ArticleProceedings of the National Academy of Sciences of the United States of America2008
Coordinated evolution of the hepatitis C virus.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers.
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Who cites it
35 citing papers in PubMed, 72 citations in OpenAlex.
- Article
- Early detection of emerging viral variants through analysis of community structure of coordinated substitution networks.Nature communications · 2024Article
- Polyvalent immunization elicits a synergistic broadly neutralizing immune response to hypervariable region 1 variants of hepatitis C virus.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- A Novel Information-Theory-Based Genetic Distance That Approximates Phenotypic Differences.Journal of computational biology : a journal of computational molecular cell biology · 2023Article
- Quantitative differences between intra-host HCV populations from persons with recently established and persistent infections.Virus evolution · 2021Article
- Positional Correlation Natural Vector: A Novel Method for Genome Comparison.International journal of molecular sciences · 2020Article
- Machine learning can accelerate discovery and application of cyber-molecular cancer diagnostics.Journal of medical artificial intelligence · 2020Article
- Antigenic Variability.Frontiers in immunology · 2020Article
- Identifying immunologically-vulnerable regions of the HCV E2 glycoprotein and broadly neutralizing antibodies that target them.Nature communications · 2019Article
- Interacting networks of resistance, virulence and core machinery genes identified by genome-wide epistasis analysis.PLoS genetics · 2017Article
- Polyprotein-Driven Formation of Two Interdependent Sets of Complexes Supporting Hepatitis C Virus Genome Replication.Journal of virology · 2015Article
- Coordinated rates of evolution between interacting plastid and nuclear genes in Geraniaceae.The Plant cell · 2015Article
- Article
- Host proteins associated with Hepatitis C virus encoded NS4A.Virusdisease · 2014Article
- Statistical linkage analysis of substitutions in patient-derived sequences of genotype 1a hepatitis C virus nonstructural protein 3 exposes targets for immunogen design.Journal of virology · 2014Article
- Drug resistance of a viral population and its individual intrahost variants during the first 48 hours of therapy.Clinical pharmacology and therapeutics · 2014Article
- Genetic host specificity of hepatitis E virus.Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases · 2014Article
- HCV genome-wide genetic analyses in context of disease progression and hepatocellular carcinoma.PloS one · 2014Article
- Evolutionary characterization of the pandemic H1N1/2009 influenza virus in humans based on non-structural genes.PloS one · 2013Article
- Level of gene expression is a major determinant of protein evolution in the viral order Mononegavirales.Journal of virology · 2012Article
Corrections and comments
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Authors and funding
5 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Hepatitis C virus is a genetically heterogeneous RNA virus that is a major cause of liver disease worldwide. Here, we show that, despite its extensive heterogeneity, the evolution of hepatitis C virus is primarily shaped by negative selection and that numerous coordinated substitutions in the polyprotein can be organized into a scale-free network whose degree of connections between sites follows a power-law distribution. This network shares all major properties with many complex biological and technological networks. The topological structure and hierarchical organization of this network suggest that a small number of amino acid sites exert extensive impact on hepatitis C virus evolution. Nonstructural proteins are enriched for negatively selected sites of high centrality, whereas structural proteins are enriched for positively selected sites located in the periphery of the network. The complex network of coordinated substitutions is an emergent property of genetic systems with implications for evolution, vaccine research, and drug development. In addition to such properties as polymorphism or strength of selection, the epistatic connectivity mapped in the network is important for typing individual sites, proteins, or entire genetic systems. The network topology may help devise molecular intervention strategies for disrupting viral functions or impeding compensatory changes for vaccine escape or drug resistance mutations. Also, it may be used to find new therapeutic targets, as suggested in this study for the NS4A protein, which plays an important role in the network.
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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.