DNA Sequence Analysis of the V3 loop of HIV-1 from Korean Patients with AIDS.
- Author:
Jae Seok KIM
1
;
Sung Sup PARK
;
Kyou Sup HAN
;
Eui Chong KIM
;
Jin Q KIM
;
Myoung Hee PARK
;
Han Ik CHO
Author Information
1. Department of Clinical Pathology, Seoul National University College of Medicine, Seoul, Korea.
- Publication Type:Original Article
- Keywords:
HIV-1;
V3 sequence;
Phylogenetic analysis;
Molecular epidemiology
- MeSH:
Base Sequence*;
DNA*;
Europe;
Genetic Variation;
HIV-1*;
Humans;
Japan;
Korea;
Molecular Epidemiology;
North America;
Polymerase Chain Reaction;
RNA Viruses;
Sequence Analysis, DNA*
- From:Korean Journal of Clinical Microbiology
1999;2(1):19-27
- CountryRepublic of Korea
- Language:Korean
-
Abstract:
BACKGROUND: Phylogenetic analysis was used to determine the subtype and the probable source of transmission of human immunodeficiency virus type 1 (HIV-1). The HIV-1 is an RNA virus characterized by extensive genetic variation. To determine the extent of HIV-1 genetic variation, HIV-1 envelope V3 domain structures were analyzed and compared. In this study, we analyzed phylogenetic relationships and the subtype of Korean isolates to help the epidemiological study of HIV-1 infection. METHODS: Peripheral blood mononuclear cells were collected from eight patients with AIDS. HIV-1 proviral DNA was directly amplified directly by polymerase chain reaction (PCR). V3 domain nucleotide sequences were determined using a direct sequencing method with PCR products. Phylogenetic analysis of V3 domain nucleotide sequences was performed comparing with previously documented HIV-1 strains. RESULTS: Six V3 loop sequences were obtained from eight HIV-1 infected patients. All of six HIV-1 strains were classified as subtype B by phylogenetic analysis of the V3 region. The distances between strains varied from 11.5% to 22.9% (mean; 15.9%), showing six strains were not related each other. CONCLUSIONS: Six HIV-1 strains belong to subtype B, which is the prevalent type in North America, Europe, and Japan. Molecular epidemiological data supported the transmission of HIV-1 to Korea from these areas. Phylogenetic analysis revealed the absence of closely related strains in these isolates. Direct sequencing of V3 loop DNA woul d be a useful tool to determine the subgroup and the route of transmission of HIV-1.
