This Article
Right arrow Full Text
Right arrow Full Text (PDF)
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Download to citation manager
Right arrowReprints and Permissions
Right arrow Copyright Information
Right arrow Books from ASM Press
Right arrow MicrobeWorld
Citing Articles
Right arrow Citing Articles via HighWire
Right arrow Citing Articles via Google Scholar
Google Scholar
Right arrow Articles by Cantaloube, J.-F.
Right arrow Articles by de Micco, P.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Cantaloube, J.-F.
Right arrow Articles by de Micco, P.

 Previous Article  |  Next Article 

Journal of Clinical Microbiology, June 2006, p. 2051-2056, Vol. 44, No. 6
0095-1137/06/$08.00+0     doi:10.1128/JCM.02463-05
Copyright © 2006, American Society for Microbiology. All Rights Reserved.

Analysis of the 5' Noncoding Region versus the NS5b Region in Genotyping Hepatitis C Virus Isolates from Blood Donors in France

Jean-François Cantaloube,1* Syria Laperche,2 Pierre Gallian,1 Françoise Bouchardeau,2 Xavier de Lamballerie,3 and Philippe de Micco1

Unité des Virus Emergents EA3292, Etablissement Français du Sang, Alpes-Méditerranée, Marseille, France,1 Institut National de Transfusion Sanguine, Paris, France,2 Faculté de Médecine, Université de la Méditerranée, Marseille, France3

Received 29 November 2005/ Returned for modification 6 February 2006/ Accepted 22 February 2006

The 5' noncoding region (5' NCR) of the hepatitis C virus (HCV) has become the standard for genotyping even though several reports show that its use can result in classification errors. The purpose of this study was to perform genotyping based on sequence analysis of the NS5b region in a set of 357 HCV strains isolated from blood donors in France in 2002 and 2003. Results were compared with those previously obtained using 5' NCR analysis, and HCV subtype distribution was reevaluated. Twenty-six of 120 strains (~22%) initially identified as genotype 1b by 5' NCR region sequence analysis were reclassified as genotype 1a by NS5b region sequence analysis. Similarly, 14 of 23 strains (~61%) initially identified as 2a/2c were reclassified as non-2a and non-2c subtypes, and 12 of 22 strains (~45%) initially identified as 4c/4d subtypes were reclassified as non-4c and non-4d subtypes. Sequence analysis of the NS5b region also revealed 5 putative new subtype 2 variants and 2 putative new subtype 4 variants. Although these findings demonstrated full agreement between 5' NCR and NS5b sequence analysis with regard to type classification, genotyping based on phylogenetic analysis of the NS5b region is more accurate for subtype determination than genotyping based on analysis of the 5' NCR. Sequence analysis of the NS5b region is mandatory for epidemiologic studies.

* Corresponding author. Mailing address: Unité des Virus Emergents. Etablissement Français du Sang Alpes-Méditerranée, 149 bd Baille, 13005 Marseille, France. Phone: 11 33 4 91 25 59 74. Fax: 11 33 4 91 18 95 98. E-mail: jfc-ets-ap{at}gulliver.fr.

Journal of Clinical Microbiology, June 2006, p. 2051-2056, Vol. 44, No. 6
0095-1137/06/$08.00+0     doi:10.1128/JCM.02463-05
Copyright © 2006, American Society for Microbiology. All Rights Reserved.



This article has been cited by other articles:

  • Li, H., Thomassen, L. V., Majid, A., McMahon, B. J., Bruden, D., McArdle, S., Bano, N., Chung, M., Carithers, R. L., Perkins, J. D., Sullivan, D. G., Gretch, D. R. (2008). Investigation of Putative Multisubtype Hepatitis C Virus Infections In Vivo by Heteroduplex Mobility Analysis of Core/Envelope Subgenomes. J. Virol. 82: 7524-7532 [Abstract] [Full Text]  
  • Bouchardeau, F., Cantaloube, J. F., Chevaliez, S., Portal, C., Razer, A., Lefrere, J.-J., Pawlotsky, J. M., De Micco, P., Laperche, S. (2007). Improvement of Hepatitis C Virus (HCV) Genotype Determination with the New Version of the INNO-LiPA HCV Assay. J. Clin. Microbiol. 45: 1140-1145 [Abstract] [Full Text]  
  • Murphy, D. G., Willems, B., Deschenes, M., Hilzenrat, N., Mousseau, R., Sabbah, S. (2007). Use of Sequence Analysis of the NS5B Region for Routine Genotyping of Hepatitis C Virus with Reference to C/E1 and 5' Untranslated Region Sequences. J. Clin. Microbiol. 45: 1102-1112 [Abstract] [Full Text]  


Copyright © 2009 by the American Society for Microbiology.   For an alternate route to Journals.ASM.org, visit: http://intl-journals.asm.org | More Info»