ArticleVirology2009
Small effective population sizes and rare nonsynonymous variants in potyviruses.
Article in Virology, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
11 citing papers in PubMed, 25 citations in OpenAlex.
- Imposed mutational meltdown as an antiviral strategy.Evolution; international journal of organic evolution · 2020Review
- Identification, genetic diversity and recombination analysis of3 Biotech · 2020Article
- The Potyviruses: An Evolutionary Synthesis Is Emerging.Viruses · 2020Review
- Genomic variations and distinct evolutionary rate of rare alleles in Arabidopsis thaliana.BMC evolutionary biology · 2016Article
- Molecular evolution of viral multifunctional proteins: the case of potyvirus HC-Pro.Journal of molecular evolution · 2014Article
- Weak selection and protein evolution.Genetics · 2012Review
- Deep sequencing reveals persistence of intra- and inter-host genetic diversity in natural and greenhouse populations of zucchini yellow mosaic virus.The Journal of general virology · 2012Article
- SIV genome-wide pyrosequencing provides a comprehensive and unbiased view of variation within and outside CD8 T lymphocyte epitopes.PloS one · 2012Article
- PolyAna: analyzing synonymous and nonsynonymous polymorphic sites.Conservation genetics resources · 2011Article
- Reassortment of ancient neuraminidase and recent hemagglutinin in pandemic (H1N1) 2009 virus.Emerging infectious diseases · 2010Article
- Conflicting selection pressures target the NS3 protein in hepatitis C virus genotypes 1a and 1b.Virus research · 2010Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
1 author at 1 institution in 1 country.
Funding
Abstract
Analysis of nucleotide sequence polymorphism in complete genomes of 12 species of potyviruses (single-stranded, positive-sense RNA viruses, family Potyviridae) revealed evidence that long-term effective population sizes of these viruses are on the order of 10(4). Comparison of nucleotide diversity in non-coding regions and at synonymous and nonsynonymous sites in coding regions showed that purifying selection has acted to eliminate numerous deleterious mutations both at nonsynonymous sites and in non-coding regions. The ratio of nonsynonymous to synonymous polymorphic sites increased as a function of the number of genomes sampled, whereas mean gene diversity at nonsynonymous polymorphic sites decreased with increasing sample size at a substantially faster rate than does mean gene diversity at synonymous polymorphic sites. Very similar relationships were observed both in available genomic sequences of 12 potyvirus species and in subsets created by randomly sampling from among 98 TuMV genomes. Taken together, these observations imply that a greater proportion of nonsynonymous than of synonymous variants are relatively rare as the result of ongoing purifying selection, and thus many nonsynonymous variants are unlikely to be discovered without extensive sampling.
Indexed as
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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.