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Circularization of the HIV-1 RNA genome
Genomic RNA circularization has been proposed for several RNA viruses. In this study, we examined if the 5′ and 3′ ends of the 9-kb HIV-1 RNA genome can interact. In vitro assays demonstrated a specific interaction between transcripts encompassing the 5′ and 3′ terminal 1 kb, suggesting that the HIV...
Autores principales: | , , , |
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Formato: | Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2007
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1976439/ https://www.ncbi.nlm.nih.gov/pubmed/17686788 http://dx.doi.org/10.1093/nar/gkm564 |
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author | Ooms, Marcel Abbink, Truus E. M. Pham, Chi Berkhout, Ben |
author_facet | Ooms, Marcel Abbink, Truus E. M. Pham, Chi Berkhout, Ben |
author_sort | Ooms, Marcel |
collection | PubMed |
description | Genomic RNA circularization has been proposed for several RNA viruses. In this study, we examined if the 5′ and 3′ ends of the 9-kb HIV-1 RNA genome can interact. In vitro assays demonstrated a specific interaction between transcripts encompassing the 5′ and 3′ terminal 1 kb, suggesting that the HIV-1 RNA genome can circularize. Truncation of the transcripts indicated that the 5′–3′ interaction is formed by 600–700 nt in the gag open reading frame and the terminal 123 nt of the genomic RNA. Detailed RNA structure probing indicates that sequences flanking the 3′ TAR hairpin interact with complementary sequences in the gag gene. Phylogenetic analysis indicates that all HIV-1 subtypes can form the 5′/3′ interaction despite considerable sequence divergence, suggesting an important role of RNA circularization in the HIV-1 replication cycle. |
format | Text |
id | pubmed-1976439 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2007 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-19764392007-09-26 Circularization of the HIV-1 RNA genome Ooms, Marcel Abbink, Truus E. M. Pham, Chi Berkhout, Ben Nucleic Acids Res RNA Genomic RNA circularization has been proposed for several RNA viruses. In this study, we examined if the 5′ and 3′ ends of the 9-kb HIV-1 RNA genome can interact. In vitro assays demonstrated a specific interaction between transcripts encompassing the 5′ and 3′ terminal 1 kb, suggesting that the HIV-1 RNA genome can circularize. Truncation of the transcripts indicated that the 5′–3′ interaction is formed by 600–700 nt in the gag open reading frame and the terminal 123 nt of the genomic RNA. Detailed RNA structure probing indicates that sequences flanking the 3′ TAR hairpin interact with complementary sequences in the gag gene. Phylogenetic analysis indicates that all HIV-1 subtypes can form the 5′/3′ interaction despite considerable sequence divergence, suggesting an important role of RNA circularization in the HIV-1 replication cycle. Oxford University Press 2007-08 2007-08-07 /pmc/articles/PMC1976439/ /pubmed/17686788 http://dx.doi.org/10.1093/nar/gkm564 Text en © 2007 The Author(s) http://creativecommons.org/licenses/by-nc/2.0/uk/ This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | RNA Ooms, Marcel Abbink, Truus E. M. Pham, Chi Berkhout, Ben Circularization of the HIV-1 RNA genome |
title | Circularization of the HIV-1 RNA genome |
title_full | Circularization of the HIV-1 RNA genome |
title_fullStr | Circularization of the HIV-1 RNA genome |
title_full_unstemmed | Circularization of the HIV-1 RNA genome |
title_short | Circularization of the HIV-1 RNA genome |
title_sort | circularization of the hiv-1 rna genome |
topic | RNA |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1976439/ https://www.ncbi.nlm.nih.gov/pubmed/17686788 http://dx.doi.org/10.1093/nar/gkm564 |
work_keys_str_mv | AT oomsmarcel circularizationofthehiv1rnagenome AT abbinktruusem circularizationofthehiv1rnagenome AT phamchi circularizationofthehiv1rnagenome AT berkhoutben circularizationofthehiv1rnagenome |