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Related Experiment Videos

Antisense overlapping open reading frames in genes from bacteria to humans

E Merino1, P Balbás, J L Puente

  • 1Departamento de Biología Molecular, Universidad Nacional Autónoma de Mexico, Cuernavaca.

Nucleic Acids Research
|May 25, 1994
PubMed
Summary

Antisense DNA strands frequently contain long open reading frames (ORFs), challenging previous assumptions of rarity. This common, non-random phenomenon is mainly influenced by codon usage across diverse species genomes.

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Area of Science:

  • Genomics
  • Molecular Biology
  • Bioinformatics

Background:

  • Long Open Reading Frames (ORFs) in antisense DNA strands were previously considered rare.
  • Existing literature suggested limited occurrence of such antisense ORFs.

Purpose of the Study:

  • To investigate the prevalence of antisense ORFs in a large-scale analysis.
  • To determine the factors influencing the occurrence of these antisense ORFs.
  • To assess the conservation of this phenomenon across different organisms.

Main Methods:

  • Extensive analysis of the GenBank database.
  • Examination of sequence databases for prokaryotic and eukaryotic organisms.
  • Analysis focused on gene size, GC content, and codon usage.

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Main Results:

  • A substantial number of genes across various species contain in-phase antisense ORFs.
  • These antisense ORFs often overlap entirely or extend beyond the sense strand's coding sequence.
  • The phenomenon is frequent, non-random, and primarily dependent on codon usage, gene size, and GC content.

Conclusions:

  • Long Open Reading Frames in antisense DNA strands are a frequent and widespread occurrence.
  • Antisense ORFs are present in all studied prokaryotic and eukaryotic genomes.
  • Codon usage is a key determinant of this prevalent genetic feature.