ArticleProceedings of the National Academy of Sciences of the United States of America2005
Replication-associated strand asymmetries in mammalian genomes: toward detection of replication origins.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 68 papers.
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Who cites it
68 citing papers in PubMed, 145 citations in OpenAlex.
- Characterization and Phylogenomic Implications of the Mitochondrial Genome ofEcology and evolution · 2026Article
- Specific origin selection and excess functional MCM2-7 loading in ORC-deficient cells.Nucleic acids research · 2025Article
- The double life of mammalian DNA replication origins.Genes & development · 2025Review
- Monitoring and quantifying replication fork dynamics with high-throughput methods.Communications biology · 2024Review
- Transcription-Replication Conflicts as a Source of Genome Instability.Annual review of genetics · 2023Review
- Genome-wide measurement of DNA replication fork directionality and quantification of DNA replication initiation and termination with Okazaki fragment sequencing.Nature protocols · 2023Review
- Strand asymmetries across genomic processes.Computational and structural biotechnology journal · 2023Review
- DNA replication initiation shapes the mutational landscape and expression of the human genome.Science advances · 2022Article
- Determination of human DNA replication origin position and efficiency reveals principles of initiation zone organisation.Nucleic acids research · 2022Article
- Genomic patterns of transcription-replication interactions in mouse primary B cells.Nucleic acids research · 2022Article
- Evolutionary advantage of anti-parallel strand orientation of duplex DNA.Scientific reports · 2020Article
- Genomic methods for measuring DNA replication dynamics.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2020Review
- Evolution of replication origins in vertebrate genomes: rapid turnover despite selective constraints.Nucleic acids research · 2019Article
- Genome-wide de novo L1 Retrotransposition Connects Endonuclease Activity with Replication.Cell · 2019Article
- Evolution of Genomic Base Composition: From Single Cell Microbes to Multicellular Animals.Computational and structural biotechnology journal · 2019Review
- Article
- Genome-wide identification and characterisation of human DNA replication origins by initiation site sequencing (ini-seq).Nucleic acids research · 2016Article
- Mutational Strand Asymmetries in Cancer Genomes Reveal Mechanisms of DNA Damage and Repair.Cell · 2016Article
- Replication landscape of the human genome.Nature communications · 2016Article
- Short Exon Detection via Wavelet Transform Modulus Maxima.PloS one · 2016Article
8 more citing papers are in PubMed but not listed here.
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Authors and funding
7 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In the course of evolution, mutations do not affect both strands of genomic DNA equally. This imbalance mainly results from asymmetric DNA mutation and repair processes associated with replication and transcription. In prokaryotes, prevalence of G over C and T over A is frequently observed in the leading strand. The sign of the resulting TA and GC skews changes abruptly when crossing replication-origin and termination sites, producing characteristic step-like transitions. In mammals, transcription-coupled skews have been detected, but so far, no bias has been associated with replication. Here, analysis of intergenic and transcribed regions flanking experimentally identified human replication origins and the corresponding mouse and dog homologous regions demonstrates the existence of compositional strand asymmetries associated with replication. Multiscale analysis of human genome skew profiles reveals numerous transitions that allow us to identify a set of 1,000 putative replication initiation zones. Around these putative origins, the skew profile displays a characteristic jagged pattern also observed in mouse and dog genomes. We therefore propose that in mammalian cells, replication termination sites are randomly distributed between adjacent origins. Taken together, these analyses constitute a step toward genome-wide studies of replication mechanisms.
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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.