Molecular characterization of tat gene and long terminal repeat region of human immunodeficiency virus type-1 detected among the injecting drug users (IDUs) of Manipur, India: identification of BC recombinants

Ranajoy Mullick; Satarupa Sengupta; Kamalesh Sarkar; Sekhar Chakrabarti

doi:10.1016/j.virusres.2009.10.024

Molecular characterization of tat gene and long terminal repeat region of human immunodeficiency virus type-1 detected among the injecting drug users (IDUs) of Manipur, India: identification of BC recombinants

Virus Res. 2010 Feb;147(2):195-201. doi: 10.1016/j.virusres.2009.10.024. Epub 2009 Nov 6.

Authors

Ranajoy Mullick¹, Satarupa Sengupta, Kamalesh Sarkar, Sekhar Chakrabarti

Affiliation

¹ HIV/AIDS Research Laboratory, Divison of Virology, National Institute of Cholera and Enteric Diseases, P-33, C.I.T. Road, Scheme-XM, Beliaghata, Kolkata 700010, West Bengal, India.

PMID: 19896991
DOI: 10.1016/j.virusres.2009.10.024

Abstract

The tat gene of human immunodeficiency virus type-1 (HIV-1) is responsible for the initiation and elongation of viral transcription through the LTR (long terminal repeat) transactivation process. Our study included structural and functional analyses of the tat gene and LTR region of 35 injecting drug users (IDUs) from Manipur (a north-eastern state in India and a potential source of HIV-1 recombinants) in order to search for the recombinants and variation in the transactivation process if any due to recombination. Analysis showed prevalence of subtype C with few BC recombinants for the tat gene showing identical recombination breakpoints. Phylogenetic analysis of the LTR region of those IDU strains showed strong resemblance to Indian subtype C forming a completely separate cluster from the other global C LTR sequences. The TAR element (transactivator response region) in all the LTR sequences was fairly conserved. Further study of the transactivation rate of the C and BC tat for the Manipur C LTR showed almost equal transactivity in both the cases. This is the first report of characterisation of tat gene and LTR region of HIV-1 samples among IDUs from north-eastern India.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Cluster Analysis
Genetic Variation
Genotype
HIV Infections / virology*
HIV Long Terminal Repeat / genetics*
HIV-1 / classification
HIV-1 / genetics*
HIV-1 / isolation & purification*
Humans
India
Molecular Sequence Data
Phylogeny
Recombination, Genetic*
Sequence Analysis, DNA
Sequence Homology
Substance Abuse, Intravenous*
tat Gene Products, Human Immunodeficiency Virus / genetics*

Substances

tat Gene Products, Human Immunodeficiency Virus

Associated data

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