Advances in viral disease diagnostic and molecular epidemiological technologies

References

• Lubroth J, Rweyemamu MM, Viljoen GJ et al. Veterinary vaccines and their use in developing countries. Rev. Sci. Tech.26, 179–201 (2007).
   PubMedGoogle Scholar
• Moennig V, Houe H, Lindberg A. BVD control in Europe: current status and perspectives. Anim. Health Res. Rev.6, 63–74 (2005).
   PubMedGoogle Scholar
• Schwartz-Cornil I, Mertens PP, Contreras V et al. Bluetongue virus: virology, pathogenesis and immunity. Vet. Res.39(5), 46–53 (2008).
   PubMed Web of Science ®Google Scholar
• Ackermann M, Engels M. Pro and contra IBR-eradication. Vet. Microbiol.113, 293–302 (2006).
   PubMed Web of Science ®Google Scholar
• Larsen LE. Bovine respiratory syncytial virus (BRSV): a review. Acta Vet. Scand.41, 1–24 (2000).
   PubMed Web of Science ®Google Scholar
• Viljoen GJ, Nel LH, Crowther JR. Molecular Diagnostic PCR Handbook. Springer, Dordrecht, The Netherlands (2005).
   Google Scholar
• Belák S, Thorén P. Molecular diagnosis of animal diseases: some experiences over the past decade. Expert Rev. Mol. Diagn.1, 434–443 (2001).
   PubMedGoogle Scholar
• Belák S. The molecular diagnosis of porcine viral diseases: a review. Acta Vet. Hung.53, 113–124 (2005).
   PubMedGoogle Scholar
• Belák S. Experiences of an OIE Collaborating Centre in molecular diagnosis of transboundary animal diseases: a review. Dev. Biol. (Basel)128, 103–112 (2007).
   PubMedGoogle Scholar
• Belák S. Molecular diagnosis of viral diseases, present trends and future aspects: a view from the OIE Collaborating Centre for the Application of Polymerase Chain Reaction Methods for Diagnosis of Viral Diseases in Veterinary Medicine. Vaccine25, 5444–5452 (2007).
   PubMedGoogle Scholar
• Belák S, Hakhverdyan M. Recent achievements and trends in the molecular diagnosis of bovine viral diseases – a view from the “OIE Collaborating Centre for the Application of Polymerase Chain Reaction Methods for the Diagnosis of Viral Diseases in Veterinary Medicine”. Dtsch Tierärztl. Wochenschr.113, 129–133 (2006).
   PubMedGoogle Scholar
• McKillen J, Hjertner B, Millar A et al. Molecular beacon real-time PCR detection of swine viruses. J. Virol. Methods140, 155–165 (2006).
   PubMedGoogle Scholar
• Segalés J, Calsamiglia M, Olvera A, Sibila M, Badiella L, Domingo M. Quantification of porcine circovirus type 2 (PCV2) DNA in serum and tonsillar, nasal, tracheo–bronchial, urinary and faecal swabs of pigs with and without postweaning multisystemic wasting syndrome (PMWS). Vet. Microbiol.111, 223–229 (2005).
   PubMedGoogle Scholar
• Rasmussen T, Uttenthal Å, de Stricker K, Belák S, Storgaard T. Development of a novel quantitative real-time PCR assay for the simultaneous detection of all serotypes of foot-and-mouth disease virus. Arch. Virol.148, 2005–2021 (2003).
   PubMedGoogle Scholar
• Hakhverdyan M, Rasmussen TB, Thorén P, Uttenthal Å, Belák S. Development of a real-time PCR assay based on primer-probe energy transfer for the detection of swine vesicular disease virus. Arch. Virol.151, 2365–2376 (2006).
   PubMedGoogle Scholar
• Kiss I, Germán P, Sámi L et al. Application of LUX (light upon extension) flourogenic primer utilizing real-time RT-PCR for the rapid detection of avian influenza viruses. Acta Vet. Hung.54, 525–533 (2006).
   PubMed Web of Science ®Google Scholar
• Viljoen GJ, Romito M, Kara PD. Current and future developments in nucleic acid based diagnostics. In: Proceedings of the International Symposium on Gene-based Technologies for Improving Animal Production & Health in Developing Countries. Makkar HPS, Viljoen GJ (Eds). Springer, Dordrecht, The Netherlands, 211–244 (2005).
   Google Scholar
• Crowther JR, Unger H, Viljoen GJ. Aspects of kit validation for tests used for the diagnosis and surveillance of livestock diseases: producer and end-user responsibilities. Rev. Sci. Tech.25, 913–935 (2006).
   PubMed Web of Science ®Google Scholar
• Hoffmann E, Stech J, Guan Y, Webster RG, Perez DR. Universal primer set for the full-length amplification of all influenza A viruses. Arch. Virol.146, 2275–2289 (2001).
   PubMed Web of Science ®Google Scholar
• Agüero M, Fernández J, Romero LJ et al. A highly sensitive and specific gel-based multiplex PCR assay for the simultaneous and differential diagnosis of African swine fever and classical swine fever in clinical samples. Vet. Res.35, 551–563 (2004).
   PubMed Web of Science ®Google Scholar
• Farkas T, Antal M, Sámi L et al. Rapid and simultaneous detection of avian influenza and Newcastle disease viruses by duplex polymerase chain reaction assay. Zoonoses Public Health54, 38–43 (2007).
   PubMedGoogle Scholar
• Fernández J, Agüero M, Romero L et al. Rapid and differential diagnosis of foot-and-mouth disease (FMD), swine vesicular disease (SVD) and vesicular stomatitis (VS) by a new multiplex RT-PCR assay, analysing clinical samples. J. Virol. Methods147, 301–311 (2008).
   PubMedGoogle Scholar
• Sámi L, Ursu K, McKillen J, Kecskeméti S, Belák S, Kiss I. Simultaneous detection of three porcine viruses by multiplex PCR. Acta Vet. Hung.55, 267–276 (2007).
   PubMedGoogle Scholar
• Osawa Y, Motoki H, Matsuo T, Horiuchi M, Sode K, Ikebukuro K. Zinc finger protein-based detection system of PCR products for pathogen diagnosis, Nucleic Acids Symp. Ser.52, 23–24 (2008).
   Google Scholar
• Gall A, Hoffmann B, Harder T, Grund C, Hoeper D, Beer M. Design and validation of a microarray for detection, haemagglutinin subtyping and pathotyping of avian influenza viruses. J. Clin. Microbiol.47(2), 327–334 (2009)
   PubMed Web of Science ®Google Scholar
• Müller R, Ditzen A, Hille K et al. Detection of herpesvirus and adenovirus co-infections with diagnostic DNA-microarrays. J. Virol. Methods155, 161–166 (2009).
   PubMedGoogle Scholar
• Jun KR, Woo YD, Sung H, Kim MN. Detection of human metapneumovirus by direct antigen test and shell vial cultures using immunofluorescent antibody staining. J. Virol. Methods152, 109–111 (2008).
   PubMedGoogle Scholar
• Kim KH, Lee JH, Sun DS et al. Detection and clinical manifestations of twelve respiratory viruses in hospitalized children with acute lower respiratory tract infections: focus on human metapneumovirus, human rhinovirus and human coronavirus. Korean J. Pediatrics51(8), 834–841 (2008).
   Google Scholar
• Roh KH, Kim J, Nam MH et al. Comparison of the seeplex reverse transcription PCR assay with the R-mix viral culture and immunofluorescence techniques for detection of eight respiratory viruses. Annals Clin. Laborat. Sci.38(1), 41–46 (2008).
   PubMedGoogle Scholar
• Sung H, Park SJ, Woo YD, Choi BH, Kim MN. Evaluation of seeplex RV detection kit for detecting rhinovirus, human metapneumovirus, and coronavirus. Korean J. Lab. Med.28, 109–117 (2008).
   PubMedGoogle Scholar
• Yoo SJ, Kuak EY, Shin BM. Detection of 12 respiratory viruses with two-set multiplex reverse transcriptase-PCR assay using a dual priming oligonucleotide system. Korean J. Lab. Med.27, 420–427 (2007).
   PubMedGoogle Scholar
• Dunbar SA. Applications of Luminex xMAP technology for rapid, high-throughput multiplexed nucleic acid detection. Clinica Chim. Acta363, 71–82 (2006).
   PubMed Web of Science ®Google Scholar
• de Jager W and Rijkers GT. Solid-phase and bead-based cytokine immunoassay: a comparison. Methods38, 294–303 (2006).
   PubMed Web of Science ®Google Scholar
• Mahony J, Chong S, Merante F et al. Development of a respiratory virus panel test for detection of twenty human respiratory viruses by use of multiplex PCR and a fluid microbead-based assay. J. Clin. Microbiol.45(9), 2965–2970 (2007).
   PubMed Web of Science ®Google Scholar
• Blyn LB, Hall TA, Libby B et al. Rapid detection and molecular serotyping of adenovirus using PCR followed by electrospray ionization mass spectrometry. J. Clin. Microbiol.46(2), 644–651 (2008).
   PubMed Web of Science ®Google Scholar
• Ecker DJ, Drader JJ, Gutierrez J et al. The Ibis T5000 Universal Biosensor: an automated platform for pathogen identification and strain typing. JALA6(11), 341–351 (2006).
   Google Scholar
• Eshoo MW, Whitehouse CA, Zoll ST et al. Direct broad-range detection of alphaviruses in mosquito extracts. Virology368(2). 286–295 (2007).
   PubMed Web of Science ®Google Scholar
• Sampath R, Hall TA, Massire C et al. Rapid identification of emerging infectious agents using PCR and electrospray ionization mass spectrometry. Ann. NY Acad. Sci.1102, 109–120 (2007>).
   Google Scholar
• Sampath R, Russell KL, Massire C et al. Global surveillance of emerging influenza virus genotypes by mass spectrometry. PLoS ONE2(5), e489 (2007).
   PubMed Web of Science ®Google Scholar
• Blomström AL, Hakhverdyan M, Reid SM et al. A one-step reverse transcriptase loop-mediated isothermal amplification assay for simple and rapid detection of swine vesicular disease virus. J. Virol. Methods147, 188–193 (2008).
   PubMedGoogle Scholar
• Hjertner B, Meehan B, McKillen J, McNeilly F, Belák S. Development of invader squared assay for the detection of African swine fever DNA and comparison to PCR based assays. J. Virol. Methods124, 1–10 (2005).
   PubMedGoogle Scholar
• Sanchez JA, Pierce KE, Rice JE, Wangh LJ. Linear-after-the-exponential (LATE)-PCR: an advanced method of asymmetric PCR and its uses in quantitative real-time analysis, Proc. Natl Acad. Sci. USA101, 1933–1938 (2004).
   PubMedGoogle Scholar
• Stadejek T, Stankevicius A, Storgaard T et al. Identification of radically different variants of porcine reproductive and respiratory syndrome virus in Eastern Europe: towards a common ancestor for European and American viruses. J. Gen. Virol.83, 1861–1873 (2002).
   PubMedGoogle Scholar
• Ståhl K, Kampa J, Alenius S et al. Natural infection of cattle with an atypical ‘HoBi’-like pestivirus – implications for BVD control and for the safety of biological products. Vet. Res.38, 517–523 (2007).
   PubMed Web of Science ®Google Scholar
• Ståhl K, Kampa J, Baule C et al. Molecular epidemiology of bovine viral diarrhoea during the final phase of the Swedish BVD-eradication programme. Prev. Vet. Med.72, 103–108 (2005).
   PubMedGoogle Scholar
• Vilcek S, Belák, S. Classical swine fever virus: discrimination between vaccine strains and European field viruses by restriction endonuclease cleavage of PCR amplicons. Acta Vet. Scand.39, 395–400 (1998).
   PubMedGoogle Scholar
• Bálint A, Baule C, Pálfi V, Belák S. Retrospective genome analysis of a live vaccine strain of bovine viral diarrhoea virus. Vet. Res.36, 89–99 (2005).
   PubMedGoogle Scholar
• Belák S, Thorén P. Validation and quality control of polymerase chain methods used for the diagnosis of infectious diseases. In: Office International des Epizooties (OIE), Manual of Diagnostic Tests and Vaccines for Terrestrial Animals (Mammals, Birds and Bees) (Fifth Edition). Office International des Epizooties (OIE), Paris, France, 30–36 (2004).
   Google Scholar
• Banér J, Gyarmati P, Yacoub A et al. Microarray-based molecular detection of foot-and-mouth disease, vesicular stomatitis and swine vesicular disease viruses, using padlock probes. J. Virol. Methods143, 200–206 (2005).
   Google Scholar
• Gyarmati P, Conze T, Zohari S et al. Simultaneous genotyping of all hemagglutinin and neuraminidase subtypes of avian influenza viruses using padlock probes. J. Clin. Microbiol.46, 1747–1751 (2008).
   PubMedGoogle Scholar
• Gyarmati P, Mohammed N, Norder, H, Blomberg, J, Belák S, Widén F. Universal detection of hepatitis E virus by two real-time PCR assays: TaqMan and primer-probe energy transfer. J. Virol. Methods146, 226–235 (2007).
   PubMed Web of Science ®Google Scholar
• Yacoub A, Kiss I, Zohari S et al. A simple assay for rapid subtyping and pathotyping of avian influenza viruses. J. Virol. Methods156, 157–161 (2009).
   PubMedGoogle Scholar
• Nordengrahn A, Gustafsdottir SM, Ebert K et al. Evaluation of a novel proximity ligation assay for the sensitive and rapid detection of foot-and-mouth disease virus. Vet. Microbiol.127, 227–236 (2008).
   PubMedGoogle Scholar
• LeBlanc N, Gantelius J, Schwenk J et al. Development of a magnetic bead microarray for the simultaneous and simple detection of four pestiviruses. J. Virol. Methods155(1), 1–9 (2009).
   PubMedGoogle Scholar
• Liu L, Kampa J, Belák S, Baule C. Virus recovery and full-length sequence analysis of atypical bovine pestivirus Th/04 KhonKaen. Vet. Microbiol. DOI: 10.1016/j.vetmic.2009.03.006 (2009) (Epub ahead of print).
   Google Scholar
• Williams R, Peisajovich SG, Miller OJ, Magdassi S, Tawfik DS, Griffiths AD. Amplification of complex gene libraries by emulsion PCR. Nat. Methods3, 545–550 (2006).
   PubMed Web of Science ®Google Scholar
• Xia H, Liu L, Wahlberg N, Baule C, Belák S. Molecular phylogenetic analysis of bovine viral diarrhoea virus: a Bayesian approach. Virus Res.130, 53–62 (2007).
   PubMedGoogle Scholar
• Chan CH, Lin KL, Chan Y et al. Amplification of the entire genome of influenza A virus H1N1 and H3N2 subtypes by reverse-transcription polymerase chain reaction. J. Virol. Methods136, 38–43 (2006).
   PubMed Web of Science ®Google Scholar
• Spatz SJ, Rue CA. Sequence determination of a mildly virulent strain (CU-2) of Gallid herpesvirus type 2 using 454 pyrosequencing. Virus Genes36, 479–489 (2008).
   PubMedGoogle Scholar
• Allander T, Tammi MT, Eriksson M, Bjerkner A, Tiveljung-Lindell A, Andersson B. Cloning of a human parvovirus by molecular screening of respiratory tract samples. Proc. Natl Acad. Sci. USA102, 12891–12896; erratum 102, 15712 (2005).
   PubMed Web of Science ®Google Scholar
• Delwart EL. Viral metagenomics. Rev. Med. Virol.17, 115–131 (2007).
   PubMed Web of Science ®Google Scholar