ArticleJournal of virology2007
Fitness landscape of human immunodeficiency virus type 1 protease quasispecies.
Article in Journal of virology, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
24 citing papers in PubMed, 54 citations in OpenAlex.
- Quasispecies theory and emerging viruses: challenges and applications.Npj viruses · 2024Review
- Puzzles, challenges, and information reservoir of SARS-CoV-2 quasispecies.Journal of virology · 2023Review
- A Two-Level, Intramutant Spectrum Haplotype Profile of Hepatitis C Virus Revealed by Self-Organized Maps.Microbiology spectrum · 2021Article
- SARS-CoV-2: lessons from both the history of medicine and from the biological behavior of other well-known viruses.Future microbiology · 2021Review
- Acquired HIV-1 Protease Conformational Flexibility Associated with Lopinavir Failure May Shape the Outcome of Darunavir Therapy after Antiretroviral Therapy Switch.Biomolecules · 2021Article
- Unusual Cysteine Content in V1 Region of gp120 From an Elite Suppressor That Produces Broadly Neutralizing Antibodies.Frontiers in immunology · 2019Article
- HIV-1 Protease Evolvability Is Affected by Synonymous Nucleotide Recoding.Journal of virology · 2018Article
- Quasispecies and virus.European biophysics journal : EBJ · 2018Review
- Insufficient Evidence for Rare Activation of Latent HIV in the Absence of Reservoir-Reducing Interventions.PLoS pathogens · 2016Article
- Similarities between Human Immunodeficiency Virus Type 1 and Hepatitis C Virus Genetic and Phenotypic Protease Quasispecies Diversity.Journal of virology · 2015Article
- Viral quasispecies.Virology · 2015Review
- Article
- Quantitative modeling of virus evolutionary dynamics and adaptation in serial passages using empirically inferred fitness landscapes.Journal of virology · 2014Article
- Realistic three dimensional fitness landscapes generated by self organizing maps for the analysis of experimental HIV-1 evolution.PloS one · 2014Article
- Changes in codon-pair bias of human immunodeficiency virus type 1 have profound effects on virus replication in cell culture.Retrovirology · 2013Article
- Multiple scales of selection influence the evolutionary emergence of novel pathogens.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2013Article
- Review
- A quantitative quasispecies theory-based model of virus escape mutation under immune selection.Proceedings of the National Academy of Sciences of the United States of America · 2012Article
- Viral quasispecies evolution.Microbiology and molecular biology reviews : MMBR · 2012Review
- Canine hepacivirus NS3 serine protease can cleave the human adaptor proteins MAVS and TRIF.PloS one · 2012Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Here we show, at a high resolution (1%), the human immunodeficiency virus type 1 (HIV-1) protease gene quasispecies landscape from three infected naïve individuals. A huge range of genetic configurations was found (67%, 71%, and 80% of the nucleotide clones from the three individuals, respectively, were different), and these configurations created a dense net that linked different parts of the viral population. Similarly, a vast diversity of different protease activities was also found. Importantly, 65% of the analyzed enzymes had detectable protease activity, and 11% of the minority individual variants showed similar or better fitness than the master (most abundant) enzyme, suggesting that the viral complexity in this genomic region does not exclusively depend on the enzyme's catalytic efficiency. Several high-fitness minority variants had only one substitution compared to the master sequence, supporting the possibility that the rugged HIV-1 protease quasispecies fitness landscape may be formed by a continuous network that can be traversed by single mutational steps without passing through defective or less-adapted proteins.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.