ArticleJournal of virology2010
Hepatitis C virus transmission bottlenecks analyzed by deep sequencing.
Article in Journal of virology, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. It is linked to trial NCT01707849 (An Unicenter, Prospective, Randomized, Pilot Study Comparing the Effect of Everolimus-containing Versus mTOR Inhibitor Free Immunosuppression in the Evolution of Hepatitis C Fibrosis After Liver Transplantation.), which is not on this map. Cited by 86 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.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
An Unicenter, Prospective, Randomized, Pilot Study Comparing the Effect of Everolimus-containing Versus mTOR Inhibitor Free Immunosuppression in the Evolution of Hepatitis C Fibrosis After Liver Transplantation.
Who cites it
86 citing papers in PubMed.
- High multiplicity infection following transplantation of hepatitis C virus-positive organs.The Journal of clinical investigation · 2019Trial
- Elucidation of hepatitis C virus transmission and early diversification by single genome sequencing.PLoS pathogens · 2012Trial
- Quantifying the diversification of hepatitis C virus (HCV) during primary infection: estimates of the in vivo mutation rate.PLoS pathogens · 2012Trial
- Viral expansion after transfer is a primary driver of influenza A virus transmission bottlenecks.PLoS biology · 2025Article
- Viral expansion after transfer is a primary driver of influenza A virus transmission bottlenecks.bioRxiv : the preprint server for biology · 2025Article
- Article
- Update on Hepatitis C Vaccine: Results and Challenges.Viruses · 2024Review
- Validation of a Genotype-Independent Hepatitis C Virus Near-Whole Genome Sequencing Assay.Viruses · 2021Article
- Intra-host evolutionary dynamics of the hepatitis C virus among people who inject drugs.Scientific reports · 2021Article
- Cross-scale dynamics and the evolutionary emergence of infectious diseases.Virus evolution · 2021Article
- Quantifying between-Host Transmission in Influenza Virus Infections.Cold Spring Harbor perspectives in medicine · 2020Review
- Estimating viral bottleneck sizes for FMDV transmission within and between hosts and implications for the rate of viral evolution.Interface focus · 2020Article
- CpG-creating mutations are costly in many human viruses.Evolutionary ecology · 2020Article
- Review
- Building a mechanistic mathematical model of hepatitis C virus entry.PLoS computational biology · 2019Article
- Full-Length Envelope Analyzer (FLEA): A tool for longitudinal analysis of viral amplicons.PLoS computational biology · 2018Article
- Laboratory Methods in Molecular Epidemiology: Viral Infections.Microbiology spectrum · 2018Review
- HIV-1 and hepatitis C virus selection bottleneck in Chinese people who inject drugs.AIDS (London, England) · 2018Article
- Next-generation sequencing analysis of a cluster of hepatitis C virus infections in a haematology and oncology center.PloS one · 2018Article
- Mosquito bottlenecks alter viral mutant swarm in a tissue and time-dependent manner with contraction and expansion of variant positions and diversity.Virus evolution · 2018Article
26 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors.
Funding
Abstract
Hepatitis C virus (HCV) replication in infected patients produces large and diverse viral populations, which give rise to drug-resistant and immune escape variants. Here, we analyzed HCV populations during transmission and diversification in longitudinal and cross-sectional samples using 454/Roche pyrosequencing, in total analyzing 174,185 sequence reads. To sample diversity, four locations in the HCV genome were analyzed, ranging from high diversity (the envelope hypervariable region 1 [HVR1]) to almost no diversity (the 5' untranslated region [UTR]). For three longitudinal samples for which early time points were available, we found that only 1 to 4 viral variants were present, suggesting that productive infection was initiated by a very small number of HCV particles. Sequence diversity accumulated subsequently, with the 5' UTR showing almost no diversification while the envelope HVR1 showed >100 variants in some subjects. Calculation of the transmission probability for only a single variant, taking into account the measured population structure within patients, confirmed initial infection by one or a few viral particles. These findings provide the most detailed sequence-based analysis of HCV transmission bottlenecks to date. The analytical methods described here are broadly applicable to studies of viral diversity using deep sequencing.
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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.