A comparative amplification of five different genomic regions on Coxsackie A and B viruses. Implications in clinical diagnostics

Molecular and Cellular Probes

Volumn 19, Issue 2, 2005, Pages 127-135

  Bolanaki, Eugenia ^a   Kottaridi, Christine ^b   Markoulatos, Panayotis ^b   Margaritis, Lukas ^a   Katsorchis, Theodoros ^a  

^a UNIVERSITY OF ATHENS   (Greece)

^b UNIVERSITY OF THESSALY   (Greece)

Author keywords

Enteroviruses; Molecular detection; RT PCR

Indexed keywords

ACCURACY; ARTICLE; CONTROLLED STUDY; COXSACKIE VIRUS A; COXSACKIE VIRUS B; GENE AMPLIFICATION; GENE SEQUENCE; GENOMIC FRAGMENT; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; RESTRICTION FRAGMENT LENGTH POLYMORPHISM; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; SENSITIVITY AND SPECIFICITY; SEQUENCE ANALYSIS; VIRUS DETECTION; VIRUS ISOLATION; VIRUS STRAIN; VIRUS TYPING;

5' UNTRANSLATED REGIONS; ANIMALS; CELL LINE; CERCOPITHECUS AETHIOPS; COXSACKIEVIRUS INFECTIONS; DNA PRIMERS; ENTEROVIRUS A, HUMAN; ENTEROVIRUS B, HUMAN; ENTEROVIRUS C, HUMAN; FECES; HUMANS; MICE; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; RNA, VIRAL; SEQUENCE ANALYSIS;

CHICKEN ANEMIA VIRUS; ENTEROVIRUS;

EID: 12944324722     PISSN: 08908508     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.mcp.2004.10.006     Document Type: Article

References (55)

1. A. Arola, J. Santti, O. Ruuskanen, P. Halonen, and T. Hyypia Identification of enteroviruses in clinical specimens by competitive PCR followed by genetic typing using sequence analysis J Clin Microbiol 34 1996 313 318
2. J.L. Bailly, D. Brosson, C. Archimbaud, M. Chambon, C. Henquell, and H. Peigue-Lafeuille Genetic diversity of echovirus 30 during a meningitis outbreak, demonstrated by direct molecular typing from cerebrospinal fluid J Med Virol 68 2002 558 567
3. T. Bourlet, V. Caro, S. Minjolle, I. Jusselin, B. Pozzeto, and R. Crainic New PCR test that recognizes all human prototypes of enterovirus: application for clinical diagnosis J Clin Microbiol 41 2003 1750 1752
4. B. Brown, M.S. Oberste, K. Maher, and M.A. Pallansch Complete genomic sequencing shows that polioviruses and members of human enterovirus species C are closely related in the noncapsid coding region J Virol 77 2003 8973 8984
5. V. Caro, S. Guillot, F. Delpeyroux, and R. Crainic Molecular strategy for 'serotyping' of human enteroviruses J Gen Virol 82 2001 79 91
6. I. Casas, L. Powell, P.E. Klapper, and G.M. Cleator New method for the extraction of viral RNA and DNA from cerebrospinal fluid for for use in the polymerase chain reaction assay J Virol Methods 53 1995 25 36
7. I. Casas, G.F. Palacios, G. Trallero, D. Cisterna, M.C. Freire, and A. Tenorio Molecular characterization of human enteroviruses in clinical samples: comparison between VP2, VP1, and RNA polymerase regions using RT nested PCR assays and direct sequencing of products J Med Virol 65 2001 138 148
8. Committee on the Enteroviruses The enteroviruses Am J Public Health 47 1957 1556 1566
9. J.W. Drake, and J.J. Holland Mutation rates among RNA viruses Proc Natl Acad Sci USA 96 1999 13910 13913
10. M.A. Drebot, C.Y. Nguan, J.J. Campbell, S.H. Lee, and K.R. Forward Molecular epidemiology of enterovirus outbreaks in Canada during 1991-1992: identification of echovirus 30 and coxsackievirus B1 strains by amplicon sequencing J Med Virol 44 1994 340 347
11. A. Georgopoulou, P. Markoulatos, N. Spyrou, N. Vakalis, and N.C. Vamvakopoulos Improved genotyping vaccine and wild-type length polymorphism analysis: clinical diagnostic implications J Clin Microbiol 38 2000 4337 4342
12. A. Georgopoulou, P. Markoulatos, N. Spyrou, N. Vakalis, and N.C. Vamvakopoulos High sequence divergence in the 5′ non-coding region of reference coxsackie B and ECHO viral strains and clinical isolates revealed by restriction fragment length polymorphism analysis Mol Cell Probes 15 2001 317 327
13. M. Gorgievski-Hrisoho, J.D. Schumacher, and N. Vilimonovic Detection by PCR of enteroviruses in cerebrospinal fluid during a summer outbreak of aseptic meningitis in Switzerland J Clin Microbiol 36 1998 2408 2412
14. T. Hyypiä, C. Horsnell, M. Maaronen, M. Khan, N. Kalkkinen, and P. Auvinen A distinct picornavirus group identified by sequence analysis Proc Natl Acad Sci USA 89 1992 8847 8851
15. T. Hyypiä, and G. Stanway Biology of coxsackie A viruses Adv Virus Res 343 1993 373
16. T. Hyypiä, T. Hovi, N.J. Knowles, and G. Stanway Classification of enteroviruses based on molecular and biological properties J Gen Virol 78 1997 1 11
17. D.R. Kilpatrick, J. Quay, M. Pallansch, and M.S. Oberste Type-specific detection of echovirus 30 isolates using degenerate reverse transcriptase PCR primers J Clin Microbiol 39 2001 1299 1302
18. G.R. Kim, J.S. Lee, Y.T. Jung, Y. Chung, and M.G. Rhyu Nucleotide sequencing of a part of the 5′-noncoding region of echovirus type 9 and rapid virus detection during the acute phase of aseptic meningitis Arch Virol 142 1997 853 860
19. A.M.Q. King, F. Brown, P. Christian, T. Hovi, T. Hyypia, and N.J. Knowles Picornaviridae M.H.V. van Regenmortel C.M. Fauquet D.H.L. Bishop E.B. Carstens M.K. Estes S.M. Lemon J. Maniloff M.A. Mayo D.J. Mcgeoch C.R. Pringleand R.B. Wickner Virus taxonomy Seventh report of the international committee on taxonomy of viruses 2000 Academic Press San Diego, CA 657 678
20. H. Kopecka, B. Brown, and M. Pallansch Genotypic variation in coxsackievirus B5 isolates from three different outbreaks in the United States Virus Res 38 1995 125 136
21. Y.F. Lee, A. Nomoto, B.M. Detjen, and E. Wimmer A protein covalently linked to poliovirus genome RNA Proc Natl Acad Sci USA 74 1977 59 63
22. A.N. Lukashev, V.A. Lashkevich, O.E. Ivanova, G.A. Koroleva, A.E. Hinkkanen, and J. Ilonen Recombination in circulating enteroviruses J Virol 77 2003 10423 10431
23. M.G. Mateu Antibody recognition of picornaviruses and escape from neutralization: a structural view Virus Res 38 1995 1 24
24. J.L. Melnick, V. Rennick, B. Hampil, N.J. Schmidt, and H.H. Ho Lyophilized combination pools of enterovirus equine antisera: preparation and test procedures for the identification of field strains of 42 enteroviruses Bull World Health Organ 48 1973 263 268
25. J.L. Melnick, V.I. Agol, H.L. Bachrach, F. Brown, P.D. Cooper, and W. Fiers Picornaviridae Intervirology 4 1974 303 316
26. J.L. Melnick Enteroviruses: polioviruses, coxsackieviruses, echoviruses, and newer enteroviruses B.N. Fields D.M. Knipe P.M. Howley R.M. Channock J.L. Melnick T.P. Monath B. Roizman S.E. Straus Fields virology 3rd ed 1996 Lippincott/Raven Philadelphia, PA 655 712
27. L. Moce-Llivina, J. Jofre, X. Mendez, D. Akkelidou, F. Lucena, and G.T. Papageorgiou Counting cytopathogenic virus adsorbed to cellulose nitrate membrane filters as a simple method for counting viruses in raw sewage and sewage effluents J Virol Methods 102 2002 83 92
28. J.F. Modlin Coxsackieviruses, echoviruses and newer enteroviruses G.L. Mandell J.E. Bennett R. Dolin Principles and practice of infectious diseases 4th ed 1995 Churchill Livingstone New York 1620 1636
29. D.M. Morens, and M.A. Pallansch Human enterovirus infections H.A. Rotbart Epidemiology 1995 ASM Press Washington DC 3 23
30. P. Muir, U. Kammerer, K. Korn, M.N. Mulders, T. Poyry, and B. Weissbrich Molecular typing of enteroviruses: current status and future requirements. The European Union concerted action on virus meningitis and encephalitis Clin Microbiol Rev 11 1998 202 227
31. H. Norder, L. Bjerregaard, and L.O. Magnius Homotypic echoviruses share aminoterminal VP1 sequence homology applicable for typing J Med Virol 63 2001 35 44
32. M.S. Oberste, K. Maher, and M.A. Pallansch Molecular phylogeny of all human enterovirus serotypes based on comparison of sequences at the 5′ end of the region encoding VP2 Virus Res 58 1998 35 43
33. M.S. Oberste, K. Maher, D.R. Kilpatrick, and M.A. Pallansch Molecular evolution of the human enteroviruses: correlation of serotype with VP1 sequence and application to picornavirus classification J Virol 73 1999 1941 1948
34. M.S. Oberste, K. Maher, D.R. Kilpatrick, M.R. Flemister, B.A. Brown, and M. Pallansch Typing of human enteroviruses by partial sequencing of VP1 J Clin Microbiol 37 1999 1288 1293
35. M.S. Oberste, K. Maher, and M.A. Pallansch Specific detection of echoviruses 22 and 23 in cell culture supernatants by RT-PCR J Med Virol 58 1999 178 181
36. M.S. Oberste, K. Maher, M.R. Flemister, G. Marchetti, D.R. Kilpatrick, and M.A. Pallansch Comparison of classic and molecular approaches for the identification of untypeable enteroviruses J Clin Microbiol 38 2000 1170 1174
37. M.S. Oberste, W.A. Nix, K. Maher, and M.A. Pallansch Improved molecular identification of enteroviruses by RT-PCR and amplicon sequencing J Clin Virol 26 2003 375 377
38. G. Oprisan, M. Combiescu, S. Guillot, V. Caro, A. Combiescu, and F. Delpeyroux Natural genetic recombination between cocirculating heterotypic enteroviruses J Gen Virol 83 2002 2193 2200
39. A.C. Palmenberg Proteolytic processing of picornaviral polyprotein Annu Rev Microbiol 44 1990 603 623
40. T. Pöyry, L. Kinnunen, T. Hyypia, B. Brown, C. Horsnell, and T. Hovi Genetic and phylogenetic clustering of enteroviruses J Gen Virol 77 1996 1699 1717
41. T. Pulli, P. Koskimies, and T. Hyypia Molecular comparison of coxsackie a virus serotypes Virology 212 1995 30 38
42. A.S. Rigonan, L. Mann, and T. Chonmaitree Use of monoclonal antibodies to identify serotypes of enterovirus isolates J Clin Microbiol 36 1998 1877 1881
43. J.R. Romero Reverse-transcription polymerase chain reaction detection of the enteroviruses Arch Pathol Lab Med 123 1999 1161 1169
44. H.A. Rotbart, M.H. Sawyer, S. Fast, C. Lewinski, N. Murphy, and E.F. Keyser Diagnosis of enteroviral meningitis by using PCR with a colorimetric microwell detection assay J Clin Microbiol 32 1994 2590 2592
45. R.R. Rueckert, and E. Wimmer Systematic nomenclature of picornavirus proteins J Virol 50 1984 957 959
46. J. Santti, T. Hyypia, L. Kinnunen, and M. Salminen Evidence of recombination among enteroviruses J Virol 73 1999 8741 8749
47. N. Siafakas, A. Georgopoulou, P. Markoulatos, and N. Spyrou Isolation of polioviruses and other enteroviruses in South Greece between 1994 and 1998 J Clin Lab Anal 14 2000 157 163
48. N. Siafakas, A. Georgopoulou, P. Markoulatos, N. Spyrou, and G. Stanway Molecular detection and identification of an enterovirus during an outbreak of aseptic meningitis J Clin Lab Anal 15 2001 87 95
49. N. Siafakas, P. Markoulatos, G. Stanway, G. Tzanakaki, and J. Kourea-Kremastinou A reliable RT-PCR/RFLP assay for the molecular classification of enterovirus reference and wild type strains to either of the two genetic clusters on the basis of 5′-UTR Mol Cell Probes 16 2002 209 216
50. N. Siafakas, P. Markoulatos, and G. Stanway Molecular classification of coxsackie a viruses on the basis of the 5′-UTR: structural and evolutionary aspects J Mol Evol 55 2002 638 652
51. N. Siafakas, P. Markoulatos, C. Vlachos, G. Stanway, G. Tzanakaki, and J. Kourea-Kremastinou Molecular subgrouping of enterovirus reference and wild type strains into distinct genetic clusters using a simple RFLP assay Mol Cell Probes 17 2003 113 123
52. I. Thoelen, P. Lemey, I. Van der Donck, I. Beuselinck, A.M. Lindberg, and M. Van Ranst Molecular typing and epidemiology of enteroviruses identified from an outbreak of aseptic meningitis in Belgium during the summer of 2000 J Med Virol 70 2003 420 429
53. E. Wimmer, C.U.T. Hellen, and X. Cao Genetics of PV-1 Annu Rev Genet 27 1993 353 436
54. World Health Organization Polio Lab Network 2 1996 1
55. G.J. Zoll, W.J.G. Melchers, H. Kopecka, G. Jamproes, H.J.A. Van der Poel, and J.M.D. Galama General primer-mediated polymerase chain reaction for detection of enteroviruses: application for diagnostic routine and persistent infections J Clin Microbiol 30 1992 160 165