An effective tool for identifying HIV-1 subtypes B, C, CRF01_AE, their recombinant forms, and dual infections in Southeast Asia by the multi-region subtype specific PCR (MSSP) assay

© 2015 Elsevier B.V. The RV144 Thai vaccine trial has been the only vaccine study to show efficacy in preventing HIV infection. Ongoing molecular surveillance of HIV-1 in Southeast Asia is vital for vaccine development and evaluation. In this study a novel tool, the multi-region subtype specific PCR...

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Main Authors: Supachai Sakkhachornphop, Gustavo H. Kijak, Chris Beyrer, Myat Htoo Razak, Eric Sanders-Buell, Jaroon Jittiwutikarn, Vinai Suriyanon, Merlin L. Robb, Jerome H. Kim, David D. Celentano, Francine E. McCutchan, Sodsai Tovanabutra
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Published: 2018
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http://cmuir.cmu.ac.th/jspui/handle/6653943832/44342
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Institution: Chiang Mai University
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spelling th-cmuir.6653943832-443422018-04-25T07:48:30Z An effective tool for identifying HIV-1 subtypes B, C, CRF01_AE, their recombinant forms, and dual infections in Southeast Asia by the multi-region subtype specific PCR (MSSP) assay Supachai Sakkhachornphop Gustavo H. Kijak Chris Beyrer Myat Htoo Razak Eric Sanders-Buell Jaroon Jittiwutikarn Vinai Suriyanon Merlin L. Robb Jerome H. Kim David D. Celentano Francine E. McCutchan Sodsai Tovanabutra Agricultural and Biological Sciences © 2015 Elsevier B.V. The RV144 Thai vaccine trial has been the only vaccine study to show efficacy in preventing HIV infection. Ongoing molecular surveillance of HIV-1 in Southeast Asia is vital for vaccine development and evaluation. In this study a novel tool, the multi-region subtype specific PCR (MSSP) assay, that was able to identify subtypes B, C, CRF01_AE for Thailand, other Southeast Asian countries, India and China is described. The MSSP assay is based on a nested PCR strategy and amplifies eight short regions distributed along the HIV-1 genome using subtype-specific primers. A panel of 41 clinical DNA samples obtained primarily from opiate users in northern Thailand was used to test the assay performance. The MSSP assay provided 73-100% sensitivity and 100% specificity for the three subtypes in each genome region. The assay was then field-tested on 337 sera from HIV infected northern Thai drug users collected between 1999 and 2002. Subtype distribution was CRF01_AE 77.4% (n = 261), subtype B 3.3% (n = 11), CRF01_AE/B recombinant 12.2% (n = 41), CRF01_AE/C recombinant 0.6% (n = 2), and non-typeable 6.5% (n = 22). The MSSP assay is a simple, cost-effective, and accurate genotyping tool for laboratory settings with limited resources and is sensitive enough to capture the recombinant genomes and dual infections. 2018-01-24T04:41:07Z 2018-01-24T04:41:07Z 2015-06-01 Journal 18790984 01660934 2-s2.0-84924691983 10.1016/j.jviromet.2015.02.015 https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=84924691983&origin=inward http://cmuir.cmu.ac.th/jspui/handle/6653943832/44342
institution Chiang Mai University
building Chiang Mai University Library
country Thailand
collection CMU Intellectual Repository
topic Agricultural and Biological Sciences
spellingShingle Agricultural and Biological Sciences
Supachai Sakkhachornphop
Gustavo H. Kijak
Chris Beyrer
Myat Htoo Razak
Eric Sanders-Buell
Jaroon Jittiwutikarn
Vinai Suriyanon
Merlin L. Robb
Jerome H. Kim
David D. Celentano
Francine E. McCutchan
Sodsai Tovanabutra
An effective tool for identifying HIV-1 subtypes B, C, CRF01_AE, their recombinant forms, and dual infections in Southeast Asia by the multi-region subtype specific PCR (MSSP) assay
description © 2015 Elsevier B.V. The RV144 Thai vaccine trial has been the only vaccine study to show efficacy in preventing HIV infection. Ongoing molecular surveillance of HIV-1 in Southeast Asia is vital for vaccine development and evaluation. In this study a novel tool, the multi-region subtype specific PCR (MSSP) assay, that was able to identify subtypes B, C, CRF01_AE for Thailand, other Southeast Asian countries, India and China is described. The MSSP assay is based on a nested PCR strategy and amplifies eight short regions distributed along the HIV-1 genome using subtype-specific primers. A panel of 41 clinical DNA samples obtained primarily from opiate users in northern Thailand was used to test the assay performance. The MSSP assay provided 73-100% sensitivity and 100% specificity for the three subtypes in each genome region. The assay was then field-tested on 337 sera from HIV infected northern Thai drug users collected between 1999 and 2002. Subtype distribution was CRF01_AE 77.4% (n = 261), subtype B 3.3% (n = 11), CRF01_AE/B recombinant 12.2% (n = 41), CRF01_AE/C recombinant 0.6% (n = 2), and non-typeable 6.5% (n = 22). The MSSP assay is a simple, cost-effective, and accurate genotyping tool for laboratory settings with limited resources and is sensitive enough to capture the recombinant genomes and dual infections.
format Journal
author Supachai Sakkhachornphop
Gustavo H. Kijak
Chris Beyrer
Myat Htoo Razak
Eric Sanders-Buell
Jaroon Jittiwutikarn
Vinai Suriyanon
Merlin L. Robb
Jerome H. Kim
David D. Celentano
Francine E. McCutchan
Sodsai Tovanabutra
author_facet Supachai Sakkhachornphop
Gustavo H. Kijak
Chris Beyrer
Myat Htoo Razak
Eric Sanders-Buell
Jaroon Jittiwutikarn
Vinai Suriyanon
Merlin L. Robb
Jerome H. Kim
David D. Celentano
Francine E. McCutchan
Sodsai Tovanabutra
author_sort Supachai Sakkhachornphop
title An effective tool for identifying HIV-1 subtypes B, C, CRF01_AE, their recombinant forms, and dual infections in Southeast Asia by the multi-region subtype specific PCR (MSSP) assay
title_short An effective tool for identifying HIV-1 subtypes B, C, CRF01_AE, their recombinant forms, and dual infections in Southeast Asia by the multi-region subtype specific PCR (MSSP) assay
title_full An effective tool for identifying HIV-1 subtypes B, C, CRF01_AE, their recombinant forms, and dual infections in Southeast Asia by the multi-region subtype specific PCR (MSSP) assay
title_fullStr An effective tool for identifying HIV-1 subtypes B, C, CRF01_AE, their recombinant forms, and dual infections in Southeast Asia by the multi-region subtype specific PCR (MSSP) assay
title_full_unstemmed An effective tool for identifying HIV-1 subtypes B, C, CRF01_AE, their recombinant forms, and dual infections in Southeast Asia by the multi-region subtype specific PCR (MSSP) assay
title_sort effective tool for identifying hiv-1 subtypes b, c, crf01_ae, their recombinant forms, and dual infections in southeast asia by the multi-region subtype specific pcr (mssp) assay
publishDate 2018
url https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=84924691983&origin=inward
http://cmuir.cmu.ac.th/jspui/handle/6653943832/44342
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