DNA helicase gene interaction network defined using synthetic lethality analyzed by microarray (original) (raw)

• Winzeler, E.A. et al. Functional characterization of the S. cerevisiae genome by gene deletion and parallel analysis. Science 285, 901–906 (1999).
  Article CAS Google Scholar
• Giaever, G. et al. Functional profiling of the Saccharomyces cerevisiae genome. Nature 418, 387–391 (2002).
  Article CAS Google Scholar
• Dobzhansky, T. Genetics of natural populations. XIII. Recombination and variability in populations of Drosophila pseudoobscura. Genetics 31, 269–290 (1946).
  CAS PubMed PubMed Central Google Scholar
• Novick, P., Osmond, B.C. & Botstein, D. Suppressors of yeast actin mutations. Genetics 121, 659–674 (1989).
  CAS PubMed PubMed Central Google Scholar
• Bender, A. & Pringle, J.R. Use of a screen for synthetic lethal and multicopy suppressee mutants to identify two new genes involved in morphogenesis in Saccharomyces cerevisiae. Mol. Cell. Biol. 11, 1295–1305 (1991).
  Article CAS Google Scholar
• Hartman, J., Garvik, B. & Hartwell, L. Principles for the buffering of genetic variation. Science 291, 1001–1004 (2001).
  Article CAS Google Scholar
• Tong, A.H. et al. Systematic genetic analysis with ordered arrays of yeast deletion mutants. Science 294, 2364–2368 (2001).
  Article CAS Google Scholar
• Ooi, S.L., Shoemaker, D.D. & Boeke, J.D. A DNA microarray-based genetic screen for nonhomologous end-joining mutants in Saccharomyces cerevisiae. Science 294, 2552–2556 (2001).
  Article CAS Google Scholar
• Rong, L. & Klein, H.L. Purification and characterization of the SRS2 DNA helicase of the yeast Saccharomyces cerevisiae. J. Biol. Chem. 268, 1252–1259 (1993).
  CAS PubMed Google Scholar
• Lu, J. et al. Human homologues of yeast helicase. Nature 383, 678–679 (1996).
  Article CAS Google Scholar
• Bennett, R.J., Sharp, J.A. & Wang, J.C. Purification and characterization of the Sgs1 DNA helicase activity of Saccharomyces cerevisiae. J. Biol. Chem. 273, 9644–9650 (1998).
  Article CAS Google Scholar
• Hickson, I.D. RecQ helicases: caretakers of the genome. Nat. Rev. Cancer 3, 169–178 (2003).
  Article CAS Google Scholar
• Aboussekhra, A. et al. RADH, a gene of Saccharomyces cerevisiae encoding a putative DNA helicase involved in DNA repair. Characteristics of radH mutants and sequence of the gene. Nucleic Acids Res. 17, 7211–7219 (1989).
  Article CAS Google Scholar
• Lee, S.K., Johnson, R.E., Yu, S.L., Prakash, L. & Prakash, S. Requirement of yeast SGS1 and SRS2 genes for replication and transcription. Science 286, 2339–2342 (1999).
  Article CAS Google Scholar
• Aguilera, A. & Klein, H.L. Genetic control of intrachromosomal recombination in Saccharomyces cerevisiae. I. Isolation and genetic characterization of hyper-recombination mutations. Genetics 119, 779–790 (1988).
  CAS PubMed PubMed Central Google Scholar
• Gangloff, S., Soustelle, C. & Fabre, F. Homologous recombination is responsible for cell death in the absence of the Sgs1 and Srs2 helicases. Nat. Genet. 25, 192–194 (2000).
  Article CAS Google Scholar
• Yamagata, K. et al. Bloom's and Werner's syndrome genes suppress hyperrecombination in yeast sgs1 mutant: implication for genomic instability in human diseases. Proc. Natl. Acad. Sci. USA 95, 8733–8738 (1998).
  Article CAS Google Scholar
• Aylon, Y., Liefshitz, B., Bitan-Banin, G. & Kupiec, M. Molecular dissection of mitotic recombination in the yeast Saccharomyces cerevisiae. Mol. Cell. Biol. 23, 1403–1417 (2003).
  Article CAS Google Scholar
• Vaze, M.B. et al. Recovery from checkpoint-mediated arrest after repair of a double-strand break requires Srs2 helicase. Mol. Cell 10, 373–385 (2002).
  Article CAS Google Scholar
• Frei, C. & Gasser, S.M. The yeast Sgs1p helicase acts upstream of Rad53p in the DNA replication checkpoint and colocalizes with Rad53p in S-phase-specific foci. Genes Dev. 14, 81–96 (2000).
  CAS PubMed PubMed Central Google Scholar
• Bennett, C.B. et al. Genes required for ionizing radiation resistance in yeast. Nat. Genet. 29, 426–434 (2001).
  Article CAS Google Scholar
• Mankouri, H.W., Craig, T.J. & Morgan, A. SGS1 is a multicopy suppressor of srs2: functional overlap between DNA helicases. Nucleic Acids Res. 30, 1103–1113 (2002).
  Article CAS Google Scholar
• Mullen, J.R., Kaliraman, V., Ibrahim, S.S. & Brill, S.J. Requirement for three novel protein complexes in the absence of the Sgs1 DNA helicase in Saccharomyces cerevisiae. Genetics 157, 103–118 (2001).
  CAS PubMed PubMed Central Google Scholar
• Debrauwere, H., Loeillet, S., Lin, W., Lopes, J. & Nicolas, A. Links between replication and recombination in Saccharomyces cerevisiae: a hypersensitive requirement for homologous recombination in the absence of Rad27 activity. Proc. Natl. Acad. Sci. USA 98, 8263–8269 (2001).
  Article CAS Google Scholar
• Ogawa, T. et al. RecA-like recombination proteins in eukaryotes: functions and structures of RAD51 genes. Cold Spring Harb. Symp. Quant. Biol. 58, 567–576 (1993).
  Article CAS Google Scholar
• Sung, P., Trujillo, K.M. & Van Komen, S. Recombination factors of Saccharomyces cerevisiae. Mutat. Res. 451, 257–275 (2000).
  Article CAS Google Scholar
• Fabre, F., Chan, A., Heyer, W.D. & Gangloff, S. Alternate pathways involving Sgs1/Top3, Mus81/ Mms4, and Srs2 prevent formation of toxic recombination intermediates from single-stranded gaps created by DNA replication. Proc. Natl. Acad. Sci. USA 99, 16887–16892 (2002).
  Article CAS Google Scholar
• Morrow, D.M., Connelly, C. & Hieter, P. “Break copy” duplication: a model for chromosome fragment formation in Saccharomyces cerevisiae. Genetics 147, 371–382 (1997).
  CAS PubMed PubMed Central Google Scholar
• Alcasabas, A.A. et al. Mrc1 transduces signals of DNA replication stress to activate Rad53. Nat. Cell Biol. 3, 958–965 (2001).
  Article CAS Google Scholar
• Qiu, J., Qian, Y., Frank, P., Wintersberger, U. & Shen, B. Saccharomyces cerevisiae RNase H(35) functions in RNA primer removal during lagging-strand DNA synthesis, most efficiently in cooperation with Rad27 nuclease. Mol. Cell. Biol. 19, 8361–8371 (1999).
  Article CAS Google Scholar
• Uetz, P. et al. A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae. Nature 403, 623–627 (2000).
  Article CAS Google Scholar
• Schmidt, K.H., Derry, K.L. & Kolodner, R.D. Saccharomyces cerevisiae RRM3, a 5′ to 3′ DNA helicase, physically interacts with proliferating cell nuclear antigen. J. Biol. Chem. 277, 45331–45337 (2002).
  Article CAS Google Scholar
• Ivessa, A.S., Zhou, J.Q. & Zakian, V.A. The Saccharomyces Pif1p DNA helicase and the highly related Rrm3p have opposite effects on replication fork progression in ribosomal DNA. Cell 100, 479–489 (2000).
  Article CAS Google Scholar
• Ivessa, A.S., Zhou, J.Q., Schulz, V.P., Monson, E.K. & Zakian, V.A. Saccharomyces Rrm3p, a 5′ to 3′ DNA helicase that promotes replication fork progression through telomeric and subtelomeric DNA. Genes Dev. 16, 1383–1396 (2002).
  Article CAS Google Scholar
• Hughes, T.R. et al. Expression profiling using microarrays fabricated by an ink-jet oligonucleotide synthesizer. Nat. Biotechnol. 19, 342–347 (2001).
  Article CAS Google Scholar
• Breitkreutz, B.J., Stark, C. & Tyers, M. Osprey: a network visualization system. Genome Biol. 4, R22 (2003).
  Article Google Scholar