Summary: A species of the genus SACCHAROMYCES, family Saccharomycetaceae, order Saccharomycetales, known as "baker's" or "brewer's" yeast. The dried form is used as a dietary supplement.
Publications273 found, 100 shown here
- The genetic landscape of a cellMichael Costanzo
Banting and Best Department of Medical Research, Terrence Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, Toronto, Ontario M5S 3E1, Canada
Science 327:425-31. 2010..quantitative genetic interaction profiles for approximately 75% of all genes in the budding yeast, Saccharomyces cerevisiae. A network based on genetic interaction profiles reveals a functional map of the cell in which genes of ..
- Saccharomyces Genome Database: the genomics resource of budding yeastJ Michael Cherry
Department of Genetics, Stanford University, Stanford, CA 94305 5120, USA
Nucleic Acids Res 40:D700-5. 2012..yeastgenome.org) is the community resource for the budding yeast Saccharomyces cerevisiae. The SGD project provides the highest-quality manually curated information from peer-reviewed literature...
- Extending healthy life span--from yeast to humansLuigi Fontana
Division of Geriatrics and Nutritional Science, Washington University School of Medicine, St Louis, MO 63110, USA
Science 328:321-6. 2010..We discuss these findings and their potential application to prevention of age-related disease and promotion of healthy aging in humans, and the challenge of possible negative side effects...
- The BioGRID Interaction Database: 2008 updateBobby Joe Breitkreutz
Samuel Lunenfeld Research Institute, Mount Sinai Hospital, Toronto, Canada
Nucleic Acids Res 36:D637-40. 2008..complete set of interactions reported to date in the primary literature for both the budding yeast Saccharomyces cerevisiae and the fission yeast Schizosaccharomyces pombe...
- Genome-wide analysis in vivo of translation with nucleotide resolution using ribosome profilingNicholas T Ingolia
Department of Cellular and Molecular Pharmacology, Howard Hughes Medical Institute, University of California, San Francisco, and California Institute for Quantitative Biosciences, San Francisco, CA 94158, USA
Science 324:218-23. 2009..Ribosome profiling is readily adaptable to other organisms, making high-precision investigation of protein translation experimentally accessible...
- Mistranslation-induced protein misfolding as a dominant constraint on coding-sequence evolutionD Allan Drummond
FAS Center for Systems Biology, Harvard University, Cambridge, MA 02138, USA
Cell 134:341-52. 2008....
- A versatile toolbox for PCR-based tagging of yeast genes: new fluorescent proteins, more markers and promoter substitution cassettesCarsten Janke
CRBM, CNRS FRE2593, 1919 Route de Mende, F 34293 Montpellier cedex 5, France
Yeast 21:947-62. 2004..of PCR amplified cassettes is a widely used and fast method to label proteins in vivo in the yeast Saccharomyces cerevisiae. This strategy directs the amplified tags to the desired chromosomal loci due to flanking homologous ..
- Multiplexed protein quantitation in Saccharomyces cerevisiae using amine-reactive isobaric tagging reagentsPhilip L Ross
Applied Biosystems, Framingham, MA 01701, USA
Mol Cell Proteomics 3:1154-69. 2004..We find that inactivation of Upf1p and Xrn1p causes common as well as unique effects on protein expression...
- Capturing chromosome conformationJob Dekker
Department of Molecular and Cellular Biology, Harvard University, Cambridge, MA 02138, USA
Science 295:1306-11. 2002..Using the yeast Saccharomyces cerevisiae, we could confirm known qualitative features of chromosome organization within the nucleus and dynamic ..
- Network motifs: simple building blocks of complex networksR Milo
Departments of Physics of Complex Systems and Molecular Cell Biology, Weizmann Institute of Science, Rehovot, Israel 76100
Science 298:824-7. 2002..ecological food webs were distinct from the motifs shared by the genetic networks of Escherichia coli and Saccharomyces cerevisiae or from those found in the World Wide Web...
- Three new dominant drug resistance cassettes for gene disruption in Saccharomyces cerevisiaeA L Goldstein
Department of Microbiology, 3020 Duke University Medical Center, Durham, NC 27710, USA
Yeast 15:1541-53. 1999Disruption-deletion cassettes are powerful tools used to study gene function in many organisms, including Saccharomyces cerevisiae. Perhaps the most widely useful of these are the heterologous dominant drug resistance cassettes, which use ..
- Additional modules for versatile and economical PCR-based gene deletion and modification in Saccharomyces cerevisiaeM S Longtine
Department of Biology, University of North Carolina, Chapel Hill 27599 3280, USA
Yeast 14:953-61. 1998An important recent advance in the functional analysis of Saccharomyces cerevisiae genes is the development of the one-step PCR-mediated technique for deletion and modification of chromosomal genes...
- Population genomics of domestic and wild yeastsGianni Liti
Institute of Genetics, Queen s Medical Centre, University of Nottingham, Nottingham NG7 2UH, UK
Nature 458:337-41. 2009Since the completion of the genome sequence of Saccharomyces cerevisiae in 1996 (refs 1, 2), there has been a large increase in complete genome sequences, accompanied by great advances in our understanding of genome evolution...
- The transcriptional landscape of the yeast genome defined by RNA sequencingUgrappa Nagalakshmi
Department of Molecular, Cellular, and Developmental Biology, Yale University, New Haven, CT 06520, USA
Science 320:1344-9. 2008..We also found unexpected 3'-end heterogeneity and the presence of many overlapping genes. These results indicate that the yeast transcriptome is more complex than previously appreciated...
- Global analysis of protein expression in yeastSina Ghaemmaghami
Howard Hughes Medical Institute, University of California San Francisco, San Francisco, California 94143 2240, USA
Nature 425:737-41. 2003..To facilitate global protein analyses, we have created a Saccharomyces cerevisiae fusion library where each open reading frame is tagged with a high-affinity epitope and expressed from ..
- Small molecule activators of sirtuins extend Saccharomyces cerevisiae lifespanKonrad T Howitz
BIOMOL Research Laboratories, Inc, 5120 Butler Pike, Plymouth Meeting, Pennsylvania 19462, USA
Nature 425:191-6. 2003..In the budding yeast Saccharomyces cerevisiae, calorie restriction extends lifespan by increasing the activity of Sir2 (ref...
- Crystal structure of the eukaryotic ribosomeAdam Ben-Shem
IGBMC Institut de Génétique et de Biologie Moléculaire et Cellulaire, 1 rue Laurent Fries, BP10142, Illkirch F 67400, France
Science 330:1203-9. 2010..We describe the conformational changes in both ribosomal subunits that are involved in ratcheting and their implications in coordination between the two associated subunits and in mRNA and tRNA translocation...
- An evolutionarily conserved mechanism for controlling the efficiency of protein translationTamir Tuller
Department of Molecular Genetics, Weizmann Institute of Science, Rehovot 76100, Israel
Cell 141:344-54. 2010..We suggest that the slow "ramp" at the beginning of mRNAs serves as a late stage of translation initiation, forming an optimal and robust means to reduce ribosomal traffic jams, thus minimizing the cost of protein expression...
- Sensing DNA damage through ATRIP recognition of RPA-ssDNA complexesLee Zou
Verna and Marrs McLean Department of Biochemistry and Molecular Biology, Baylor College of Medicine, Houston, TX 77030, USA
Science 300:1542-8. 2003..Our data suggest that RPA-coated ssDNA is the critical structure at sites of DNA damage that recruits the ATR-ATRIP complex and facilitates its recognition of substrates for phosphorylation and the initiation of checkpoint signaling...
- The chemical genomic portrait of yeast: uncovering a phenotype for all genesMaureen E Hillenmeyer
Stanford Genome Technology Center, Stanford University, Palo Alto, CA 94304, USA
Science 320:362-5. 2008..We found that 97% of gene deletions exhibited a measurable growth phenotype, suggesting that nearly all genes are essential for optimal growth in at least one condition...
- Saccharomyces Genome Database provides mutant phenotype dataStacia R Engel
Department of Genetics, Stanford University, Stanford, CA, USA
Nucleic Acids Res 38:D433-6. 2010..yeastgenome.org) is a scientific database for the molecular biology and genetics of the yeast Saccharomyces cerevisiae, which is commonly known as baker's or budding yeast...
- Nucleosome positioning and gene regulation: advances through genomicsCizhong Jiang
Center for Eukaryotic Gene Regulation, Department of Biochemistry and Molecular Biology, Pennsylvania State University, University Park, Pennsylvania 16802, USA
Nat Rev Genet 10:161-72. 2009..A detailed picture is starting to emerge of how diverse factors, including underlying DNA sequences and chromatin remodelling complexes, influence nucleosome positioning...
- Global analysis of protein localization in budding yeastWon Ki Huh
Howard Hughes Medical Institute, University of California San Francisco, Department of Biochemistry and Biophysics, 600 16th Street, San Francisco, California 94143 2240, USA
Nature 425:686-91. 2003....
- A global protein kinase and phosphatase interaction network in yeastAshton Breitkreutz
Centre for Systems Biology, Samuel Lunenfeld Research Institute, 600 University Avenue, Toronto, Ontario, M5G 1X5, Canada
Science 328:1043-6. 2010..An extensive backbone of kinase-kinase interactions cross-connects the proteome and may serve to coordinate diverse cellular responses...
- Nonfilamentous C. albicans mutants are avirulentH J Lo
Whitehead Institute for Biomedical Research and Department of Biology, Massachusetts Institute of Technology, Cambridge 02142, USA
Cell 90:939-49. 1997Candida albicans and Saccharomyces cerevisiae switch from a yeast to a filamentous form. In Saccharomyces, this switch is controlled by two regulatory proteins, Ste12p and Phd1p...
- The evolutionary fate and consequences of duplicate genesM Lynch
Department of Biology, University of Oregon, Eugene, OR 97403, USA
Science 290:1151-5. 2000..Although duplicate genes may only rarely evolve new functions, the stochastic silencing of such genes may play a significant role in the passive origin of new species...
- Apoptosis in yeast: triggers, pathways, subroutinesD Carmona-Gutierrez
Institute of Molecular Biosciences, Karl Franzens University, Graz, Austria
Cell Death Differ 17:763-73. 2010..The finding, more than a decade ago, that baker's yeast (Saccharomyces cerevisiae) can undergo apoptosis uncovered the possibility to investigate this mode of programmed cell death (PCD) ..
- High-resolution DNA-binding specificity analysis of yeast transcription factorsCong Zhu
Division of Genetics, Department of Medicine, Brigham and Women s Hospital and Harvard Medical School, Boston, Massachusetts 02115, USA
Genome Res 19:556-66. 2009..These approaches could be adapted to identify TFs and cis regulatory elements in higher eukaryotes...
- Analysis of a genome-wide set of gene deletions in the fission yeast Schizosaccharomyces pombeDong Uk Kim
Integrative Omics Research Centre, Korea Research Institute of Bioscience and Biotechnology, Yuseong, Daejeon, Korea
Nat Biotechnol 28:617-23. 2010....
- A hierarchical combination of factors shapes the genome-wide topography of yeast meiotic recombination initiationJing Pan
Molecular Biology Program, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA
Cell 144:719-31. 2011..This map illuminates the occurrence of DSBs in repetitive DNA elements, repair of which can lead to chromosomal rearrangements. We also discuss implications for evolutionary dynamics of recombination hot spots...
- Genomic expression programs in the response of yeast cells to environmental changesA P Gasch
Department of Biochemistry, Stanford University School of Medicine, Stanford, CA 94305 5428, USA
Mol Biol Cell 11:4241-57. 2000We explored genomic expression patterns in the yeast Saccharomyces cerevisiae responding to diverse environmental transitions...
- A role for Snf2-related nucleosome-spacing enzymes in genome-wide nucleosome organizationTriantaffyllos Gkikopoulos
Wellcome Trust Centre for Gene Regulation and Expression, College of Life Sciences, University of Dundee, Dundee, DD1 5EH, UK
Science 333:1758-60. 2011..These observations indicate that adenosine triphosphate-dependent remodeling enzymes are responsible for directing the positioning of the majority of nucleosomes within the Saccharomyces cerevisiae genome.
- Specificity and stability in topology of protein networksSergei Maslov
Department of Physics, Brookhaven National Laboratory, Upton, NY 11973, USA
Science 296:910-3. 2002..This effect decreases the likelihood of cross talk between different functional modules of the cell and increases the overall robustness of a network by localizing effects of deleterious perturbations...
- The SIR2/3/4 complex and SIR2 alone promote longevity in Saccharomyces cerevisiae by two different mechanismsM Kaeberlein
Department of Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
Genes Dev 13:2570-80. 1999..Sir2p is a limiting component in promoting yeast longevity, and increasing the gene dosage extends the life span in wild-type cells. A possible role of the conserved SIR2 in mammalian aging is discussed...
- A barrier nucleosome model for statistical positioning of nucleosomes throughout the yeast genomeTravis N Mavrich
Center for Gene Regulation, Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, Pennsylvania 16802, USA
Genome Res 18:1073-83. 2008..3' NFRs may be important for transcription termination and anti-sense initiation. We present a high-resolution genome-wide map of TFIIB locations that implicates 3' NFRs in gene looping...
- Comprehensive polyadenylation site maps in yeast and human reveal pervasive alternative polyadenylationFatih Ozsolak
Helicos BioSciences Corporation, Cambridge, MA 02139, USA
Cell 143:1018-29. 2010..Our data provide a comprehensive view of the polyadenylation state and overlapping transcription...
- A three-dimensional model of the yeast genomeZhijun Duan
Institute for Stem Cell and Regenerative Medicine, University of Washington, Seattle, Washington 98195 8056, USA
Nature 465:363-7. 2010..interactions, and applied it to generate a map at kilobase resolution of the haploid genome of Saccharomyces cerevisiae. The map recapitulates known features of genome organization, thereby validating the method, and ..
- Stochastic switching as a survival strategy in fluctuating environmentsMurat Acar
Department of Physics, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
Nat Genet 40:471-5. 2008..explore how switching affects population growth by using the galactose utilization network of Saccharomyces cerevisiae. We engineered a strain that randomly transitions between two phenotypes as a result of stochastic gene ..
- Dissection of genetically complex traits with extremely large pools of yeast segregantsIan M Ehrenreich
Lewis Sigler Institute for Integrative Genomics, Princeton University, Princeton, New Jersey 08540, USA
Nature 464:1039-42. 2010..The method involves generating very large numbers of progeny from a cross between two Saccharomyces cerevisiae strains and then phenotyping and genotyping pools of these offspring...
- DNA replication through G-quadruplex motifs is promoted by the Saccharomyces cerevisiae Pif1 DNA helicaseKatrin Paeschke
Department of Molecular Biology, Princeton University, Princeton, NJ 08544, USA
Cell 145:678-91. 2011..chromatin immunoprecipitation was used to determine the in vivo binding sites of the multifunctional Saccharomyces cerevisiae Pif1 DNA helicase, a potent unwinder of G4 structures in vitro...
- Extension of chronological life span in yeast by decreased TOR pathway signalingR Wilson Powers
Department of Genome Sciences and Medicine, The Howard Hughes Medical Institute, University of Washington, Seattle, Washington 98195, USA
Genes Dev 20:174-84. 2006Chronological life span (CLS) in Saccharomyces cerevisiae, defined as the time cells in a stationary phase culture remain viable, has been proposed as a model for the aging of post-mitotic tissues in mammals...
- A molecular mechanism of chronological aging in yeastChristopher R Burtner
Department of Biochemistry, University of Washington, 1959 NE Pacific Street, Seattle, WA 98195, USA
Cell Cycle 8:1256-70. 2009..We conclude that acetic acid induced mortality is the primary mechanism of chronological aging in yeast under standard conditions...
- Genome-wide measurement of RNA secondary structure in yeastMichael Kertesz
Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 76100, Israel
Nature 467:103-7. 2010..We apply PARS to profile the secondary structure of the messenger RNAs (mRNAs) of the budding yeast Saccharomyces cerevisiae and obtain structural profiles for over 3,000 distinct transcripts...
- Genotype to phenotype: a complex problemRobin D Dowell
Computer Science and Artificial Intelligence Laboratory, Department of Electrical Engineering and Computer Science, Massachusetts Institute of Technology MIT, Cambridge, MA 02139, USA
Science 328:469. 2010We generated a high-resolution whole-genome sequence and individually deleted 5100 genes in Sigma1278b, a Saccharomyces cerevisiae strain closely related to reference strain S288c...
- Stress signaling from the lumen of the endoplasmic reticulum: coordination of gene transcriptional and translational controlsR J Kaufman
Department of Biological Chemistry and Howard Hughes Medical Institute, The University of Michigan Medical Center, Ann Arbor, Michigan 48109 0650 USA
Genes Dev 13:1211-33. 1999
- A ubiquitin-like system mediates protein lipidationY Ichimura
Department of Cell Biology, National Institute for Basic Biology, Okazaki, Japan
Nature 408:488-92. 2000..11) and Apg3, respectively. These reactions are necessary for the formation of Apg8-phosphatidylethanolamine. This lipidation has an essential role in membrane dynamics during autophagy...
- Exploiting indirect neighbours and topological weight to predict protein function from protein-protein interactionsHon Nian Chua
Graduate School for Integrated Sciences and Engineering, National University of Singapore, Singapore
Bioinformatics 22:1623-30. 2006..We are interested in finding out how significant is functional association between level-2 neighbours and how they can be exploited for protein function prediction...
- An integrated approach to characterize genetic interaction networks in yeast metabolismBalázs Szappanos
Institute of Biochemistry, Biological Research Centre, Szeged, Hungary
Nat Genet 43:656-62. 2011..studies, we i, quantitatively measured genetic interactions between ∼185,000 metabolic gene pairs in Saccharomyces cerevisiae, ii, superposed the data on a detailed systems biology model of metabolism and iii, introduced a machine-..
- Atg8, a ubiquitin-like protein required for autophagosome formation, mediates membrane tethering and hemifusionHitoshi Nakatogawa
Department of Cell Biology, National Institute for Basic Biology, Okazaki 444 8585, Japan
Cell 130:165-78. 2007..Atg8 is a ubiquitin-like protein required for this process in Saccharomyces cerevisiae that can be conjugated to the lipid phosphatidylethanolamine by a ubiquitin-like system...
- The biomass objective functionAdam M Feist
GT Life Sciences, Inc, 10520 Wateridge Circle, San Diego, CA 92122, USA
Curr Opin Microbiol 13:344-9. 2010..Here we review fundamental issues associated with its formulation and use to compute optimal growth states...
- The DNA-encoded nucleosome organization of a eukaryotic genomeNoam Kaplan
Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 76100, Israel
Nature 458:362-6. 2009..Our results indicate that the intrinsic DNA sequence preferences of nucleosomes have a central role in determining the organization of nucleosomes in vivo...
- Connecting extracellular metabolomic measurements to intracellular flux states in yeastMonica L Mo
Department of Bioengineering, University of California San Diego, La Jolla, CA 92093, USA
BMC Syst Biol 3:37. 2009..Extracellular metabolome or metabolic profiling data, in particular, can provide an insightful view of intracellular physiological states in a noninvasive manner...
- Why do hubs in the yeast protein interaction network tend to be essential: reexamining the connection between the network topology and essentialityElena Zotenko
Max Planck Institute for Informatics, Saarbruecken, Germany
PLoS Comput Biol 4:e1000140. 2008..we performed a rigorous analysis of six variants of the genomewide protein interaction network for Saccharomyces cerevisiae obtained using different techniques...
- Regulation of cell wall biogenesis in Saccharomyces cerevisiae: the cell wall integrity signaling pathwayDavid E Levin
Department of Molecular and Cell Biology, Goldman School of Dental Medicine, Boston University, Boston, Massachusetts 02118, USA
Genetics 189:1145-75. 2011..This review article centers on CWI signaling in Saccharomyces cerevisiae through the cell cycle and in response to cell wall stress...
- Rewiring of genetic networks in response to DNA damageSourav Bandyopadhyay
Department of Medicine, University of California, San Diego, La Jolla, CA 92093, USA
Science 330:1385-9. 2010..Differential networks chart a new type of genetic landscape that is invaluable for mapping cellular responses to stimuli...
- Lessons on longevity from budding yeastMatt Kaeberlein
Department of Pathology, University of Washington, Seattle, Washington 98195, USA
Nature 464:513-9. 2010..The first interventions to slow human ageing may spring from the humble yeast...
- A protein conjugation system essential for autophagyN Mizushima
Department of Cell Biology, National Institute for Basic Biology, Okazaki, Japan
Nature 395:395-8. 1998..We have isolated 14 autophagy-defective (apg) mutants of the yeast Saccharomyces cerevisiae and examined the autophagic process at the molecular level...
- Aneuploidy drives genomic instability in yeastJason M Sheltzer
David H Koch Institute for Integrative Cancer Research and Howard Hughes Medical Institute HHMI, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
Science 333:1026-30. 2011..Aneuploid fission yeast strains also exhibited defects in mitotic recombination. Aneuploidy-induced genomic instability could facilitate the development of genetic alterations that drive malignant growth in cancer...
- Hsp90 and environmental stress transform the adaptive value of natural genetic variationDaniel F Jarosz
Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, MA 02142, USA
Science 330:1820-4. 2010..This system broadly determines the adaptive value of standing genetic variation and, in so doing, has influenced the evolution of current genomes...
- Point centromeres contain more than a single centromere-specific Cse4 (CENP-A) nucleosomeJosh Lawrimore
Department of Biology, University of North Carolina, Chapel Hill, NC 27599, USA
J Cell Biol 195:573-82. 2011..All approximately five Cse4s may be associated with the CEN nucleosome, but we show that a mean of three Cse4s could be located within flanking nucleosomes at random sites that differ between chromosomes...
- Synthetic chromosome arms function in yeast and generate phenotypic diversity by designJessica S Dymond
High Throughput Biology Center, Johns Hopkins University School of Medicine, 733 North Broadway, Baltimore, Maryland 21205, USA
Nature 477:471-6. 2011..0, and the first partially synthetic eukaryotic chromosomes, Saccharomyces cerevisiae chromosome synIXR, and semi-synVIL...
- High-efficiency yeast transformation using the LiAc/SS carrier DNA/PEG methodR Daniel Gietz
Department of Biochemistry and Medical Genetics, University of Manitoba, T250 770 Bannatyne Ave, Winnipeg, Manitoba R3E 0W3, Canada
Nat Protoc 2:31-4. 2007..version of the lithium acetate/single-stranded carrier DNA/PEG method of transformation of Saccharomyces cerevisiae. This method currently gives the highest efficiency and yield of transformants, although a faster ..
- Bridging high-throughput genetic and transcriptional data reveals cellular responses to alpha-synuclein toxicityEsti Yeger-Lotem
Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
Nat Genet 41:316-23. 2009..Bridging these data and data from mRNA profiling provided functional explanations for many of these genes and identified previously unknown relations between alpha-synuclein toxicity and basic cellular pathways...
- Elevated histone expression promotes life span extensionJason Feser
Department of Biochemistry and Molecular Genetics, University of Colorado School of Medicine, Aurora, CO 80010, USA
Mol Cell 39:724-35. 2010..This study indicates that maintenance of the fundamental chromatin structure is critical for slowing down the aging process and reveals that increasing the histone supply extends life span...
- Mitochondria-anchored receptor Atg32 mediates degradation of mitochondria via selective autophagyKoji Okamoto
Division of Molecular Cell Biology, National Institute for Basic Biology, Okazaki, Japan
Dev Cell 17:87-97. 2009..We propose that Atg32 acts as a mitophagy-specific receptor and regulates selective degradation of mitochondria...
- A phenotypic profile of the Candida albicans regulatory networkOliver R Homann
Department of Microbiology and Immunology, University of California San Francisco, San Francisco, California, USA
PLoS Genet 5:e1000783. 2009..It last shared a common ancestor with the model yeast Saccharomyces cerevisiae over 300 million years ago. We describe a collection of 143 genetically matched strains of C...
- High-resolution view of the yeast meiotic program revealed by ribosome profilingGloria A Brar
Howard Hughes Medical Institute, Department of Cellular and Molecular Pharmacology, University of California, San Francisco, San Francisco, CA 94158, USA
Science 335:552-7. 2012..This work reveals pervasive translational control in meiosis and helps to illuminate the molecular basis of the broad restructuring of meiotic cells...
- Gene-environment interaction in yeast gene expressionErin N Smith
Lewis Sigler Institute for Integrative Genomics and Department of Ecology and Evolutionary Biology, Princeton University, Princeton, New Jersey, United States of America
PLoS Biol 6:e83. 2008..These observations will guide the design of studies aimed at understanding the genetic basis of complex traits...
- A genetic interaction map of RNA-processing factors reveals links between Sem1/Dss1-containing complexes and mRNA export and splicingGwendolyn M Wilmes
Department of Biochemistry and Biophysics, University of California, San Francisco, 600 16th Street, Genentech Hall, San Francisco, CA 94143 2200, USA
Mol Cell 32:735-46. 2008..Finally, we show that Csn12 plays a role in pre-mRNA splicing, which is independent of other signalosome components. Thus, Sem1 is involved in three separate and functionally distinct complexes...
- Histone H3 methylation by Set2 directs deacetylation of coding regions by Rpd3S to suppress spurious intragenic transcriptionMichael J Carrozza
Stowers Institute for Medical Research, Kansas City, Missouri 64110, USA
Cell 123:581-92. 2005..This erases transcription elongation-associated acetylation to suppress intragenic transcription initiation...
- Two TOR complexes, only one of which is rapamycin sensitive, have distinct roles in cell growth controlRobbie Loewith
Division of Biochemistry, Biozentrum, University of Basel, Klingelbergstrasse 70, CH 4056 Basel, Switzerland
Mol Cell 10:457-68. 2002The target of rapamycin (TOR) proteins in Saccharomyces cerevisiae, TOR1 and TOR2, redundantly regulate growth in a rapamycin-sensitive manner...
- Induction of autophagy by spermidine promotes longevityTobias Eisenberg
Institute of Molecular Biosciences, University of Graz, 8010 Graz, Austria
Nat Cell Biol 11:1305-14. 2009..Finally, we found that enhanced autophagy is crucial for polyamine-induced suppression of necrosis and enhanced longevity...
- Spo11-accessory proteins link double-strand break sites to the chromosome axis in early meiotic recombinationSilvia Panizza
Department of Chromosome Biology, Max F Perutz Laboratories, University of Vienna, Dr Bohr Gasse 1, A 1030 Vienna, Austria
Cell 146:372-83. 2011..Loss of Rec114, Mer2, and Mei4 binding correlates with loss of DSBs. Our results strongly suggest that hotspot sequences become tethered to axis sites by the DSB machinery prior to DSB formation...
- Cse4 is part of an octameric nucleosome in budding yeastRaymond Camahort
Stowers Institute for Medical Research, Kansas City, MO 64110, USA
Mol Cell 35:794-805. 2009..Taken together, our experimental evidence supports the model that the Cse4 nucleosome is an octamer, containing two copies each of Cse4, H2A, H2B, and H4...
- Cryo-EM structure and rRNA model of a translating eukaryotic 80S ribosome at 5.5-A resolutionJean Paul Armache
Gene Center, Department of Biochemistry, Ludwig Maximilians Universitat Munchen, Feodor Lynen Strasse 25, 81377 Munich, Germany
Proc Natl Acad Sci U S A 107:19748-53. 2010..5-Å resolution. This map, together with a 6.1-Å map of a Saccharomyces cerevisiae 80S ribosome, has enabled us to model ∼98% of the rRNA...
- Immune recognition. A new receptor for beta-glucansG D Brown
Sir William Dunn School of Pathology, University of Oxford, South Parks Road, Oxford OX1 3RE, UK
Nature 413:36-7. 2001..1), there is evidence that another beta-glucan receptor is present on macrophages. Here we identify this unknown receptor as dectin-1 (ref. 2), a finding that provides new insights into the innate immune recognition of beta-glucans...
- GENECODIS: a web-based tool for finding significant concurrent annotations in gene listsPedro Carmona-Saez
Biocomputing Unit, National Center of Biotechnology CNB CSIC, C Darwin 3, Campus Universidad Autonoma de Madrid, 28049 Madrid, Spain
Genome Biol 8:R3. 2007..GENECODIS is publicly available at http://genecodis.dacya.ucm.es/...
- Translation efficiency is determined by both codon bias and folding energyTamir Tuller
Department of Molecular Genetics, Weizmann Institute of Science, Rehovot 76100, Israel
Proc Natl Acad Sci U S A 107:3645-50. 2010..Using the Escherichia coli and Saccharomyces cerevisiae transcriptomes, we conducted a genome-scale study aiming at dissecting the determinants of translation ..
- Two strategies for gene regulation by promoter nucleosomesItay Tirosh
Department of Molecular Genetics, Weizmann Institute of Science, Rehovot 76100, Israel
Genome Res 18:1084-91. 2008..Analysis of nucleosome positioning in human promoters reproduces the main observations. Our results suggest two distinct strategies for gene regulation by chromatin, which are selectively employed by different genes...
- Aneuploidy confers quantitative proteome changes and phenotypic variation in budding yeastNorman Pavelka
Stowers Institute for Medical Research, 1000 East 50th Street, Kansas City, Missouri 64110, USA
Nature 468:321-5. 2010....
- Cell wall integrity signaling in Saccharomyces cerevisiaeDavid E Levin
Department of Biochemistry and Molecular Biology, Johns Hopkins Bloomberg School of Public Health, Baltimore, MD 21205, USA
Microbiol Mol Biol Rev 69:262-91. 2005....
- Mechanism of eukaryotic homologous recombinationJoseph San Filippo
Department of Molecular Biophysics and Biochemistry, Yale University School of Medicine, New Haven, CT 06520, USA
Annu Rev Biochem 77:229-57. 2008..Recent progress on elucidating the mechanisms of action of Rad51 and Dmc1 and their cohorts of ancillary factors is reviewed here...
- Unstable tandem repeats in promoters confer transcriptional evolvabilityMarcelo D Vinces
FAS Center for Systems Biology, Harvard University, 52 Oxford Street, Cambridge, MA 02138, USA
Science 324:1213-6. 2009..A search for tandem repeats in the Saccharomyces cerevisiae genome revealed that the nucleosome-free region directly upstream of genes (the promoter region) is ..
- Antisense RNA stabilization induces transcriptional gene silencing via histone deacetylation in S. cerevisiaeJurgi Camblong
Department of Cell Biology, Sciences III, University of Geneva, 30 quai E Ansermet, 1211 Geneva 4, Switzerland
Cell 131:706-17. 2007....
- An ER-mitochondria tethering complex revealed by a synthetic biology screenBenoît Kornmann
Department of Biochemistry and Biophysics, University of California at San Francisco, San Francisco, CA 94158, USA
Science 325:477-81. 2009..The tethering complex localized to discrete foci, suggesting that discrete sites of close apposition between ER and mitochondria facilitate interorganelle calcium and phospholipid exchange...
- Systematic genetic analysis with ordered arrays of yeast deletion mutantsA H Tong
Banting and Best Department of Medical Research, University of Toronto, Toronto ON, Canada M5G 1L6
Science 294:2364-8. 2001In Saccharomyces cerevisiae, more than 80% of the approximately 6200 predicted genes are nonessential, implying that the genome is buffered from the phenotypic consequences of genetic perturbation...
- A comprehensive strategy enabling high-resolution functional analysis of the yeast genomeDavid K Breslow
Department of Cellular and Molecular Pharmacology, University of California, San Francisco, 1700 4th Street, San Francisco, California 94158, USA
Nat Methods 5:711-8. 2008Functional genomic studies in Saccharomyces cerevisiae have contributed enormously to our understanding of cellular processes...
- Full dynamic range proteome analysis of S. cerevisiae by targeted proteomicsPaola Picotti
Institute of Molecular Systems Biology, ETH Zurich, Zurich CH 8093, Switzerland
Cell 138:795-806. 2009..We therefore demonstrate the potential of SRM-based proteomics to provide assays for the measurement of any set of proteins of interest in yeast at high-throughput and quantitative accuracy...
- Systematic mapping of genetic interaction networksScott J Dixon
Banting and Best Department of Medical Research, Terrence Donnelly Center for Cellular and Biomolecular Research, University of Toronto, Toronto, Ontario M5S 1A7, Canada
Annu Rev Genet 43:601-25. 2009..Systematic screens conducted in the yeast Saccharomyces cerevisiae have identified thousands of genetic interactions and provided insight into the global structure of ..
- Evolution of biomolecular networks: lessons from metabolic and protein interactionsTakuji Yamada
European Molecular Biology Laboratory, Heidelberg, Germany
Nat Rev Mol Cell Biol 10:791-803. 2009..However, many evolutionary constraints can be uncovered only if temporal and spatial aspects are included in the network analysis...
- MMEJ repair of double-strand breaks (director's cut): deleted sequences and alternative endingsMitch McVey
Department of Biology, Tufts University, 165 Packard Avenue, Medford, MA 02155, USA
Trends Genet 24:529-38. 2008..We propose a mechanistic model for MMEJ and highlight important questions for future research...
- The transmembrane kinase Ire1p is a site-specific endonuclease that initiates mRNA splicing in the unfolded protein responseC Sidrauski
Department of Biochemistry and Biophysics, University of California, School of Medicine, San Francisco 94143 0448, USA
Cell 90:1031-9. 1997..The addition of purified tRNA ligase completes splicing; we therefore have reconstituted HAC1 mRNA splicing in vitro from purified components...
- RNA polymerase II subunits link transcription and mRNA decay to translationLiat Harel-Sharvit
Department of Molecular Microbiology, Rappaport Faculty of Medicine, Technion Israel Institute of Technology, Haifa, 31096, Israel
Cell 143:552-63. 2010..We propose that Rpb4/7, through its interactions at each step in the mRNA lifecycle, represents a class of factors, "mRNA coordinators," which integrate the various stages of gene expression into a system...
- Increased mutagenesis and unique mutation signature associated with mitotic gene conversionWade M Hicks
Department of Biology and Rosenstiel Center, Brandeis University, Waltham, MA 02454 9110, USA
Science 329:82-5. 2010To examine the fidelity of DNA synthesis during double-strand break (DSB) repair in Saccharomyces cerevisiae we studied gene conversion in which both strands of DNA are newly synthesized...
- SIR2 and SIR4 interactions differ in core and extended telomeric heterochromatin in yeastS Strahl-Bolsinger
Department of Biological Chemistry, University of California, Los Angeles 90095, USA
Genes Dev 11:83-93. 1997..RAP1 binding at the core region is unaffected by SIR3 overproduction and RAP1 shows no evidence of spreading. Thus, we propose that the structure of core telomeric heterochromatin differs from that extended by SIR3...
- Translational regulation of GCN4 and the general amino acid control of yeastAlan G Hinnebusch
Laboratory of Gene Regulation and Development, National Institute of Child Health and Human Development, Bethesda, Maryland 20892, USA
Annu Rev Microbiol 59:407-50. 2005..The activator protein Gcn4 of the yeast Saccharomyces cerevisiae is regulated by an intricate translational control mechanism, which is the primary focus of this review, ..
- Uniform transitions of the general RNA polymerase II transcription complexAndreas Mayer
Gene Center Munich and Department of Biochemistry, Center for Integrated Protein Science, Ludwig Maximilians Universitat Munchen, Munich, Germany
Nat Struct Mol Biol 17:1272-8. 2010..Transitions are uniform and independent of gene length, type and expression...
- Kinetochore recruitment of two nucleolar proteins is required for homolog segregation in meiosis IKirsten P Rabitsch
Research Institute of Molecular Pathology, Dr Bohr Gasse 7, A 1030 Vienna, Austria
Dev Cell 4:535-48. 2003..of a protein complex, Csm1/Lrs4, that is essential for monoorientation of sister kinetochores in Saccharomyces cerevisiae. Both proteins are present in vegetative cells, where they reside in the nucleolus...
- Identification of aneuploidy-tolerating mutationsEduardo M Torres
David H Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
Cell 143:71-83. 2010....
- A library of yeast transcription factor motifs reveals a widespread function for Rsc3 in targeting nucleosome exclusion at promotersGwenael Badis
Banting and Best Department of Medical Research, University of Toronto, Toronto, ON M5S 3E1, Canada
Mol Cell 32:878-87. 2008....
- Prevalent positive epistasis in Escherichia coli and Saccharomyces cerevisiae metabolic networksXionglei He
Department of Ecology and Evolutionary Biology, Ann Arbor, Michigan, USA
Nat Genet 42:272-6. 2010..interactions amongst biochemical reactions within the metabolic networks of Escherichia coli and Saccharomyces cerevisiae using flux balance analysis...
- Role of the OPI1 gene in controlling viability of Candida glabrataTODD REYNOLDS; Fiscal Year: 2007..CgOpi1p is similar to the Opi1p protein in the bakers' yeast Saccharomyces cerevisiae. S...
- ENZYMATIC MECHANISMS OF GENETIC RECOMBINATIONRichard D Kolodner; Fiscal Year: 2010..In the proposed studies, Saccharomyces cerevisiae will be used as a model system to identify the genes and pathways that act to suppress GCRs...
- INTEGRATION SPECIFICITY OF THE TY3 RETROTRANSPOSONSuzanne Sandmeyer; Fiscal Year: 1999..TFIIIC suppressors identified in the Sentenac lab will be analyzed for affects on Ty3 transposition. As residues in Ty3 are identified which are critical to targeting, suppressor screens for interacting host factors will be performed. ..
- HTLV-I Tax activates the anaphase promoting complexChou Zen Giam; Fiscal Year: 2009....
- MECHANISM OF PRE-MRNA SPLICINGMAGDA KONARSKA; Fiscal Year: 2009..By contrast, splice site signals in Saccharomyces cerevisiae fit well to the consensus and alternative splicing is thought not to occur in yeast...
- Regulation of nitrogen catabolic gene expression in S cerevisiaeTERRANCE COOPER; Fiscal Year: 2007..More importantly it will serve as an efficient model system that generates information, much of which will be directly applicable to mammalian cells because the Tor pathway is so well conserved between these organisms. ..
- Regulation of nitrogen catabolic gene expression in S cerevisiaeTerrance G Cooper; Fiscal Year: 2010..More importantly it will serve as an efficient model system that generates information, much of which will be directly applicable to mammalian cells because the Tor pathway is so well conserved between these organisms. ..
- MANNOPROTEIN BIOSYNTHESIS IN SACCHAROMYCES CEREVISIAEAnnette Herscovics; Fiscal Year: 2000..Large quantities of the catalytic domain of the al,2-mannosidase from Saccharomyces cerevisiae that trims Man9GlcNAc2 to Man8GlcNAc2 have been produced in Pichia pastoris...
- MECHANISM OF PRE-MRNA SPLICINGMAGDA KONARSKA; Fiscal Year: 2010..By contrast, splice site signals in Saccharomyces cerevisiae fit well to the consensus and alternative splicing is thought not to occur in yeast...
- MECHANISM OF SITE SPECIFIC DNA RECOMBINATIONMakkuni Jayaram; Fiscal Year: 2001..The tests involve the building synthetic substrates to test both questions. ..
- GLYCOPROTEIN BIOSYNTHESIS IN YEASTRobert Trimble; Fiscal Year: 1999..The current application proposes in four Aims studies in the small eukaryotes Saccharomyces cerevisiae and schizosaccharomyces pombe to determine the extent to which the substrate specificity of glycan ..
- DNA REPLICATION AND CHROMOSOME STRUCTURE IN YEASTVirginia A Zakian; Fiscal Year: 2011..These studies will lay the groundwork for the identification and analysis of human proteins with similar functions. ..
- SORTING AND TRANSPORT OF YEAST MEMBRANE PROTEINSTom Stevens; Fiscal Year: 2009..of the vacuolar-type proton-translocating ATPase (V-ATPase) in the simple model eukaryote, the yeast Saccharomyces cerevisiae. Yeast has proved to be an excellent model system, both for identifying the proteins regulating membrane ..
- DNA REPLICATION AND CHROMOSOME STRUCTURE IN YEASTVirginia A Zakian; Fiscal Year: 2010..These studies will lay the groundwork for the identification and analysis of human proteins with similar functions. ..
- REGULATION OF RETROTRANSPOSITION IN S. CEREVISIAEM Joan Curcio; Fiscal Year: 2011..Cellular proteins that are required for retroviral replication are potential targets for the development of new drugs to treat AIDS. ..
- REGULATION OF RETROTRANSPOSITION IN S. CEREVISIAEM Joan Curcio; Fiscal Year: 2010..Cellular proteins that are required for retroviral replication are potential targets for the development of new drugs to treat AIDS. ..
- MOLECULAR MARKER FOR INVASIVE CANDIDA ALBICANSMARGARET HOSTETTER; Fiscal Year: 2001..albicans and thereby bring forward new strategies for the control of candidal infection. ..
- FUNCTION OF AXR1 AND AXR1 LIKE GENES IN ARABIDOPSISMark Estelle; Fiscal Year: 2000..is to determine the biochemical and cellular function of the AXR1 family of proteins in Arabidopsis and Saccharomyces cerevisiae. This family of proteins is related to the ubiquitin-activating enzyme (E1) and genetic studies have ..
- Methods for engineering S. cerevisiae strains carrying multiple precise deletionsFREDERICK ROTH; Fiscal Year: 2007..Multiply-deleted strains allow functional study of genes in gene families, while multiply-inserted strains allow the study of human protein complexes in a tractable model organism. ..
- ROLE OF PROTEIN KINASE C IN YEAST GROWTH CONTROLDavid Levin; Fiscal Year: 1993..Other known cell lysis mutants will also be examined for genetic interactions with PKC1 and BCK1...
- SORTING AND TRANSPORT OF YEAST MEMBRANE PROTEINSTOM HALL STEVENS; Fiscal Year: 2010..of the vacuolar-type proton-translocating ATPase (V-ATPase) in the simple model eukaryote, the yeast Saccharomyces cerevisiae. Yeast has proved to be an excellent model system, both for identifying the proteins regulating membrane ..
- Control of Yeast Life SpanKurt W Runge; Fiscal Year: 2010..pathway that revealed the importance of the b-subunit of the F1F0-ATP synthase complex, encoded in Saccharomyces cerevisiae by the ATP2 gene...
- CONTROL OF ARG-2 GENE EXPRESSION IN NEUROSPORAMATTHEW SACHS; Fiscal Year: 2009..AAP-mediated regulation is observed in vivo in both Neurospora crassa and Saccharomyces cerevisiae and in vitro, using fungal, plant and animal extracts...
- CONTROL OF ARG-2 GENE EXPRESSION IN NEUROSPORAMATTHEW SACHS; Fiscal Year: 2006..AAP-mediated regulation is observed in vivo in both Neurospora crassa and Saccharomyces cerevisiae and in vitro, using fungal, plant and animal extracts...
- Assembly and Function of the Yeast Spore WallAaron M Neiman; Fiscal Year: 2010..The spore wall of Saccharomyces cerevisiae is a complex structure that forms de novo during the process of sporulation...
- CONTROL OF ARG-2 GENE EXPRESSION IN NEUROSPORAMATTHEW SACHS; Fiscal Year: 2007..AAP-mediated regulation is observed in vivo in both Neurospora crassa and Saccharomyces cerevisiae and in vitro, using fungal, plant and animal extracts...
- CONTROL OF ARG-2 GENE EXPRESSION IN NEUROSPORAMATTHEW SACHS; Fiscal Year: 2007
- GENETIC ANALYSIS OF PLEIOTROPIC DRUG RESISTANCEW Moye Rowley; Fiscal Year: 2009..We are using the yeast Saccharomyces cerevisiae as a model eukaryotic system that has a well described set of multidrug resistance loci called ..
- GENETIC ANALYSIS OF PLEIOTROPIC DRUG RESISTANCEW Scott Moye Rowley; Fiscal Year: 2010..We are using the yeast Saccharomyces cerevisiae as a model eukaryotic system that has a well described set of multidrug resistance loci called ..
- MANNOPROTEIN BIOSYNTHESIS IN SACCHAROMYCES CEREVISIAEAnnette Herscovics; Fiscal Year: 2005....
- SACCHAROMYCES CEREVISIAE MICROTUBULE CYTOSKELETONGeorjana Barnes; Fiscal Year: 1993Having used biochemical approaches to identify components of the Saccharomyces cerevisiae microtubule cytoskeleton, we will now determine how these components function during mitosis, meiosis, and nuclear fusion...
- Arrest, Recovery, and Adaptation from DNA DamageJames Haber; Fiscal Year: 2009We will continue and extend our analysis of the DNA damage checkpoint in the model organism, Saccharomyces cerevisiae. In yeast, as well as in human cells, the DNA damage checkpoint acts to prevent mitosis until DNA has been repaired...
- YEAST GENETIC RESEARCH RESOURCE CENTERSHUNG CHANG JONG; Fiscal Year: 2002..abstract_text> ..
- Molecular Structure of Yeast Chromosome 1DAVID KABACK; Fiscal Year: 2005We propose to continue functional genomic studies on the model eukaryote Saccharomyces cerevisiae and will investigate a proposed function for subtelomeric DNA that comprises approximately 7 percent of its genome...