ArticleGenome research2005
The scale of mutational variation in the murid genome.
Article in Genome research, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 49 papers.
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Who cites it
49 citing papers in PubMed, 84 citations in OpenAlex.
- Genomic diversity landscapes in outcrossing and selfing Caenorhabditis nematodes.PLoS genetics · 2023Article
- Does rapid sequence divergence preclude RNA structure conservation in vertebrates?Nucleic acids research · 2022Article
- Non-B DNA: a major contributor to small- and large-scale variation in nucleotide substitution frequencies across the genome.Nucleic acids research · 2021Article
- FERMI: A Novel Method for Sensitive Detection of Rare Mutations in Somatic Tissue.G3 (Bethesda, Md.) · 2019Article
- Evolution of Local Mutation Rate and Its Determinants.Molecular biology and evolution · 2017Article
- Preferential Protection of Genetic Fidelity within Open Chromatin by the Mismatch Repair Machinery.The Journal of biological chemistry · 2016Article
- Simulating Next-Generation Sequencing Datasets from Empirical Mutation and Sequencing Models.PloS one · 2016Article
- Breaking bad: The mutagenic effect of DNA repair.DNA repair · 2015Review
- The effects of chromatin organization on variation in mutation rates in the genome.Nature reviews. Genetics · 2015Review
- Natural Selection and Functional Potentials of Human Noncoding Elements Revealed by Analysis of Next Generation Sequencing Data.PloS one · 2015Article
- Segmenting the human genome based on states of neutral genetic divergence.Proceedings of the National Academy of Sciences of the United States of America · 2013Article
- The effect of variation in the effective population size on the rate of adaptive molecular evolution in eukaryotes.Genome biology and evolution · 2012Article
- What fraction of the human genome is functional?Genome research · 2011Review
- Variation in the mutation rate across mammalian genomes.Nature reviews. Genetics · 2011Review
- New words in human mutagenesis.BMC bioinformatics · 2011Article
- Substitution rate variation at human CpG sites correlates with non-CpG divergence, methylation level and GC content.Genome biology · 2011Article
- Late replicating domains are highly recombining in females but have low male recombination rates: implications for isochore evolution.PloS one · 2011Article
- A genome-wide view of mutation rate co-variation using multivariate analyses.Genome biology · 2011Article
- The mutational spectrum of non-CpG DNA varies with CpG content.Genome research · 2010Article
- The genomic distribution and local context of coincident SNPs in human and chimpanzee.Genome biology and evolution · 2010Article
Corrections and comments
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Authors and funding
2 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Mutation rates vary across mammalian genomes, but little is known about the scale over which this variation occurs. Knowledge of the magnitude and scale of mutational variation is required to understand the processes that drive mutation, and is essential in formulating a robust null hypothesis for comparative genomics studies. Here we estimate the scale of mutational variation in the murid genome by calculating the spatial autocorrelation of nucleotide substitution rates in ancestral repeats. Such transposable elements are good candidates for neutrally evolving sequence and therefore well suited for the study of mutation rate variation. We find that the autocorrelation coefficient decays to a value close to zero by approximately 15 Mb, with little apparent variation in mutation rate under 100 kb. We conclude that the primary scale over which mutation rates vary is subchromosomal. Furthermore, our analysis shows that within-chromosome mutational variability exceeds variation among chromosomes by approximately one order of magnitude. Thus, differences in mutation rate between different regions of the same chromosome frequently exceed differences both between whole autosomes and between autosomes and the X-chromosome. Our results indicate that factors other than the time spent in the male germ line are important in driving mutation rates. This raises questions about the biological mechanism(s) that produce new mutations and has implications for the study of male-driven evolution.
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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.