TY - JOUR
T1 - Distinguishing molecular forms of HIV-1 in Asia with a high-throughput, fluorescent genotyping assay, MHAbce v.2
AU - Kijak, Gustavo H.
AU - Tovanabutra, Sodsai
AU - Sanders-Buell, Eric
AU - Watanaveeradej, Veerachai
AU - de Souza, Mark S.
AU - Nelson, Kenrad E.
AU - Ketsararat, Vidhaya
AU - Gulgolgarn, Vilawan
AU - Wera-arpachai, Manu
AU - Sriplienchan, Somchai
AU - Khamboonrueng, Chirasak
AU - Birx, Deborah L.
AU - Robb, Merlin L.
AU - McCutchan, Francine E.
N1 - Funding Information:
This work was supported through NICHD by RO1 HD34343-02 and in part by a cooperative agreement between the Henry M. Jackson Foundation for the Advancement of Military Medicine and the U.S. Department of Defense, by the National Institute for Allergy and Infectious Diseases, National Institutes of Health. The views and opinions expressed herein do not necessarily reflect those of the U.S. Army or the Department of Defense.
PY - 2007/2/5
Y1 - 2007/2/5
N2 - High-resolution HIV-1 genotyping of large sample sets is crucial to define the evolving and dynamic epidemics in Asia. Here we present MHAbce v.2, a multi-region hybridization assay that individually discriminates subtypes B, C, CRF01_AE, and virtually all of their described recombinants, based on real-time PCR using subtype-specific TaqMan probes in 8 regions throughout the viral genome. In a validation panel (n = 70), the assay performed with a sensitivity of 95.7% and specificity of 99.8%. The assay was field-tested on samples from a retrospective MTCT cohort (n = 180; Lampang Province, Northern Thailand; 1996-1998). 177/180 of the samples were typeable, and 94.4% were typed as CRF01_AE. The remaining strains represented even proportions of subtype B and B/CRF01_AE recombinants and were confirmed by sequencing, revealing early links between the heterosexual and IDU HIV-1 epidemics in Thailand. MHAbce v.2, with an area of application including China, India, Southeast Asia, and the Pacific Rim, can be used to develop a comprehensive and detailed picture of this important component of the HIV/AIDS pandemic.
AB - High-resolution HIV-1 genotyping of large sample sets is crucial to define the evolving and dynamic epidemics in Asia. Here we present MHAbce v.2, a multi-region hybridization assay that individually discriminates subtypes B, C, CRF01_AE, and virtually all of their described recombinants, based on real-time PCR using subtype-specific TaqMan probes in 8 regions throughout the viral genome. In a validation panel (n = 70), the assay performed with a sensitivity of 95.7% and specificity of 99.8%. The assay was field-tested on samples from a retrospective MTCT cohort (n = 180; Lampang Province, Northern Thailand; 1996-1998). 177/180 of the samples were typeable, and 94.4% were typed as CRF01_AE. The remaining strains represented even proportions of subtype B and B/CRF01_AE recombinants and were confirmed by sequencing, revealing early links between the heterosexual and IDU HIV-1 epidemics in Thailand. MHAbce v.2, with an area of application including China, India, Southeast Asia, and the Pacific Rim, can be used to develop a comprehensive and detailed picture of this important component of the HIV/AIDS pandemic.
KW - Asia
KW - HIV-1
KW - Molecular epidemiology
KW - Multi-region hybridization assay (MHA)
KW - Recombinant forms
KW - Thailand
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U2 - 10.1016/j.virol.2006.07.055
DO - 10.1016/j.virol.2006.07.055
M3 - Article
C2 - 16997343
AN - SCOPUS:33846088566
SN - 0042-6822
VL - 358
SP - 178
EP - 191
JO - Virology
JF - Virology
IS - 1
ER -