed: 11/13/2022] Open
Abstract
Foot and Mouth Disease (FMD) causes significant economic loss in Lao PDR (Laos) and perpetuates the cycle of smallholder poverty mainly through large ruminant productivity losses, increased costs of production and potential limitations to market access for trade in livestock and their products. Goats are emerging as an important livestock species in Laos, and there is an increasing trend in the number of households with goats, often farmed alongside cattle and buffalo. Although an FMD susceptible species, very little is known about the role of goats in the epidemiology of the disease in Laos. A cross-sectional seroprevalence study was conducted by detecting antibodies to the non-structural proteins (NSP), an indication of a previous infection, and serotype-specific structural proteins (SP) that could be due to vaccination or infection. The study commenced in late 2017 and sera were collected from 591 goats in 26 villages of northern, central and southern Laos. For a subset of sera samples, paired oral swab samples were also collected by a simple random sampling method to detect the prevalence of FMD virus infection at the time of collection. The NSP seroprevalence in the provinces of Borkeo and Xayabouli in the north was 42 and 8%, respectively and in Khammoune in the center, it was 20%. In the other five provinces, Luang Namtha and Luang Prabang (northern Laos), Xieng Khouang and Savannaket (central Laos), and Champasak (southern Laos), the seroprevalence was close to zero. The multivariable analysis indicated that age (p < 0.001) was positively associated with animal-level seropositivity and males were less likely to be seropositive than females (OR: 0.29; 95%CI: 0.10–0.83; p = 0.017). Continued sero-surveillance for FMD in goats is recommended to improve our understanding of their role in the epidemiology of FMD in the region and to extend support to FMD control decisions, particularly regarding vaccination.
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Affiliation(s)
- Nagendrakumar B Singanallur
- Australian Centre for Disease Preparedness (Formerly Australian Animal Health Laboratory), CSIRO-Health and Biosecurity, Geelong, VIC, Australia
| | - Sonevilay Nampanya
- Sydney School of Veterinary Science, University of Sydney, Camden, NSW, Australia.,National Animal Health Laboratory, Department of Livestock and Fisheries, Kounta, Vientiane, Laos
| | - Isabel MacPhillamy
- Sydney School of Veterinary Science, University of Sydney, Camden, NSW, Australia
| | - Vilayvanh Soukvilay
- National Animal Health Laboratory, Department of Livestock and Fisheries, Kounta, Vientiane, Laos
| | - Chattouphone Keokhamphet
- National Animal Health Laboratory, Department of Livestock and Fisheries, Kounta, Vientiane, Laos
| | - Russell D Bush
- Sydney School of Veterinary Science, University of Sydney, Camden, NSW, Australia
| | - Syseng Khounsy
- National Animal Health Laboratory, Department of Livestock and Fisheries, Kounta, Vientiane, Laos
| | - Navneet K Dhand
- Sydney School of Veterinary Science, University of Sydney, Camden, NSW, Australia
| | - Peter Windsor
- Sydney School of Veterinary Science, University of Sydney, Camden, NSW, Australia
| | - Wilna Vosloo
- Australian Centre for Disease Preparedness (Formerly Australian Animal Health Laboratory), CSIRO-Health and Biosecurity, Geelong, VIC, Australia
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Shi X, Liu X, Wang Q, Das A, Ma G, Xu L, Sun Q, Peddireddi L, Jia W, Liu Y, Anderson G, Bai J, Shi J. A multiplex real-time PCR panel assay for simultaneous detection and differentiation of 12 common swine viruses. J Virol Methods 2016; 236:258-265. [PMID: 27506582 PMCID: PMC7119729 DOI: 10.1016/j.jviromet.2016.08.005] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/05/2016] [Revised: 08/04/2016] [Accepted: 08/05/2016] [Indexed: 11/17/2022]
Abstract
A multiplex real-time PCR panel assay was developed for the detection of 12 major swine pathogens including VSV-IN, VSV-NJ, SVDV, CSFV, ASFV, FMDV, PCV2, PPV, PRV, PRRSV-NA, PRRSV-EU;. The panel assay was 100% specific against common swine pathogens;. Limits of detection of the assay were ranged 1–16 copies per reaction;. Detection sensitivity was not reduced by multiplexing three targets into one PCR reaction.
Mixed infection with different pathogens is common in swine production systems especially under intensive production conditions. Quick and accurate detection and differentiation of different pathogens are necessary for epidemiological surveillance, disease management and import and export controls. In this study, we developed and validated a panel of multiplex real-time PCR/RT-PCR assays composed of four subpanels, each detects three common swine pathogens. The panel detects 12 viruses or viral serotypes, namely, VSV-IN, VSV-NJ, SVDV, CSFV, ASFV, FMDV, PCV2, PPV, PRV, PRRSV-NA, PRRSV-EU and SIV. Correlation coefficients (R2) and PCR amplification efficiencies of all singular and triplex real-time PCR reactions are within the acceptable range. Comparison between singular and triplex real-time PCR assays of each subpanel indicates that there is no significant interference on assay sensitivities caused by multiplexing. Specificity tests on 226 target clinical samples or 4 viral strains and 91 non-target clinical samples revealed that the real-time PCR panel is 100% specific, and there is no cross amplification observed. The limit of detection of each triplex real-time PCR is less than 10 copies per reaction for DNA, and less than 16 copies per reaction for RNA viruses. The newly developed multiplex real-time PCR panel also detected different combinations of co-infections as confirmed by other means of detections.
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Affiliation(s)
- Xiju Shi
- Beijing Entry-Exit Inspection & Quarantine Bureau, Beijing, China; Department of Anatomy and Physiology, College of Veterinary Medicine, Kansas State University, Manhattan, KS, United States
| | - Xuming Liu
- Kansas State Veterinary Diagnostic Laboratory, College of Veterinary Medicine, Kansas State University, Manhattan, KS, United States
| | - Qin Wang
- China Institute of Veterinary Drug Control, Beijing, China
| | - Amaresh Das
- Foreign Animal Diseases Diagnostic Laboratory, NVSL, APHIS, USDA, Greenport, NY, United States
| | - Guiping Ma
- Beijing Entry-Exit Inspection & Quarantine Bureau, Beijing, China
| | - Lu Xu
- China Institute of Veterinary Drug Control, Beijing, China
| | - Qing Sun
- Kansas State Veterinary Diagnostic Laboratory, College of Veterinary Medicine, Kansas State University, Manhattan, KS, United States
| | - Lalitha Peddireddi
- Kansas State Veterinary Diagnostic Laboratory, College of Veterinary Medicine, Kansas State University, Manhattan, KS, United States
| | - Wei Jia
- Foreign Animal Diseases Diagnostic Laboratory, NVSL, APHIS, USDA, Greenport, NY, United States
| | - Yanhua Liu
- Beijing Entry-Exit Inspection & Quarantine Bureau, Beijing, China
| | - Gary Anderson
- Kansas State Veterinary Diagnostic Laboratory, College of Veterinary Medicine, Kansas State University, Manhattan, KS, United States
| | - Jianfa Bai
- Kansas State Veterinary Diagnostic Laboratory, College of Veterinary Medicine, Kansas State University, Manhattan, KS, United States.
| | - Jishu Shi
- Department of Anatomy and Physiology, College of Veterinary Medicine, Kansas State University, Manhattan, KS, United States.
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Knight-Jones TJD, Robinson L, Charleston B, Rodriguez LL, Gay CG, Sumption KJ, Vosloo W. Global Foot-and-Mouth Disease Research Update and Gap Analysis: 4 - Diagnostics. Transbound Emerg Dis 2016; 63 Suppl 1:42-8. [DOI: 10.1111/tbed.12523] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 04/13/2016] [Indexed: 11/30/2022]
Affiliation(s)
| | | | | | - L. L. Rodriguez
- Plum Island Animal Disease Center; ARS; USDA; Greenport NY USA
| | - C. G. Gay
- Agricultural Research Service; USDA; National Program 103-Animal Health; Beltsville MD USA
| | - K. J. Sumption
- European Commission for the Control of FMD (EuFMD); FAO; Rome Italy
| | - W. Vosloo
- Australian Animal Health Laboratory; CSIRO-Biosecurity Flagship; Geelong VIC Australia
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Lung O, Pasick J, Fisher M, Buchanan C, Erickson A, Ambagala A. Insulated Isothermal Reverse Transcriptase PCR (iiRT-PCR) for Rapid and Sensitive Detection of Classical Swine Fever Virus. Transbound Emerg Dis 2015; 63:e395-402. [PMID: 25644051 PMCID: PMC7169785 DOI: 10.1111/tbed.12318] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2014] [Indexed: 12/28/2022]
Abstract
Classical swine fever (CSF) is an OIE‐listed disease that can have a severe impact on the swine industry. User‐friendly, sensitive, rapid diagnostic tests that utilize low‐cost field‐deployable instruments for CSF diagnosis can be useful for disease surveillance and outbreak monitoring. In this study, we describe validation of a new probe‐based insulated isothermal reverse transcriptase PCR (iiRT‐PCR) assay for rapid detection of classical swine fever virus (CSFV) on a compact, user‐friendly device (POCKIT™ Nucleic Acid Analyzer) that does not need data interpretation by the user. The assay accurately detected CSFV RNA from a diverse panel of 33 CSFV strains representing all three genotypes plus an additional in vitro‐transcribed RNA from cloned sequences representing a vaccine strain. No cross‐reactivity was observed with a panel of 18 viruses associated with livestock including eight other pestivirus strains (bovine viral diarrhoea virus type 1 and type 2, border disease virus, HoBi atypical pestivirus), African swine fever virus, swine vesicular disease virus, swine influenza virus, porcine respiratory and reproductive syndrome virus, porcine circovirus 1, porcine circovirus 2, porcine respiratory coronavirus, vesicular exanthema of swine virus, bovine herpes virus type 1 and vesicular stomatitis virus. The iiRT‐PCR assay accurately detected CSFV as early as 2 days post‐inoculation in RNA extracted from serum samples of experimentally infected pigs, before appearance of clinical signs. The limit of detection (LOD95%) calculated by probit regression analysis was 23 copies per reaction. The assay has a sample to answer turnaround time of less than an hour using extracted RNA or diluted or low volume of neat serum. The user‐friendly, compact device that automatically analyses and displays results could potentially be a useful tool for surveillance and monitoring of CSF in a disease outbreak.
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Affiliation(s)
- O Lung
- National Centres for Animal Disease, Lethbridge Laboratory, Canadian Food Inspection Agency, Lethbridge, AB, Canada
| | - J Pasick
- National Centres for Animal Disease, Winnipeg Laboratory, Canadian Food Inspection Agency, Winnipeg, MB, Canada
| | - M Fisher
- National Centres for Animal Disease, Winnipeg Laboratory, Canadian Food Inspection Agency, Winnipeg, MB, Canada
| | - C Buchanan
- National Centres for Animal Disease, Lethbridge Laboratory, Canadian Food Inspection Agency, Lethbridge, AB, Canada
| | - A Erickson
- National Centres for Animal Disease, Lethbridge Laboratory, Canadian Food Inspection Agency, Lethbridge, AB, Canada
| | - A Ambagala
- National Centres for Animal Disease, Lethbridge Laboratory, Canadian Food Inspection Agency, Lethbridge, AB, Canada
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Gopinath SC, Tang TH, Citartan M, Chen Y, Lakshmipriya T. Current aspects in immunosensors. Biosens Bioelectron 2014; 57:292-302. [DOI: 10.1016/j.bios.2014.02.029] [Citation(s) in RCA: 67] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2013] [Revised: 02/11/2014] [Accepted: 02/11/2014] [Indexed: 02/08/2023]
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Rapid genome detection of Schmallenberg virus and bovine viral diarrhea virus by use of isothermal amplification methods and high-speed real-time reverse transcriptase PCR. J Clin Microbiol 2014; 52:1883-92. [PMID: 24648561 DOI: 10.1128/jcm.00167-14] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022] Open
Abstract
Over the past few years, there has been an increasing demand for rapid and simple diagnostic tools that can be applied outside centralized laboratories by using transportable devices. In veterinary medicine, such mobile test systems would circumvent barriers associated with the transportation of samples and significantly reduce the time to diagnose important infectious animal diseases. Among a wide range of available technologies, high-speed real-time reverse transcriptase quantitative PCR (RT-qPCR) and the two isothermal amplification techniques loop-mediated isothermal amplification (LAMP) and recombinase polymerase amplification (RPA) represent three promising candidates for integration into mobile pen-side tests. The aim of this study was to investigate the performance of these amplification strategies and to evaluate their suitability for field application. In order to enable a valid comparison, novel pathogen-specific assays have been developed for the detection of Schmallenberg virus and bovine viral diarrhea virus. The newly developed assays were evaluated in comparison with established standard RT-qPCR using samples from experimentally or field-infected animals. Even though all assays allowed detection of the target virus in less than 30 min, major differences were revealed concerning sensitivity, specificity, robustness, testing time, and complexity of assay design. These findings indicated that the success of an assay will depend on the integrated amplification technology. Therefore, the application-specific pros and cons of each method that were identified during this study provide very valuable insights for future development and optimization of pen-side tests.
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Tian M, Tian Y, Li Y, Lu H, Li X, Li C, Xue F, Jin N. Microarray multiplex assay for the simultaneous detection and discrimination of influenza a and influenza B viruses. Indian J Microbiol 2013; 54:211-7. [PMID: 25320424 DOI: 10.1007/s12088-013-0432-x] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/09/2013] [Accepted: 10/13/2013] [Indexed: 10/26/2022] Open
Abstract
In this study, we present a microarray approach for the typing of influenza A and B viruses, and the subtyping of H1 and H3 subtypes. We designed four pairs of specific multiplex RT-PCR primers and eight specific oligonucleotide probes and prepared microarrays to identify the specific subtype of influenza virus. Through amplification and fluorescent marking of the multiplex RT-PCR products on the M gene of influenza A and B viruses and the HA gene of subtypes H1 and H3, the PCR products were hybridized with the microarray, and the results were analyzed using a microarray scanner. The results demonstrate that the chip developed by our research institute can detect influenza A and B viruses specifically and identify the subtypes H1 and H3 at a minimum concentration of 1 × 10(2) copies/μL of viral RNA. We tested 35 clinical samples and our results were identical to other fluorescent methods. The microarray approach developed in this study provides a reliable method for the monitoring and testing of seasonal influenza.
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Affiliation(s)
- Mingyao Tian
- College of Animal Science and Veterinary Medicine, Jilin University, Changchun, 130062 People's Republic of China ; Institute of Military Veterinary, Academy of Military Medical Sciences of PLA, Liuying West Road 666, Changchun, 130122 People's Republic of China
| | - Yufei Tian
- College of Animal Science and Veterinary Medicine, Jilin University, Changchun, 130062 People's Republic of China ; Institute of Military Veterinary, Academy of Military Medical Sciences of PLA, Liuying West Road 666, Changchun, 130122 People's Republic of China
| | - Yang Li
- Department of Respiration, The First Hospital of Jilin University, Changchun, 130021 People's Republic of China
| | - Huijun Lu
- Institute of Military Veterinary, Academy of Military Medical Sciences of PLA, Liuying West Road 666, Changchun, 130122 People's Republic of China
| | - Xiao Li
- Institute of Military Veterinary, Academy of Military Medical Sciences of PLA, Liuying West Road 666, Changchun, 130122 People's Republic of China
| | - Chang Li
- Institute of Military Veterinary, Academy of Military Medical Sciences of PLA, Liuying West Road 666, Changchun, 130122 People's Republic of China
| | - Fei Xue
- Institute of Military Veterinary, Academy of Military Medical Sciences of PLA, Liuying West Road 666, Changchun, 130122 People's Republic of China
| | - Ningyi Jin
- Institute of Military Veterinary, Academy of Military Medical Sciences of PLA, Liuying West Road 666, Changchun, 130122 People's Republic of China
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