ArticleGenetics2002
The evolution of isochores: evidence from SNP frequency distributions.
Article in Genetics, 2002. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 33 papers.
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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
33 citing papers in PubMed.
- Emergence of enhancers at late DNA replicating regions.Nature communications · 2024Article
- Intragenomic variation in non-adaptive nucleotide biases causes underestimation of selection on synonymous codon usage.PLoS genetics · 2022Article
- Unusual mammalian usage of TGA stop codons reveals that sequence conservation need not imply purifying selection.PLoS biology · 2022Article
- Inferring Adaptive Codon Preference to Understand Sources of Selection Shaping Codon Usage Bias.Molecular biology and evolution · 2021Article
- Evidence for Strong Mutation Bias toward, and Selection against, U Content in SARS-CoV-2: Implications for Vaccine Design.Molecular biology and evolution · 2021Article
- A century of bias in genetics and evolution.Heredity · 2019Review
- Tetrad analysis in plants and fungi finds large differences in gene conversion rates but no GC bias.Nature ecology & evolution · 2018Article
- Population genomics of picophytoplankton unveils novel chromosome hypervariability.Science advances · 2017Article
- Decoding mechanisms by which silent codon changes influence protein biogenesis and function.The international journal of biochemistry & cell biology · 2015Review
- Evolutionary patterns of DNA base composition and correlation to polymorphisms in DNA repair systems.Nucleic acids research · 2015Article
- The influence of genomic context on mutation patterns in the human genome inferred from rare variants.Genome research · 2013Article
- Twisted signatures of GC-biased gene conversion embedded in an evolutionary stable karyotype.Molecular biology and evolution · 2013Article
- Recombination is associated with the evolution of genome structure and worker behavior in honey bees.Proceedings of the National Academy of Sciences of the United States of America · 2012Article
- Variation in the mutation rate across mammalian genomes.Nature reviews. Genetics · 2011Review
- Interspecific and intragenic differences in codon usage bias among vertebrate myosin heavy-chain genes.Journal of molecular evolution · 2011Article
- Ongoing GC-biased evolution is widespread in the human genome and enriched near recombination hot spots.Genome biology and evolution · 2011Article
- Evidence that mutation is universally biased towards AT in bacteria.PLoS genetics · 2010Article
- Article
- Non-neutral processes drive the nucleotide composition of non-coding sequences in Drosophila.Biology letters · 2008Article
- The impact of recombination on nucleotide substitutions in the human genome.PLoS genetics · 2008Article
Corrections and comments
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The large-scale systematic variation in nucleotide composition along mammalian and avian genomes has been a focus of the debate between neutralist and selectionist views of molecular evolution. Here we test whether the compositional variation is due to mutation bias using two new tests, which do not assume compositional equilibrium. In the first test we assume a standard population genetics model, but in the second we make no assumptions about the underlying population genetics. We apply the tests to single-nucleotide polymorphism data from noncoding regions of the human genome. Both models of neutral mutation bias fit the frequency distributions of SNPs segregating in low- and medium-GC-content regions of the genome adequately, although both suggest compositional nonequilibrium. However, neither model fits the frequency distribution of SNPs from the high-GC-content regions. In contrast, a simple population genetics model that incorporates selection or biased gene conversion cannot be rejected. The results suggest that mutation biases are not solely responsible for the compositional biases found in noncoding regions.
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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.