ArticleNucleic acids research2006
Sequence determinants of breakpoint location during HIV-1 intersubtype recombination.
Article in Nucleic acids research, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers.
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Who cites it
34 citing papers in PubMed.
- Conserved recombination patterns across hepatitis B genotypes: a retrospective study.Virology journal · 2025Article
- Genetic Evolution Between HIV-1 Groups M and O: HIV-1/MO Recombinant Forms.Journal of medical virology · 2025Review
- Chikungunya Virus RNA Secondary Structures Impact Defective Viral Genome Production.Microorganisms · 2024Article
- Is the Intergenic Region ofViruses · 2022Article
- Article
- Revisiting the recombinant history of HIV-1 group M with dynamic network community detection.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- HIV-1-Specific Immunodominant T-Cell Responses Drive the Dynamics of HIV-1 Recombination Following Superinfection.Frontiers in immunology · 2021Article
- Genome Sequencing of SAV3 Reveals Repeated Seeding Events of Viral Strains in Norwegian Aquaculture.Frontiers in microbiology · 2020Article
- Recombination is required for efficient HIV-1 replication and the maintenance of viral genome integrity.Nucleic acids research · 2018Article
- Tracking HIV-1 recombination to resolve its contribution to HIV-1 evolution in natural infection.Nature communications · 2018Article
- RNA Structure-A Neglected Puppet Master for the Evolution of Virus and Host Immunity.Frontiers in immunology · 2018Review
- Patterns of genomic site inheritance in HIV-1M inter-subtype recombinants delineate the most likely genomic sites of subtype-specific adaptation.Virus evolution · 2018Article
- An in vitro Model to Mimic Selection of Replication-Competent HIV-1 Intersubtype Recombination in Dual or Superinfected Patients.Journal of molecular biology · 2017Article
- Rare horizontal transmission does not hide long-term inheritance of SINE highly conserved domains in the metazoan evolution.Current zoology · 2016Article
- Buffering deleterious polymorphisms in highly constrained parts of HIV-1 envelope by flexible regions.Retrovirology · 2016Article
- Functional bottlenecks for generation of HIV-1 intersubtype Env recombinants.Retrovirology · 2015Article
- Trends of subtype variation of human immunodeficiency virus type 1 in Zhejiang Province, China.Virus genes · 2015Article
- COMET: adaptive context-based modeling for ultrafast HIV-1 subtype identification.Nucleic acids research · 2014Article
- Article
- Fifteen to twenty percent of HIV substitution mutations are associated with recombination.Journal of virology · 2014Article
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Authors and funding
10 authors.
Funding
Abstract
Retroviral recombination results from strand switching, during reverse transcription, between the two copies of genomic RNA present in the virus. We analysed recombination in part of the envelope gene, between HIV-1 subtype A and D strains. After a single infection cycle, breakpoints clustered in regions corresponding to the constant portions of Env. With some exceptions, a similar distribution was observed after multiple infection cycles, and among recombinant sequences in the HIV Sequence Database. We compared the experimental data with computer simulations made using a program that only allows recombination to occur whenever an identical base is present in the aligned parental RNAs. Experimental recombination was more frequent than expected on the basis of simulated recombination when, in a region spanning 40 nt from the 5' border of a breakpoint, no more than two discordant bases between the parental RNAs were present. When these requirements were not fulfilled, breakpoints were distributed randomly along the RNA, closer to the distribution predicted by computer simulation. A significant preference for recombination was also observed for regions containing homopolymeric stretches. These results define, for the first time, local sequence determinants for recombination between divergent HIV-1 isolates.
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