ArticleJournal of virology2011
Exploring the fitness landscape of an RNA virus by using a universal barcode microarray.
Article in Journal of virology, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
30 citing papers in PubMed.
- Review
- The importance of epistasis in the evolution of viral pathogens.Virus evolution · 2025Review
- Self-replicating artificial neural networks give rise to universal evolutionary dynamics.PLoS computational biology · 2024Article
- Influenza virus transcription and progeny production are poorly correlated in single cells.eLife · 2023Article
- Interpreting and de-noising genetically engineered barcodes in a DNA virus.PLoS computational biology · 2022Article
- Influenza A virus undergoes compartmentalized replication in vivo dominated by stochastic bottlenecks.Nature communications · 2022Article
- Reinventing positive-strand RNA virus reverse genetics.Advances in virus research · 2022Article
- barCoder: a tool to generate unique, orthogonal genetic tags for qPCR detection.BMC bioinformatics · 2021Article
- Machine-learning a virus assembly fitness landscape.PloS one · 2021Article
- Alphaherpesvirus Genomics: Past, Present and Future.Current issues in molecular biology · 2021Review
- Using barcoded Zika virus to assess virus population structure in vitro and in Aedes aegypti mosquitoes.Virology · 2018Article
- On the networked architecture of genotype spaces and its critical effects on molecular evolution.Open biology · 2018Review
- Cardiovascular Involvement in Chronic Hepatitis C Virus Infections - Insight from Novel Antiviral Therapies.Journal of clinical and translational hepatology · 2018Review
- Quantitative characterization of all single amino acid variants of a viral capsid-based drug delivery vehicle.Nature communications · 2018Article
- Molecularly barcoded Zika virus libraries to probe in vivo evolutionary dynamics.PLoS pathogens · 2018Article
- RNA Virus Evolution via a Quasispecies-Based Model Reveals a Drug Target with a High Barrier to Resistance.Viruses · 2017Article
- Gene Expression Correlates with the Number of Herpes Viral Genomes Initiating Infection in Single Cells.PLoS pathogens · 2016Article
- Adaptive Landscape by Environment Interactions Dictate Evolutionary Dynamics in Models of Drug Resistance.PLoS computational biology · 2016Article
- Viral quasispecies.Virology · 2015Review
- Influenza A virus transmission bottlenecks are defined by infection route and recipient host.Cell host & microbe · 2014Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
2 authors.
Funding
Abstract
Studies of viral pathogenesis have relied heavily on analyses of specific clones and their genetic determinants of virulence. It is sometimes difficult to apply this reductionist approach to the study of RNA viruses, which by virtue of their very high mutation rates, exist as a complex mixture of mutants. While quasispecies theory has provided an intellectual framework for exploring the relationship between the viral population structure and phenotype, experimental studies have been limited by the relatively poor resolution of traditional sequencing-based approaches. We have addressed this problem by developing a molecular barcoding strategy in which viral subpopulations are tagged with unique 20-nucleotide sequences. The behavior of these subpopulations can be monitored using a universal barcode microarray. We demonstrate the performance of our barcode microarray platform using poliovirus, a model RNA virus. Using this platform, we explored the fitness landscape occupied by an artificial quasispecies consisting of 48 randomly mutagenized clones. We were able to rapidly derive precise fitness measurements for a majority of these clones and identified a neutral space surrounding the wild type. The experimental paradigm presented here is readily adaptable to other viral systems and can potentially be used to track thousands of variants in a cost-effective manner.
Indexed as
Identifiers
What OpenQuestion holds
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.