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Modular sequence elements associated with origin regions in eukaryotic chromosomal DNA

D L Dobbs1, W L Shaiu, R M Benbow

  • 1Department of Zoology and Genetics, Iowa State University, Ames 50011.

Nucleic Acids Research
|July 11, 1994
PubMed
Summary
This summary is machine-generated.

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Computer analysis identified a consensus DNA sequence within eukaryotic replication origins. This sequence, WAWTTDDWWWDHWGWHMAWTT, was consistently found in potential initiation regions across six diverse gene loci, aiding in understanding DNA replication initiation.

Area of Science:

  • Molecular Biology
  • Genetics
  • Genomics

Background:

  • Eukaryotic chromosomal replication origins are thought to share common modular sequence elements.
  • Identifying these elements is crucial for understanding DNA replication initiation.

Purpose of the Study:

  • To computationally analyze DNA sequences from six eukaryotic replication origin regions.
  • To identify conserved sequence elements and potential initiation regions within these origins.
  • To compare computer-identified regions with experimentally mapped initiation sites.

Main Methods:

  • Computer analysis of DNA sequences from six specific gene loci (Tetrahymena rDNA, CHO DHFR amplicon, human c-myc, chicken H5, Drosophila chorion, CHO rhodopsin).
  • Identification of putative DNA unwinding elements (DUEs), scaffold-associated regions (SARs), autonomously replicating sequence (ARS) consensus sequences, and pyrimidine tracts.

Related Experiment Videos

  • Comparison of computer-identified potential initiation regions with published experimental data on replication initiation sites.

    • Main Results:

    • Each analyzed origin region contained potential initiation regions with DUEs, SARs, ARS consensus sequences, and pyrimidine tracts.
    • Computer-identified potential initiation regions aligned with previously mapped initiation sites for at least four loci.
    • A consensus DNA sequence, WAWTTDDWWWDHWGWHMAWTT, was identified in all potential initiation regions.
    • No additional copies of this consensus sequence were found in flanking DNA sequences.

    Conclusions:

    • A conserved consensus DNA sequence (WAWTTDDWWWDHWGWHMAWTT) is associated with eukaryotic DNA replication initiation.
    • Computer-based sequence analysis can effectively identify functional regions within replication origins.
    • The findings support the hypothesis of common modular sequence elements at eukaryotic replication origins.