ArticleCurrent biology : CB2016
The Effect of Local Sequence Context on Mutational Bias of Genes Encoded on the Leading and Lagging Strands.
Article in Current biology : CB, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 45 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
45 citing papers in PubMed.
- EMS mutation and SNP detection in intracellularmSystems · 2026Article
- Ribonucleotide errors, RNase HII, and ribonucleotide excision repair.Critical reviews in biochemistry and molecular biology · 2026Review
- Extended sequence context shapes mutational bias inProceedings of the National Academy of Sciences of the United States of America · 2026Article
- DNA polymerase I: structure, activity, and function in bacterial DNA replication and repair.Critical reviews in biochemistry and molecular biology · 2026Review
- The A, B, C, D's of replicative DNA polymerase fidelity: utilizing high-throughput single-molecule sequencing to understand the molecular basis for DNA polymerase accuracy.Nucleic acids research · 2025Article
- GnT Motifs Can Increase T:A→G:C Mutation Rates Over 1000-fold in Bacteria.Molecular biology and evolution · 2025Article
- Reduced Genetic Heterogeneity for Stable Bioproduction by Harnessing the Bias and Mechanism of Mutation.Microbial biotechnology · 2025Article
- The mutational landscape of Bacillus subtilis conditional hypermutators shows how proofreading skews DNA polymerase error rates.Nucleic acids research · 2025Article
- Harnessing microbial heterogeneity for improved biosynthesis fueled by synthetic biology.Synthetic and systems biotechnology · 2025Review
- Genetic identification of mutations and MLST types associated with decreased susceptibility to ceftriaxone inFrontiers in microbiology · 2025Article
- Clues to transcription/replication collision-induced DNA damage: it was RNAP, in the chromosome, with the fork.FEBS letters · 2025Review
- Mutational Signatures in Wild Type Escherichia coli Strains Reveal Predominance of DNA Polymerase Errors.Genome biology and evolution · 2024Article
- 8-Oxoadenine: A «New» Player of the Oxidative Stress in Mammals?International journal of molecular sciences · 2024Review
- Mutation bias and adaptation in bacteria.Microbiology (Reading, England) · 2023Review
- RNase H genes cause distinct impacts on RNA:DNA hybrid formation and mutagenesis genome wide.Science advances · 2023Article
- RNase H genes cause distinct impacts on RNA:DNA hybrid formation and mutagenesis genome-wide.bioRxiv : the preprint server for biology · 2023Article
- CDMAP/CDVIS: context-dependent mutation analysis package and visualization software.G3 (Bethesda, Md.) · 2023Article
- Interplay between chromosomal architecture and termination of DNA replication in bacteria.Frontiers in microbiology · 2023Review
- The Impact of RNA-DNA Hybrids on Genome Integrity in Bacteria.Annual review of microbiology · 2022Review
- Bacterial DNA excision repair pathways.Nature reviews. Microbiology · 2022Review
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Authors and funding
4 authors.
Funding
Abstract
All organisms must replicate their genetic information accurately to ensure its faithful transmission. DNA polymerase errors provide an important source of genetic variation that can drive evolution. Understanding the origins of genetic variation will inform our understanding of evolution and the development of genetic diseases. A number of factors have been proposed to influence mutagenesis [1-10]. Here, we used mutation accumulation lines, whole-genome sequencing, and whole-transcriptome analysis to study the locations and rate at which mutations arise in bacteria with as little selection bias as possible [11, 12]. Our analysis of greater than 7,000 replication errors in over 180 sequenced lines that underwent a total of more than 370,000 generations has provided new insights into how DNA polymerase errors sculpt genetic variation and drive evolution. Homopolymer run enrichment outside of genes causes insertions and deletions in these regions. Genes encoded in the lagging strand are transcribed such that RNA polymerase and DNA polymerase collide head-on. Head-on genes have been proposed to mutate at a higher rate than genes transcribed codirectionally with DNA polymerase progression due to conflicts between transcription and DNA replication [6, 10]. We did not detect associations between the number of base pair substitutions in genes and their orientation or expression. Strikingly, any higher mutation rate for head-on genes can be explained by differing sequence composition between the leading and lagging strands and the error bias for DNA polymerase in specific sequence contexts. Therefore, we find local sequence context is the major determinant of mutagenesis in bacteria.
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