The indonesian variants of CRF33_01B: Near-full length sequence analysis.
Cocirculation of subtype B and CRF01_AE in Southeast Asia has led to the establishment of new recombinant forms. In our previous study, we found five samples suspected of being recombinants between subtype B and CRF01_AE, and here, we analyzed near full-length sequences of two samples and compared them to known CRFs_01B, subtype B, and CRF01_AE. Five overlapped segments were amplified with nested PCR from PBMC DNA, sequenced, and analyzed for genome mosaicism. The two Indonesian samples, 07IDJKT189 and 07IDJKT194, showed genome-mosaic patterns similar to CRF33_01B references from Malaysia, with one short segment in the 3' end of the p31 integrase-coding region, which was rather more similar to subtype B than CRF01_AE, consisting of unclassified sequences. These results suggest gene-specific continuous diversification and spread of the CRF33_01B genomes in Southeast Asia.
SahBandar
Ivo N
IN
Department of Microbiology, Iwate Medical University, Morioka, Japan.
Takahashi
Kiyomi
K
Motomura
Kazushi
K
Djoerban
Zubairi
Z
Firmansyah
Iman
I
Kitamura
Katsuhiko
K
Sato
Hironori
H
Pohan
Herdiman T
HT
Sato
Shigehiro
S
D000328:Adult; D016000:Cluster Analysis; D017124:Conserved Sequence; D005838:Genotype; D015658:HIV Infections / Q000821:virology*; D015497:HIV-1 / Q000145:classification* / Q000235:genetics* / Q000302:isolation & purification; D006801:Humans; D007214:Indonesia; D008297:Male; D008969:Molecular Sequence Data; D010802:Phylogeny; D012367:RNA, Viral / Q000235:genetics*; D011995:Recombination, Genetic; D017422:Sequence Analysis, DNA
D012367:RNA, Viral