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Related Experiment Video

Updated: May 29, 2026

Studying Ribonucleotide Incorporation: Strand-specific Detection of Ribonucleotides in the Yeast Genome and Measuring Ribonucleotide-induced Mutagenesis
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Published on: July 26, 2018

DNA replication induces compositional biases in yeast.

Marie-Claude Marsolier-Kergoat1, Arach Goldar

  • 1Institut de Biologie et de Technologies de Saclay, CEA/Saclay, Gif-sur-Yvette, France. mcmk@cea.fr

Molecular Biology and Evolution
|September 28, 2011
PubMed
Summary

Replication processes create DNA compositional biases in yeast genomes, with leading strands enriched in cytosine and adenine. These biases, influenced by ancient substitution rates, are common in eukaryotes despite varied replication origin activity.

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G2-seq: A High Throughput Sequencing-based Technique for Identifying Late Replicating Regions of the Genome

Published on: March 22, 2018

Area of Science:

  • Genomics
  • Molecular Biology
  • Evolutionary Biology

Background:

  • DNA replication asymmetries are known to cause compositional biases in eubacterial genomes.
  • Such biases are rarely observed in eukaryotes, with only a minority of human replication origins showing this effect.
  • The role of replication-associated compositional biases in eukaryotic genome evolution remains incompletely understood.

Purpose of the Study:

  • To investigate replication-associated GC and TA skews in yeast genomes (Saccharomyces cerevisiae, Kluyveromyces lactis, Schizosaccharomyces pombe).
  • To compare compositional biases in yeast with those in Homo sapiens and eubacteria.
  • To explore the evolutionary origins and implications of these biases in S. cerevisiae.

Main Methods:

  • Comparative genomic analysis of DNA sequences from S. cerevisiae, K. lactis, and S. pombe.
  • Assessment of GC and TA skews across leading and lagging strands.
  • Analysis of substitution rates and evolutionary divergence between yeast species.

Main Results:

  • Evidence for replication-associated GC and TA skews in S. cerevisiae and K. lactis genomes.
  • Leading strands in S. cerevisiae and K. lactis are enriched in cytosine and adenine, contrasting with H. sapiens and eubacteria.
  • S. cerevisiae genome exhibits significant variations in substitution rates and is not at compositional equilibrium, with biases predating divergence from S. paradoxus.
  • Replication and transcription are frequently co-oriented in S. cerevisiae, particularly for genes in protein complexes.

Conclusions:

  • Replication-associated compositional biases are likely a common feature in eukaryotic genomes, even with stochastic replication origin firing.
  • The observed biases in yeast suggest evolutionary constraints and historical substitution patterns play a significant role.
  • Co-orientation of replication and transcription may be linked to the maintenance of these genomic biases.