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Journal of Clinical Microbiology, April 2006, p. 1519-1529, Vol. 44, No. 4
0095-1137/06/$08.00+0     doi:10.1128/JCM.44.4.1519-1529.2006
Copyright © 2006, American Society for Microbiology. All Rights Reserved.

Use of a Short Fragment of the C-Terminal E Gene for Detection and Characterization of Two New Lineages of Dengue Virus 1 in India

C. Domingo,1,{dagger}* G. Palacios,2,{dagger} O. Jabado,2 N. Reyes,1 M. Niedrig,3 J. Gascón,4 M. Cabrerizo,1 W. I. Lipkin,2 and A. Tenorio1

Laboratorio de Arbovirus y Enfermedades Víricas Importadas, Centro Nacional de Microbiología, Instituto de Salud Carlos III, Madrid, Spain,1 Jerome L. and Dawn Greene Infectious Diseases Laboratory, Columbia University, New York, New York,2 Robert Koch Institute, Berlin, Germany,3 Centro de Salud Internacional, Hospital Clinic (IDIBAPS), Barcelona, Spain4

Received 6 September 2005/ Returned for modification 7 October 2005/ Accepted 8 January 2006

Here we propose the use of a 216-nucleotide fragment located in the carboxyl terminus of the E gene (E-COOH) and a pairwise-based comparison method for genotyping of dengue virus 1 (DENV-1) strains. We have applied this method to the detection and characterization of DENV-1 in serum samples from travelers returning from the tropics. The results obtained with the typing system correlate with the results obtained by comparison of the sequences of the entire E gene of the strains. The approach demonstrates utility in plotting the distribution and circulation of different genotypes of DENV-1 and also suggests the presence of two new clades of Indian strains. The integration of the method with an online database and a typing characterization tool enhances its strength. Additionally, the analysis of the complete E gene of DENV-1 strains suggested the occurrence of a nondescribed recombination event in the China GD23-95 strain. We propose the use of this methodology as a tool for real-time epidemiological surveillance of dengue virus infections and their pathogenesis.

* Corresponding author. Mailing address: Laboratorio de Arbovirus y Enfermedades Víricas Importadas, Centro Nacional de Microbiología, Instituto de Salud Carlos III, Carretera Majadahonda-Pozuelo Km 2, Majadahonda (28220), Madrid, Spain. Phone: 34 91 8223954. Fax: 34 91 5097919. E-mail: domingoc{at}isciii.es.

{dagger} Both authors contributed equally.

Journal of Clinical Microbiology, April 2006, p. 1519-1529, Vol. 44, No. 4
0095-1137/06/$08.00+0     doi:10.1128/JCM.44.4.1519-1529.2006
Copyright © 2006, American Society for Microbiology. All Rights Reserved.



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