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Coupling between Sequence-Mediated Nucleosome Organization and Genome Evolution.

Jérémy Barbier1,2, Cédric Vaillant2, Jean-Nicolas Volff1

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DNA sequence influences nucleosome positioning, affecting gene regulation and evolution. This review explores how DNA sequence and nucleosome positioning co-evolve, impacting cellular processes and genome evolution.

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Area of Science:

  • Molecular Biology
  • Evolutionary Biology
  • Genomics

Background:

  • Nucleosomes are fundamental units of DNA packaging, significantly impacting DNA accessibility.
  • Nucleosome positioning is crucial for regulating essential cellular processes like transcription, replication, recombination, and DNA repair.
  • DNA sequence motifs and other factors, including ATP-dependent remodelers and competing DNA-binding proteins, dictate nucleosome positioning.

Purpose of the Study:

  • To review the interplay between DNA sequence evolution and nucleosome positioning evolution.
  • To examine how DNA sequences encode nucleosome positions and their in vivo genome-wide relevance.
  • To discuss the evolutionary selection of sequences based on their nucleosomal properties and the influence of nucleosomes on DNA repair and sequence evolution.

Main Methods:

  • Literature review of studies on nucleosome positioning, DNA sequence, and evolution.
  • Analysis of mechanisms encoding nucleosome positions within DNA sequences.
  • Examination of evolutionary selection pressures related to nucleosomal properties and DNA repair interactions.

Main Results:

  • DNA sequence motifs significantly influence nucleosome formation and DNA accessibility.
  • Sequence-encoded nucleosome positioning has functional consequences that are subject to evolutionary selection.
  • Nucleosomes can directly impact sequence evolution through their interactions with DNA damage and repair pathways.

Conclusions:

  • A dynamic interplay exists between DNA sequence evolution and nucleosome positioning evolution.
  • Understanding this co-evolution is key to comprehending complex evolutionary dynamics within genomes.
  • Nucleosome positioning is a significant evolutionary force shaping DNA sequences and cellular functions.