Analysis of length variation in the V1-V2 region of env in nonsubtype B HIV type 1 from Uganda

Alexandra M KLEVYTSKA; Martin R MRACNA; Laura GUAY; Graziella BECKER-PERGOLA; Manohar FURTADO; Linqi Zhang; J. Brooks JACKSON; Susan H ESHLEMAN

doi:10.1089/08892220260139530

Back

Analysis of length variation in the V1-V2 region of env in nonsubtype B HIV type 1 from Uganda

Journal article

Peer reviewed

Analysis of length variation in the V1-V2 region of env in nonsubtype B HIV type 1 from Uganda

Alexandra M KLEVYTSKA, Martin R MRACNA, Laura GUAY, Graziella BECKER-PERGOLA, Manohar FURTADO, Linqi Zhang, J. Brooks JACKSON and Susan H ESHLEMAN

AIDS research and human retroviruses, Vol.18(11), pp.791-796

2002

DOI: 10.1089/08892220260139530

PMID: 12167271

View Online

Abstract

We optimized an assay for analysis of length variation in the V1-V2 region of HIV-1 env in plasma samples from Uganda. V1-V2 env length variation was analyzed in 31 plasma samples containing subtype A, C, D, or A/D recombinant HIV-1. DNA corresponding to the V1-V2 region was amplified by nested PCR. One of the primers in the second step of the PCR was fluorescently labeled. Successful amplification was confirmed by agarose gel electrophoresis. V1-V2 length variation of PCR products was analyzed with an ABI PRISM 3100 genetic analyzer and GeneScan software. A diversity score was generated for each sample on the basis of the degree of fragment length variation. The V1-V2 region was successfully amplified from 30 of 31 samples. Fragment length analysis was successful for all of those 30 samples. The diversity score and lengths of V1-V2 fragments were unique for each sample. This assay can be used for analysis of V1-V2 length variation in subtypes commonly found in Uganda. This assay may be helpful for studies examining the impact of env length diversity on HIV-1 transmission and pathogenesis in regions where these subtypes are prevalent.

Genetics

Infectious Diseases

Microbiology

Tropical Medicine

Virology

Fundamental and applied biological sciences. Psychology

Viral diseases

Viral diseases of the lymphoid tissue and the blood. Aids

Biological and medical sciences

Medical sciences

Human viral diseases

Details

Title: Subtitle: Analysis of length variation in the V1-V2 region of env in nonsubtype B HIV type 1 from Uganda
Creators: Alexandra M KLEVYTSKA - Department of Pathology, Johns Hopkins Medical Institutions, Baltimore, Maryland 21205, United States
Martin R MRACNA - Department of Pathology, Johns Hopkins Medical Institutions, Baltimore, Maryland 21205, United States
Laura GUAY - Department of Pathology, Johns Hopkins Medical Institutions, Baltimore, Maryland 21205, United States
Graziella BECKER-PERGOLA - Department of Pathology, Johns Hopkins Medical Institutions, Baltimore, Maryland 21205, United States
Manohar FURTADO - Applied Biosystems, Foster City, California 984404, United States
Linqi Zhang - Aaron Diamond AIDS Research Center, New York, New York 10016, United States
J. Brooks JACKSON - Department of Pathology, Johns Hopkins Medical Institutions, Baltimore, Maryland 21205, United States
Susan H ESHLEMAN - Department of Pathology, Johns Hopkins Medical Institutions, Baltimore, Maryland 21205, United States
Resource Type: Journal article
Publication Details: AIDS research and human retroviruses, Vol.18(11), pp.791-796
Publisher: Liebert; Larchmont, NY
DOI: 10.1089/08892220260139530
PMID: 12167271
ISSN: 0889-2229
eISSN: 1931-8405
Language: English
Date published: 2002
Academic Unit: Pathology; VPMA - Administration
Record Identifier: 9984046934102771

Metrics

40 Record Views

5 Times Cited - Web of Science

See more details