ArticleJournal of virology2017
On the Analysis of Intrahost and Interhost Viral Populations: Human Cytomegalovirus as a Case Study of Pitfalls and Expectations.
Article in Journal of virology, 2017. 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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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.
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Who cites it
24 citing papers in PubMed.
- Article
- Intra-host genomic diversity and integration landscape of human tissue-resident DNA virome.Nucleic acids research · 2024Article
- Developing an appropriate evolutionary baseline model for the study of SARS-CoV-2 patient samples.PLoS pathogens · 2023Review
- Viral intra-host evolutionary dynamics revealed via serial passage of Japanese encephalitis virusVirus evolution · 2023Article
- The impact of frequently neglected model violations on bacterial recombination rate estimation: a case study in Mycobacterium canettii and Mycobacterium tuberculosis.G3 (Bethesda, Md.) · 2022Article
- Pathogenesis of Wild-Type-Like Rhesus Cytomegalovirus Strains following Oral Exposure of Immune-Competent Rhesus Macaques.Journal of virology · 2022Article
- Inferring the distribution of fitness effects in patient-sampled and experimental virus populations: two case studies.Heredity · 2022Article
- Identifying high-confidence variants in human cytomegalovirus genomes sequenced from clinical samples.Virus evolution · 2022Article
- Common Polymorphisms in the Glycoproteins of Human Cytomegalovirus and Associated Strain-Specific Immunity.Viruses · 2021Review
- Quantifying the Evolutionary Constraints and Potential of Hepatitis C Virus NS5A Protein.mSystems · 2021Article
- Patient-derived SARS-CoV-2 mutations impact viral replication dynamics and infectivity in vitro and with clinical implications in vivo.Cell discovery · 2020Article
- Where do we Stand after Decades of Studying Human Cytomegalovirus?Microorganisms · 2020Review
- Evaluating the contributions of purifying selection and progeny-skew in dictating within-host Mycobacterium tuberculosis evolution.Evolution; international journal of organic evolution · 2020Article
- Intrahost cytomegalovirus population genetics following antibody pretreatment in a monkey model of congenital transmission.PLoS pathogens · 2020Article
- A consideration of within-host human cytomegalovirus genetic variation.Proceedings of the National Academy of Sciences of the United States of America · 2020Article
- Cytomegalovirus-Specific T Cell Epitope Recognition in Congenital Cytomegalovirus Mother-Infant Pairs.Frontiers in immunology · 2020Article
- Wide spectrum and high frequency of genomic structural variation, including transposable elements, in large double-stranded DNA viruses.Virus evolution · 2020Article
- Association of CMV genomic mutations with symptomatic infection and hearing loss in congenital CMV infection.BMC infectious diseases · 2019Article
- Genotypic and Phenotypic Diversity of Herpes Simplex Virus 2 within the Infected Neonatal Population.mSphere · 2019Article
- HCMV Envelope Glycoprotein Diversity Demystified.Frontiers in microbiology · 2019Article
Corrections and comments
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Authors and funding
5 authors.
Funding
Abstract
Intrahost and interhost assessments of viral diversity are often treated as measures of separate and distinct evolutionary processes, with numerous investigations reporting seemingly incompatible results between the two. For example, in human cytomegalovirus, the nucleotide diversity estimates are 10-fold higher for interhost data, while the number of segregating (i.e., polymorphic) sites is 6-fold lower. These results have been interpreted as demonstrating that sampled intrahost variants are strongly deleterious. In reality, however, these observations are fully consistent with standard population genetic expectations. Here, we analyze published intra- and interhost data sets within this framework, utilizing statistical inference tools to quantify the fitness effects of segregating mutations. Further, we utilize population level simulations to clarify expectations under common evolutionary models. Contrary to common claims in the literature, these results suggest that most observed polymorphisms are likely nearly neutral with regard to fitness and that standard population genetic models in fact well predict observed levels of both intra- and interhost variability.
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