Sequence analysis of the human DNA flanking sites of human immunodeficiency virus type 1 integration
Open accessAbstract
Human immunodeficiency virus type 1 (HIV-1) tagged with the Escherichia coli supF gene has been used to clone integrated HIV-1 proviruses. Sequence analysis of the 600 to 800 bp of human DNA adjacent to 29 clones revealed a propensity for HIV-1 to integrate near the Alu class of human repetitive elements.
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A weak palindromic (pal) motif is often present in target DNA sequences recognized by IN.
“Briefly, there seems to be a consensus, especially noticed in the retroviral integration site alignments, that a weak pal motif is often present in the target DNA sequences that are recognized by IN (Stevens and Griffith 1996, Holman and Coffin 2005, Wu et al. 2005, Miklík et al. 2023).”
From Beyond reverse transcription: molecular mechanisms and emerging paradigms in retroviral replication (2026) · cites this paper as Stevens and Griffith 1996
Cites
Müller, H. P., & Varmus, H. E. (1994) · The EMBO Journal · doi:10.1002/j.1460-2075.1994.tb06794.x · Cited by 202 · see citing works
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HIV-1 Integration in the Human Genome Favors Active Genes and Local Hotspots
Schröder, A. R. W., Shinn, P., Chen, H., Berry, C., Ecker, J. R., & Bushman, F. (2002) · Cell · doi:10.1016/s0092-8674(02)00864-4 · Cited by 1,832 · see citing works
Wang, G. P., Ciuffi, A., Leipzig, J., Berry, C. C., & Bushman, F. D. (2007) · Genome Research · doi:10.1101/gr.6286907 · Cited by 457 · see citing works
Jordan, A., Defechereux, P., & Verdin, E. (2001) · The EMBO Journal · doi:10.1093/emboj/20.7.1726 · Cited by 467 · see citing works
Retroviral DNA integration: viral and cellular determinants of target-site selection
Lewinski, M. K., Yamashita, M., Emerman, M., Ciuffi, A., Marshall, H., Crawford, G., Collins, F., Shinn, P., Leipzig, J., Hannenhalli, S., et al. (2006) · PLoS Pathogens · doi:10.1371/journal.ppat.0020060 · Cited by 364 · see citing works
Key determinants of target DNA recognition by retroviral intasomes
Serrao, E., Ballandras-Colas, A., Cherepanov, P., Maertens, G. N., & Engelman, A. N. (2015) · Retrovirology · doi:10.1186/s12977-015-0167-3 · Cited by 62 · see citing works
Serrao, E., Krishnan, L., Shun, M.-C., Li, X., Cherepanov, P., Engelman, A., & Maertens, G. N. (2014) · Nucleic Acids Research · doi:10.1093/nar/gku136 · Cited by 59 · see citing works
Beyond reverse transcription: molecular mechanisms and emerging paradigms in retroviral replication
Jehad, M. A., Ali, L. M., Pillai, V. N., Prabhu, S. G., Mustafa, F., & Rizvi, T. A. (2026) · FEMS Microbiology Reviews · doi:10.1093/femsre/fuaf066 · Cited by 5 · see citing works
“Briefly, there seems to be a consensus, especially noticed in the retroviral integration site alignments, that a weak pal motif is often present in the target DNA sequences that are recognized by IN (Stevens and Griffith 1996 , Holman and Coffin 2005 , Wu et al. 2005 , Miklík et al. 2023 ).”
- Authors
- Stevens, S. W., & Griffith, J. D.
- Affiliations
- University of North Carolina at Chapel Hill (US)
- ORCID
- Griffith, J D
- Venue
- Journal of Virology
- Publisher
- American Society for Microbiology
- Published
- 1996-09
- Volume
- 70
- Issue
- 9
- Pages
- 6459-6462
- ISSN
- 0022-538X (ISSN-L)
- 1098-5514
- PMC
- PMC190680
- OpenAlex
- W1748806315
- Cited by
- 96
- References
- 1
- Citations by year
- 2025: 1 · 2024: 1 · 2023: 1 · 2022: 4 · 2020: 5 · 2017: 2 · 2016: 4 · 2015: 3 · 2014: 5 · 2012: 1
- FWCI
- 1.36
- Type
- journal article
- Language
- en
- Open access
- green
- www.ncbi.nlm.nih.gov
- Locations
- Journal of Virology (publishedVersion)
- PubMed Central (publishedVersion)
- PubMed (publishedVersion)
- Funders
- National Institutes of Health (5r01gm042342-11)
- National Institute of General Medical Sciences (GM-42342)
- Topics
- Life Sciences › Immunology and Microbiology › Virology › HIV Research and Treatment
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Virus-based gene therapy research
- Health Sciences › Medicine › Infectious Diseases › HIV/AIDS drug development and treatment
- Keywords
- HIV-1 integration, integrated provirus, Alu repetitive elements, viral integration sites
- MeSH terms
- Base Sequence, Cloning, Molecular, DNA, DNA, Viral, Escherichia coli, Genes, Bacterial, Humans, Molecular Sequence Data, Bacteriophage lambda, Proviruses, Repetitive Sequences, Nucleic Acid, RNA, Transfer, HIV-1, Genes, nef, Genes, Suppressor, Consensus Sequence, Virus Integration, Gene Deletion
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