Comparison of Consensus Sequences and Ancestor Sequences of HIV-1 nef and vif Genes for Development of Korean-Specfic HIV-1 Vaccine.
10.4167/jbv.2006.36.4.287
- Author:
Chan Seung PARK
1
;
Mi Sook KIM
;
Hyun Ah YI
;
Keon Myung LEE
;
Sung Soo KIM
;
Sung Duk LEE
;
Chan Hee LEE
Author Information
1. School of Life Sciences, Chungbuk National University, Cheongju, Korea. chlee@cbu.ac.kr
- Publication Type:Original Article
- Keywords:
HIV-1;
Vaccine;
Consensus sequence;
Ancestor sequence
- MeSH:
Consensus Sequence*;
Consensus*;
Genes, vif*;
HIV-1*;
Vaccines
- From:Journal of Bacteriology and Virology
2006;36(4):287-292
- CountryRepublic of Korea
- Language:Korean
-
Abstract:
There have been attempts to use consensus sequences or ancestor sequences for development vaccines against viruses with high diversity and variation. In this study, we generated and compared consensus sequences and ancestor sequences of nef and vif genes of HIV-1 isolated from Koreans. Phylogenetic analyses revealed that majorities of the Korean isolates were clustered to form the Korean clade within subtype B (KcB) where foreign isolates were not included. Consensus sequences inferred from the KcB as well as from all Korean isolates were almost identical but significantly different from subtype B consensus sequence or HIV-1 consensus sequence. The genetic distances from one of the Korean isolates to the other Korean isolates were much longer than to the consensus or ancestor sequences deduced from Korean isolates but similar to those of subtype B or HIV-1. Moreover, the genetic distances from the Korean isolates to the consensus sequences were shorter than to the ancestor sequences both in nef and vif genes. Thus, the consensus sequences may be useful in developing Korean-specific HIV-1 vaccine.
