Reporter-based synthetic genetic array analysis: A functional genomics approach for investigating the cell cycle in saccharomyces cerevisiae

Methods in Molecular Biology

Volumn 548, Issue , 2009, Pages 55-73

  Sassi, Holly E ^a   Bastajian, Nazareth ^a   Kainth, Pinay ^a   Andrews, Brenda J ^a  

^a UNIVERSITY OF TORONTO   (Canada)

Author keywords

3 Aminotriazole; Cell cycle; HIS3; lacZ; Reporter, High throughput plasmid transfer; Synthetic genetic array; Transcription; Yeast

Indexed keywords

ANIMALIA; BACTERIA (MICROORGANISMS); METAZOA; SACCHAROMYCES CEREVISIAE; SACCHAROMYCETALES;

FUNGAL DNA; PRIMER DNA;

ARTICLE; CELL CYCLE; CYTOLOGY; DNA MICROARRAY; FUNGAL GENE; GENE DELETION; GENE EXPRESSION REGULATION; GENETICS; GENOMICS; HAPLOIDY; LACTOSE OPERON; METHODOLOGY; NUCLEOTIDE SEQUENCE; REPORTER GENE; SACCHAROMYCES CEREVISIAE;

BASE SEQUENCE; CELL CYCLE; DNA PRIMERS; DNA, FUNGAL; GENE DELETION; GENE EXPRESSION REGULATION, FUNGAL; GENES, FUNGAL; GENES, REPORTER; GENOMICS; HAPLOIDY; LAC OPERON; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; SACCHAROMYCES CEREVISIAE;

EID: 67849097265     PISSN: 10643745     EISSN: None     Source Type: Book Series    
DOI: 10.1007/978-1-59745-540-4_4     Document Type: Article

References (22)

1. Cho, R. J., Campbell, M. J., Winzeler, E. A., et al. (1998). A genome-wide transcriptional analysis of the mitotic cell cycle. Mol. Cell. 2, 65-73. (Pubitemid 128378967)
2. Spellman, P. T., Sherlock, G., Zhang, M. Q., et al. (1998). Comprehensive identification of cell cycle-regulated genes of the yeast Saccharomyces cerevisiae by microarray hybridization. Mol. Biol. Cell. 9, 3273-3297. (Pubitemid 28551928)
3. Pramila, T., Wu, W., Miles, S., et al. (2006). The Forkhead transcription factor Hcm1 regulates chromosome segregation genes and fills the S-phase gap in the transcriptional circuitry of the cell cycle. Genes Dev. 20, 2266-2278.
4. Sopko, R., Huang, D., Preston, N., et al. (2006). Mapping pathways and phenotypes by systematic gene overexpression. Mol. Cell. 21, 319-330. (Pubitemid 43163527)
5. Iyer, V. R., Horak, C. E., Scafe, C. S., et al. (2001). Genomic binding sites of the yeast cell-cycle transcription factors SBF and MBF. Nature 409, 533-538. (Pubitemid 32144361)
6. Simon, I., Barnett, J., Hannett, N., et al. (2001). Serial regulation of transcriptional regulators in the yeast cell cycle. Cell 106, 697-708. (Pubitemid 32900661)
7. Horak, C. E., Luscombe, N. M., Qian, J., et al. (2002). Complex transcriptional circuitry at the G1/S transition in Saccharomyces cerevisiae. Genes Dev. 16, 3017-3033. (Pubitemid 35424190)
8. Lee, T. I., Rinaldi, N. J., Robert, F., et al. (2002). Transcriptional regulatory networks in Saccharomyces cerevisiae. Science 298, 799-804. (Pubitemid 35231527)
9. Ihmels, J., Friedlander, G., Bergmann, S., et al. (2002). Revealing modular organization in the yeast transcriptional network. Nat. Genet. 31, 370-377. (Pubitemid 35154445)
10. Chen, H. C., Lee, H. C., Lin, T. Y., et al. (2004). Quantitative characterization of the transcriptional regulatory network in the yeast cell cycle. Bioinformatics 20, 1914-1927.
11. Winzeler, E. A., Shoemaker, D. D., Astromoff, A., et al. (1999). Functional characterization of the S. cerevisiae genome by gene deletion and parallel analysis. Science 285, 901-906. (Pubitemid 29381993)
12. Tong, A. H., Evangelista, M., Parsons, A. B., et al. (2001). Systematic genetic analysis with ordered arrays of yeast deletion mutants. Science 294, 2364-2368. (Pubitemid 33140562)
13. Giaever, G., Chu, A. M., Ni, L., et al. (2002). Functional profiling of the Saccharomyces cerevisiae genome. Nature 418, 387-391. (Pubitemid 34826834)
14. Tong, A. H., Boone, C. (2005). Synthetic genetic array analysis in Saccharomyces cerevisiae. In Yeast Protocols, 2nd edn ., Methods in molecular biology, vol. 313 ( Xiao, W., ed.). Humana, Totowa, NJ, pp. 171-192.
15. Tong, A. H., Boone, C. (2007). Highthroughput strain construction and systematic synthetic lethal screening in Saccharomyces cerevisiae. In Yeast Gene Analysis, 2nd edn ., Methods in microbiology, vol. 36 ( Stansfield, I. and Stark, M., eds.). Elsevier, Burlington, MA, pp. 369-386 ; 706-707.
16. Johnson, A. D., Herskowitz, I. (1985). A repressor ( MAT a 2 product). and its operator control expression of a set of cell type specific genes in yeast. Cell 42, 237-247. (Pubitemid 16237574)
17. Christianson, T. W., Sikorski, R. S., Dante, M., et al. (1992). Multifunctional yeast high-copynumber shuttle vectors. Gene 110, 119-122.
18. Brachmann, C. B., Davies, A., Cost, G. J., et al. (1998). Designer deletion strains derived from Saccharomyces cerevisiae S288C: a useful set of strains and plasmids for PCR-mediated gene disruption and other applications. Yeast 14, 115-132. (Pubitemid 28062863)
19. Verma, R., Smiley, J., Andrews, B., Campbell, J. L. (1992). Regulation of the yeast DNA replication genes through the Mlu I cell cycle box is dependent on SWI6. Proc. Natl. Acad. Sci. USA. 89, 9479-9483.
20. Costanzo, M., Nishikawa, J. L., Tang, X., et al. (2004). CDK activity antagonizes Whi5, an inhibitor of G1/S transcription in yeast. Cell 117, 899-913. (Pubitemid 38798856)
21. Cheng, T. H., Chang, C. R., Joy, P., et al. (2000). Controlling gene expression in yeast by inducible site-specific recombination. Nucl. Acids Res. 28, E108.
22. Mnaimneh, S., Davierwala, A. P., Haynes, J., et al. (2004). Exploration of essential gene functions via titratable promoter alleles. Cell 118, 31-44. (Pubitemid 38902812)