ArticleMolecular genetics and genomics : MGG2009
A model for the spatiotemporal organization of DNA replication in Saccharomyces cerevisiae.
Article in Molecular genetics and genomics : MGG, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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16 citing papers in PubMed.
- Regulation of replication timing in Saccharomyces cerevisiae.PLoS computational biology · 2025Article
- Stochasticity of replication forks' speeds plays a key role in the dynamics of DNA replication.PLoS computational biology · 2019Article
- 3D replicon distributions arise from stochastic initiation and domino-like DNA replication progression.Nature communications · 2016Article
- Mathematical modeling of genome replication.Physical review. E, Statistical, nonlinear, and soft matter physics · 2012Article
- Replication timing and its emergence from stochastic processes.Trends in genetics : TIG · 2012Review
- A quantitative model of the initiation of DNA replication in Saccharomyces cerevisiae predicts the effects of system perturbations.BMC systems biology · 2012Article
- Optimal placement of origins for DNA replication.Physical review letters · 2012Article
- Modeling inhomogeneous DNA replication kinetics.PloS one · 2012Article
- Dynamics of DNA replication in yeast.Physical review letters · 2011Article
- Mathematical modelling of whole chromosome replication.Nucleic acids research · 2010Article
- Mathematical modelling of DNA replication reveals a trade-off between coherence of origin activation and robustness against rereplication.PLoS computational biology · 2010Article
- Replication origins and timing of temporal replication in budding yeast: how to solve the conundrum?Current genomics · 2010Article
- What influences DNA replication rate in budding yeast?PloS one · 2010Article
- Mathematical modelling of eukaryotic DNA replication.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2010Article
- Molecular analysis of the replication program in unicellular model organisms.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2010Article
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3 authors.
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Abstract
DNA replication in eukaryotes is considered to proceed according to a precise program in which each chromosomal region is duplicated in a defined temporal order. However, recent studies reveal an intrinsic temporal disorder in the replication of yeast chromosome VI. Here we provide a model of the chromosomal duplication to study the temporal sequence of origin activation in budding yeast. The model comprises four parameters that influence the DNA replication system: the lengths of the chromosomes, the explicit chromosomal positions for all replication origins as well as their distinct initiation times and the replication fork migration rate. The designed model is able to reproduce the available experimental data in form of replication profiles. The dynamics of DNA replication was monitored during simulations of wild type and randomly perturbed replication conditions. Severe loss of origin function showed only little influence on the replication dynamics, so systematic deletions of origins (or loss of efficiency) were simulated to provide predictions to be tested experimentally. The simulations provide new insights into the complex system of DNA replication, showing that the system is robust to perturbation, and giving hints about the influence of a possible disordered firing.
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