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In vitro characterization of a base pairing interaction between the primer binding site and the minimal packaging signal of avian leukosis virus genomic RNA
- Source :
- Nucleic Acids Research, Nucleic Acids Research, Oxford University Press, 2003, 31 (24), pp.7070-82
- Publication Year :
- 2003
- Publisher :
- HAL CCSD, 2003.
-
Abstract
- International audience; The 5' leader region of avian sarcoma-leukosis viruses (ASLVs) folds into a series of RNA secondary structures which are involved in key steps in the viral replication cycle such as reverse transcription, dimerization and packaging of genomic RNA. The O3 stem and three stem-loops (O3SLa, O3SLb and O3SLc) form the minimal packaging signal that is located downstream of the primer binding site (PBS). The U5-PBS region contributes to packaging via a mechanism that remains unknown. In this in vitro study, we have investigated the possibility of interactions between the R-U5-PBS region and the minimal packaging signal using chemical and enzymatic probing, antisense oligonucleotides and site-directed mutagenesis. We have identified a base pairing interaction between the PBS sequence and the terminal loop of O3SLa. It was found that the PBS/O3SLa interaction was intramolecular since it occurred not only in dimeric RNA but also in monomeric RNA. This interaction probably corresponds to a pseudoknot interaction. The PBS/O3SLa interaction may be formed in vivo since the sequences are highly conserved in ASLV strains. The PBS/O3SLa interaction may regulate the processes of primer tRNA annealing, packaging and initiation of Gag translation through its involvement in leader tertiary structure. Interestingly, we found that in other retroviruses the PBS sequence can also base pair with a terminal loop of the stem-loops involved in RNA packaging.
- Subjects :
- MESH: Base Sequence
MESH: Alpharetrovirus
Ribonuclease T1
MESH: Phylogeny
Base Pairing
Conserved Sequence
Phylogeny
0303 health sciences
MESH: Conserved Sequence
030302 biochemistry & molecular biology
Articles
3. Good health
Cell biology
MESH: Mutagenesis, Site-Directed
MESH: RNA, Viral
Transfer RNA
RNA, Viral
MESH: 5' Untranslated Regions
MESH: Genome, Viral
Dimerization
Primer binding site
MESH: Virus Assembly
MESH: Ribonuclease T1
Base pair
Molecular Sequence Data
MESH: Base Pairing
Genome, Viral
Regulatory Sequences, Ribonucleic Acid
Biology
Alpharetrovirus
Terminal loop
03 medical and health sciences
MESH: RNA
Genetics
[SDV.BBM] Life Sciences [q-bio]/Biochemistry, Molecular Biology
[SDV.BBM]Life Sciences [q-bio]/Biochemistry, Molecular Biology
Binding site
030304 developmental biology
Binding Sites
MESH: Molecular Sequence Data
Base Sequence
Virus Assembly
MESH: Regulatory Sequences, Ribonucleic Acid
RNA
Molecular biology
Reverse transcriptase
MESH: Binding Sites
MESH: Dimerization
Mutagenesis, Site-Directed
5' Untranslated Regions
Pseudoknot
Subjects
Details
- Language :
- English
- ISSN :
- 03051048 and 13624962
- Database :
- OpenAIRE
- Journal :
- Nucleic Acids Research, Nucleic Acids Research, Oxford University Press, 2003, 31 (24), pp.7070-82
- Accession number :
- edsair.doi.dedup.....c283641c55b88f478f3fd0aaa6c52fc8