Mutation Frequencies in HIV-1 Genome in Regions Containing Efficient RNAi Targets As Calculated from Ultra-Deep Sequencing Data

HIV-1 is one of the most variable viruses. The development of gene therapy technology using RNAi for AIDS/HIV-1 treatment is a potential alternative for traditional anti-retroviral therapy. Anti-HIV-1 siRNA should aim to exploit the most conserved viral targets. Using the deep sequencing of potentia...

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Bibliographic Details
Published in:Molecular biology (New York) 2018-05, Vol.52 (3), p.393-397
Main Authors: Kretova, O. V., Gorbacheva, M. A., Fedoseeva, D. M., Kravatsky, Y. V., Chechetkin, V. R., Tchurikov, N. A.
Format: Article
Language:English
Subjects:
Acquired immune deficiency syndrome
AIDS
Antiviral agents
Biochemistry
Biomedical and Life Sciences
Gene therapy
Genomes
Genomics. Trascriptomics
HIV
Human Genetics
Human immunodeficiency virus
Life Sciences
RNA-mediated interference
siRNA
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Summary:HIV-1 is one of the most variable viruses. The development of gene therapy technology using RNAi for AIDS/HIV-1 treatment is a potential alternative for traditional anti-retroviral therapy. Anti-HIV-1 siRNA should aim to exploit the most conserved viral targets. Using the deep sequencing of potential RNAi targets in 100-nt HIV-1 genome fragments from the clinical HIV-1 subtype A isolates in Russia, we found that the frequencies of all possible transversions and transitions in certain RNAi targets are 3–38 times lower than in adjacent sequences. Therefore, these targets are conserved. We propose the development of these RNAi targets for AIDS/HIV-1 treatment. Deep sequencing also enables the detection of the characteristic mutational bias of RT during the replication of viral RNA.
ISSN:0026-8933
1608-3245
DOI:10.1134/S002689331803007X