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
Copyright © 2015 Elsevier B.V. All rights reserved. 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 mu...
Saved in:
Main Authors: | , , , , , , , , , , , |
---|---|
Format: | Journal |
Published: |
2018
|
Online Access: | https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=84989773495&origin=inward http://cmuir.cmu.ac.th/jspui/handle/6653943832/44344 |
Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
Institution: | Chiang Mai University |
id |
th-cmuir.6653943832-44344 |
---|---|
record_format |
dspace |
spelling |
th-cmuir.6653943832-443442018-01-24T04:41:08Z 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 H too Razak Eric Sanders-Buell Jaroon Jittiwutikarn Vinai Suriyanon Merlin L. Robb Jerome H. Kim David D. Celentano Francine E. McCutchan Sodsai Tovanabutra Copyright © 2015 Elsevier B.V. All rights reserved. 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. 2018-01-24T04:41:08Z 2018-01-24T04:41:08Z 2015-06-01 Journal 18790984 2-s2.0-84989773495 10.1016/j.jviromet.2015.02.015 https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=84989773495&origin=inward http://cmuir.cmu.ac.th/jspui/handle/6653943832/44344 |
institution |
Chiang Mai University |
building |
Chiang Mai University Library |
country |
Thailand |
collection |
CMU Intellectual Repository |
description |
Copyright © 2015 Elsevier B.V. All rights reserved. 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 H too Razak Eric Sanders-Buell Jaroon Jittiwutikarn Vinai Suriyanon Merlin L. Robb Jerome H. Kim David D. Celentano Francine E. McCutchan Sodsai Tovanabutra |
spellingShingle |
Supachai Sakkhachornphop Gustavo H. Kijak Chris Beyrer Myat H too 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 |
author_facet |
Supachai Sakkhachornphop Gustavo H. Kijak Chris Beyrer Myat H too 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=84989773495&origin=inward http://cmuir.cmu.ac.th/jspui/handle/6653943832/44344 |
_version_ |
1681422542161575936 |