Retroviruses and yeast retrotransposons use overlapping sets of host genes

  1. Becky Irwin1,4,
  2. Michael Aye1,3,4,
  3. Pierre Baldi1,2,3,
  4. Nadejda Beliakova-Bethell1,
  5. Henry Cheng1,
  6. Yimeng Dou2,3,
  7. Willy Liou1, and
  8. Suzanne Sandmeyer1,3,5
  1. 1 Department of Biological Chemistry, UC Irvine, Irvine, California 92697, USA
  2. 2 School of Information and Computer Science, UC Irvine, Irvine, California 92697, USA
  3. 3 Institute for Genomics and Bioinformatics, UC Irvine, Irvine, California 92697, USA

Abstract

A collection of 4457 Saccharomyces cerevisiae mutants deleted for nonessential genes was screened for mutants with increased or decreased mobilization of the gypsylike retroelement Ty3. Of these, 64 exhibited increased and 66 decreased Ty3 transposition compared with the parental strain. Genes identified in this screen were grouped according to function by using GOnet software developed as part of this study. Gene clusters were related to chromatin and transcript elongation, translation and cytoplasmic RNA processing, vesicular trafficking, nuclear transport, and DNA maintenance. Sixty-six of the mutants were tested for Ty3 proteins and cDNA. Ty3 cDNA and transposition were increased in mutants affected in nuclear pore biogenesis and in a subset of mutants lacking proteins that interact physically or genetically with a replication clamp loader. Our results suggest that nuclear entry is linked mechanistically to Ty3 cDNA synthesis but that host replication factors antagonize Ty3 replication. Some of the factors we identified have been previously shown to affect Ty1 transposition and others to affect retroviral budding. Host factors, such as these, shared by distantly related Ty retroelements and retroviruses are novel candidates for antiviral targets.

Footnotes

  • [Supplemental material is available online at www.genome.org.]

  • Article and publication are at http://www.genome.org/cgi/doi/10.1101/gr.3739005. Article published online ahead of print in April 2005. Freely available online through the Genome Research Immediate Open Access option.

  • ↵4 These authors contributed equally to this work.

  • ↵5 Corresponding author. E-mail sbsandme{at}uci.edu; fax (949) 824-2688.

    • Accepted March 4, 2005.
    • Received January 21, 2005.

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  1. Published in Advance April 18, 2005, doi: 10.1101/gr.3739005 Genome Res. 15: 641-654 Cold Spring Harbor Laboratory Press

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