ArticleJournal of molecular evolution2004
Abundance, distribution, and mutation rates of homopolymeric nucleotide runs in the genome of Caenorhabditis elegans.
Article in Journal of molecular evolution, 2004. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 38 papers.
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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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Who cites it
38 citing papers in PubMed, 86 citations in OpenAlex.
- ADBP-1 regulates ADR-2 nuclear localization to control editing substrate selection.Nucleic acids research · 2024Article
- Chromatin structure influences rate and spectrum of spontaneous mutations inGenome research · 2023Article
- Targeted next generation sequencing ofHeliyon · 2022Article
- Natural variation inGenome research · 2022Article
- Mutability of mononucleotide repeats, not oxidative stress, explains the discrepancy between laboratory-accumulated mutations and the natural allele-frequency spectrum inGenome research · 2021Article
- Molecular typing of Cyclospora cayetanensis in produce and clinical samples using targeted enrichment of complete mitochondrial genomes and next-generation sequencing.Parasites & vectors · 2020Article
- Article
- Evolution of the Mutational Process under Relaxed Selection in Caenorhabditis elegans.Molecular biology and evolution · 2019Article
- Mutational signatures of DNA mismatch repair deficiency inGenome research · 2018Article
- Analytical parameters and validation of homopolymer detection in a pyrosequencing-based next generation sequencing system.BMC genomics · 2018Article
- Article
- Genetic Drift and Indel Mutation in the Evolution of Yeast Mitochondrial Genome Size.Genome biology and evolution · 2017Article
- Reverse Transcription Errors and RNA-DNA Differences at Short Tandem Repeats.Molecular biology and evolution · 2016Article
- Article
- Accurate typing of short tandem repeats from genome-wide sequencing data and its applications.Genome research · 2015Article
- Somatic microsatellite variability as a predictive marker for colorectal cancer and liver cancer progression.Oncotarget · 2015Article
- The red death meets the abdominal bristle: polygenic mutation for susceptibility to a bacterial pathogen in Caenorhabditis elegans.Evolution; international journal of organic evolution · 2015Article
- Homopolymer tract organization in the human malarial parasite Plasmodium falciparum and related Apicomplexan parasites.BMC genomics · 2014Article
- Genome-wide variations in a natural isolate of the nematode Caenorhabditis elegans.BMC genomics · 2014Article
- Wild-type measles viruses with non-standard genome lengths.PloS one · 2014Article
Corrections and comments
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Authors and funding
8 authors at 5 institutions in 1 country.
Funding
Abstract
Homopolymeric nucleotide runs, also called mononucleotide microsatellites, are a ubiquitous, dominant, and mutagenic feature of eukaryotic genomes. A clear understanding of the forces that shape patterns of homopolymer evolution, however, is lacking. We provide a focused investigation of the abundance, chromosomal distribution, and mutation spectra of the four strand-specific homopolymer types (A, T, G, C) >or=8 bp in the genome of Caenorhabditis elegans. A and T homopolymers vastly outnumber G and C HPs, and the run-length distributions of A and T homopolymers differ significantly from G and C homopolymers. A scanning window analysis of homopolymer chromosomal distribution reveals distinct clusters of homopolymer density in autosome arms that are regions of high recombination in C. elegans. Dramatic biases are detected among closely spaced homopolymers; for instance, we observe 994 A homopolymers immediately followed by a T homopolymer (5' to 3') and only 8 instances of T homopolymers directly followed by an A homopolymer. Empirical homopolymer mutation assays in a set of C. elegans mutation-accumulation lines reveal an approximately 20-fold higher mutation rate for G and C homopolymers compared to A and T homopolymers. Nuclear A and T homopolymers are also found to mutate approximately 100-fold more slowly than mitochondrial A and T homopolymers. This integrative approach yields a total nuclear genome-wide homopolymer mutation rate estimate of approximately 1.6 mutations per genome per generation.
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