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Literature DB >> 15604142

Genomic dissection of the cell-type-specification circuit in Saccharomyces cerevisiae.

David J Galgoczy¹, Ann Cassidy-Stone, Manuel Llinás, Sean M O'Rourke, Ira Herskowitz, Joseph L DeRisi, Alexander D Johnson.

Abstract

The budding yeast Saccharomyces cerevisiae has three cell types (a cells, alpha cells, and a/alpha cells), each of which is specified by a unique combination of transcriptional regulators. This transcriptional circuit has served as an important model for understanding basic features of the combinatorial control of transcription and the specification of cell type. Here, using genome-wide chromatin immunoprecipitation, transcriptional profiling, and phylogenetic comparisons, we describe the complete cell-type-specification circuit for S. cerevisiae. We believe this work represents a complete description of cell-type specification in a eukaryote.

Entities: Species

Mesh：

Substances：
Sodium Chloride

Year: 2004 PMID： 15604142 PMCID： PMC535907 DOI： 10.1073/pnas.0407611102

Source DB: PubMed Journal: Proc Natl Acad Sci U S A ISSN： 0027-8424 Impact factor: 11.205

29 in total

1. Genome-wide location and function of DNA binding proteins.

Authors: B Ren; F Robert; J J Wyrick; O Aparicio; E G Jennings; I Simon; J Zeitlinger; J Schreiber; N Hannett; E Kanin; T L Volkert; C J Wilson; S P Bell; R A Young
Journal: Science Date: 2000-12-22 Impact factor: 47.728

2. Genomic binding sites of the yeast cell-cycle transcription factors SBF and MBF.

Authors: V R Iyer; C E Horak; C S Scafe; D Botstein; M Snyder; P O Brown
Journal: Nature Date: 2001-01-25 Impact factor: 49.962

3. Promoter-specific binding of Rap1 revealed by genome-wide maps of protein-DNA association.

Authors: J D Lieb; X Liu; D Botstein; P O Brown
Journal: Nat Genet Date: 2001-08 Impact factor: 38.330

4. NEJ1 controls non-homologous end joining in Saccharomyces cerevisiae.

Authors: M Valencia; M Bentele; M B Vaze; G Herrmann; E Kraus; S E Lee; P Schär; J E Haber
Journal: Nature Date: 2001-12-06 Impact factor: 49.962

5. Identification of target sites of the alpha2-Mcm1 repressor complex in the yeast genome.

Authors: H Zhong; R McCord; A K Vershon
Journal: Genome Res Date: 1999-11 Impact factor: 9.043

Review 6. Yeast go the whole HOG for the hyperosmotic response.

Authors: Sean M O'Rourke; Ira Herskowitz; Erin K O'Shea
Journal: Trends Genet Date: 2002-08 Impact factor: 11.639

7. Finding functional features in Saccharomyces genomes by phylogenetic footprinting.

Authors: Paul Cliften; Priya Sudarsanam; Ashwin Desikan; Lucinda Fulton; Bob Fulton; John Majors; Robert Waterston; Barak A Cohen; Mark Johnston
Journal: Science Date: 2003-05-29 Impact factor: 47.728

8. Sequencing and comparison of yeast species to identify genes and regulatory elements.

Authors: Manolis Kellis; Nick Patterson; Matthew Endrizzi; Bruce Birren; Eric S Lander
Journal: Nature Date: 2003-05-15 Impact factor: 49.962

9. The yeast a1 and alpha2 homeodomain proteins do not contribute equally to heterodimeric DNA binding.

Authors: Y Jin; H Zhong; A K Vershon
Journal: Mol Cell Biol Date: 1999-01 Impact factor: 4.272

10. Identification and characterization of a Candida albicans mating pheromone.

Authors: Richard J Bennett; M Andrew Uhl; Mathew G Miller; Alexander D Johnson
Journal: Mol Cell Biol Date: 2003-11 Impact factor: 4.272

54 in total

1. Corepressor-directed preacetylation of histone H3 in promoter chromatin primes rapid transcriptional switching of cell-type-specific genes in yeast.

Authors: Alec M Desimone; Jeffrey D Laney
Journal: Mol Cell Biol Date: 2010-05-03 Impact factor: 4.272

10. Divergence of nucleosome positioning between two closely related yeast species: genetic basis and functional consequences.

Authors: Itay Tirosh; Nadejda Sigal; Naama Barkai
Journal: Mol Syst Biol Date: 2010-05-11 Impact factor: 11.429

Genomic dissection of the cell-type-specification circuit in Saccharomyces cerevisiae.

1. Genome-wide location and function of DNA binding proteins.

2. Genomic binding sites of the yeast cell-cycle transcription factors SBF and MBF.

3. Promoter-specific binding of Rap1 revealed by genome-wide maps of protein-DNA association.

4. NEJ1 controls non-homologous end joining in Saccharomyces cerevisiae.

5. Identification of target sites of the alpha2-Mcm1 repressor complex in the yeast genome.

Review 6. Yeast go the whole HOG for the hyperosmotic response.

7. Finding functional features in Saccharomyces genomes by phylogenetic footprinting.

8. Sequencing and comparison of yeast species to identify genes and regulatory elements.

9. The yeast a1 and alpha2 homeodomain proteins do not contribute equally to heterodimeric DNA binding.

10. Identification and characterization of a Candida albicans mating pheromone.

1. Corepressor-directed preacetylation of histone H3 in promoter chromatin primes rapid transcriptional switching of cell-type-specific genes in yeast.

Review 2. The evolution of sex: a perspective from the fungal kingdom.

Review 3. Annotating non-coding regions of the genome.

Review 4. Establishing an unusual cell type: how to make a dikaryon.

5. Three-pronged genomic analysis reveals yeast cell-type regulation circuitry.

6. Genetically engineered transvestites reveal novel mating genes in budding yeast.

7. Extensive DNA-binding specificity divergence of a conserved transcription regulator.

8. Ume6 is required for the MATa/MATalpha cellular identity and transcriptional silencing in Kluyveromyces lactis.

9. Suppression of the double-strand-break-repair defect of the Saccharomyces cerevisiae rad57 mutant.

10. Divergence of nucleosome positioning between two closely related yeast species: genetic basis and functional consequences.