saccharomyces cerevisiae

Summary

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.

Top Publications

  1. pmc The BioGRID Interaction Database: 2011 update
    Chris Stark
    Samuel Lunenfeld Research Institute, Mount Sinai Hospital, Toronto M5G 1X5, Canada
    Nucleic Acids Res 39:D698-704. 2011
  2. ncbi The genetic landscape of a cell
    Michael 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
  3. pmc Saccharomyces Genome Database: the genomics resource of budding yeast
    J Michael Cherry
    Department of Genetics, Stanford University, Stanford, CA 94305 5120, USA
    Nucleic Acids Res 40:D700-5. 2012
  4. pmc Extending healthy life span--from yeast to humans
    Luigi Fontana
    Division of Geriatrics and Nutritional Science, Washington University School of Medicine, St Louis, MO 63110, USA
    Science 328:321-6. 2010
  5. pmc The BioGRID Interaction Database: 2008 update
    Bobby Joe Breitkreutz
    Samuel Lunenfeld Research Institute, Mount Sinai Hospital, Toronto, Canada
    Nucleic Acids Res 36:D637-40. 2008
  6. pmc Genome-wide analysis in vivo of translation with nucleotide resolution using ribosome profiling
    Nicholas 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
  7. pmc Mistranslation-induced protein misfolding as a dominant constraint on coding-sequence evolution
    D Allan Drummond
    FAS Center for Systems Biology, Harvard University, Cambridge, MA 02138, USA
    Cell 134:341-52. 2008
  8. ncbi A versatile toolbox for PCR-based tagging of yeast genes: new fluorescent proteins, more markers and promoter substitution cassettes
    Carsten Janke
    CRBM, CNRS FRE2593, 1919 Route de Mende, F 34293 Montpellier cedex 5, France
    Yeast 21:947-62. 2004
  9. ncbi Multiplexed protein quantitation in Saccharomyces cerevisiae using amine-reactive isobaric tagging reagents
    Philip L Ross
    Applied Biosystems, Framingham, MA 01701, USA
    Mol Cell Proteomics 3:1154-69. 2004
  10. ncbi Capturing chromosome conformation
    Job Dekker
    Department of Molecular and Cellular Biology, Harvard University, Cambridge, MA 02138, USA
    Science 295:1306-11. 2002

Detail Information

Publications277 found, 100 shown here

  1. pmc The BioGRID Interaction Database: 2011 update
    Chris Stark
    Samuel Lunenfeld Research Institute, Mount Sinai Hospital, Toronto M5G 1X5, Canada
    Nucleic Acids Res 39:D698-704. 2011
    ..Complete coverage of the entire literature is maintained for budding yeast (Saccharomyces cerevisiae), fission yeast (Schizosaccharomyces pombe) and thale cress (Arabidopsis thaliana), and efforts to expand ..
  2. ncbi The genetic landscape of a cell
    Michael 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 ..
  3. pmc Saccharomyces Genome Database: the genomics resource of budding yeast
    J 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...
  4. pmc Extending healthy life span--from yeast to humans
    Luigi 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...
  5. pmc The BioGRID Interaction Database: 2008 update
    Bobby 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...
  6. pmc Genome-wide analysis in vivo of translation with nucleotide resolution using ribosome profiling
    Nicholas 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...
  7. pmc Mistranslation-induced protein misfolding as a dominant constraint on coding-sequence evolution
    D Allan Drummond
    FAS Center for Systems Biology, Harvard University, Cambridge, MA 02138, USA
    Cell 134:341-52. 2008
    ....
  8. ncbi A versatile toolbox for PCR-based tagging of yeast genes: new fluorescent proteins, more markers and promoter substitution cassettes
    Carsten 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 ..
  9. ncbi Multiplexed protein quantitation in Saccharomyces cerevisiae using amine-reactive isobaric tagging reagents
    Philip 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...
  10. ncbi Capturing chromosome conformation
    Job 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 ..
  11. ncbi Additional modules for versatile and economical PCR-based gene deletion and modification in Saccharomyces cerevisiae
    M S Longtine
    Department of Biology, University of North Carolina, Chapel Hill 27599 3280, USA
    Yeast 14:953-61. 1998
    An 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...
  12. ncbi Three new dominant drug resistance cassettes for gene disruption in Saccharomyces cerevisiae
    A L Goldstein
    Department of Microbiology, 3020 Duke University Medical Center, Durham, NC 27710, USA
    Yeast 15:1541-53. 1999
    Disruption-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 ..
  13. ncbi Network motifs: simple building blocks of complex networks
    R 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...
  14. pmc Population genomics of domestic and wild yeasts
    Gianni Liti
    Institute of Genetics, Queen s Medical Centre, University of Nottingham, Nottingham NG7 2UH, UK
    Nature 458:337-41. 2009
    Since 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...
  15. pmc The transcriptional landscape of the yeast genome defined by RNA sequencing
    Ugrappa 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...
  16. ncbi Small molecule activators of sirtuins extend Saccharomyces cerevisiae lifespan
    Konrad 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...
  17. ncbi Global analysis of protein expression in yeast
    Sina 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 ..
  18. ncbi The structure of the eukaryotic ribosome at 3.0 Å resolution
    Adam Ben-Shem
    Institut de Genetique et de Biologie Moleculaire et Cellulaire, Illkirch F 67400, France
    Science 334:1524-9. 2011
    ..We report the crystal structure of the 80S ribosome from the yeast Saccharomyces cerevisiae--including nearly all ribosomal RNA bases and protein side chains as well as an additional protein, Stm1--..
  19. ncbi Crystal structure of the eukaryotic ribosome
    Adam 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...
  20. ncbi An evolutionarily conserved mechanism for controlling the efficiency of protein translation
    Tamir 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...
  21. ncbi Sensing DNA damage through ATRIP recognition of RPA-ssDNA complexes
    Lee 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...
  22. pmc The chemical genomic portrait of yeast: uncovering a phenotype for all genes
    Maureen 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...
  23. pmc Saccharomyces Genome Database provides mutant phenotype data
    Stacia 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...
  24. ncbi Nucleosome positioning and gene regulation: advances through genomics
    Cizhong 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...
  25. ncbi Global analysis of protein localization in budding yeast
    Won 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
    ....
  26. pmc A global protein kinase and phosphatase interaction network in yeast
    Ashton 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...
  27. ncbi Apoptosis in yeast: triggers, pathways, subroutines
    D 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) ..
  28. ncbi Nonfilamentous C. albicans mutants are avirulent
    H J Lo
    Whitehead Institute for Biomedical Research and Department of Biology, Massachusetts Institute of Technology, Cambridge 02142, USA
    Cell 90:939-49. 1997
    Candida 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...
  29. ncbi The evolutionary fate and consequences of duplicate genes
    M 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...
  30. pmc Genomic expression programs in the response of yeast cells to environmental changes
    A P Gasch
    Department of Biochemistry, Stanford University School of Medicine, Stanford, CA 94305 5428, USA
    Mol Biol Cell 11:4241-57. 2000
    We explored genomic expression patterns in the yeast Saccharomyces cerevisiae responding to diverse environmental transitions...
  31. pmc High-resolution DNA-binding specificity analysis of yeast transcription factors
    Cong 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...
  32. pmc A role for Snf2-related nucleosome-spacing enzymes in genome-wide nucleosome organization
    Triantaffyllos 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.
  33. pmc Analysis of a genome-wide set of gene deletions in the fission yeast Schizosaccharomyces pombe
    Dong Uk Kim
    Integrative Omics Research Centre, Korea Research Institute of Bioscience and Biotechnology, Yuseong, Daejeon, Korea
    Nat Biotechnol 28:617-23. 2010
    ....
  34. pmc A hierarchical combination of factors shapes the genome-wide topography of yeast meiotic recombination initiation
    Jing 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...
  35. pmc Transcriptome analysis by strand-specific sequencing of complementary DNA
    Dmitri Parkhomchuk
    Max Planck Institute for Molecular Genetics, Department of Vertebrate Genomics, Ihnestr 73, 14195 Berlin, Germany
    Nucleic Acids Res 37:e123. 2009
    ..Using Saccharomyces cerevisiae and mouse brain transcriptomes as models, we demonstrate that knowing the transcript's orientation allows ..
  36. ncbi Specificity and stability in topology of protein networks
    Sergei 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...
  37. pmc A barrier nucleosome model for statistical positioning of nucleosomes throughout the yeast genome
    Travis 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...
  38. pmc The SIR2/3/4 complex and SIR2 alone promote longevity in Saccharomyces cerevisiae by two different mechanisms
    M 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...
  39. pmc A three-dimensional model of the yeast genome
    Zhijun 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 ..
  40. ncbi Stochastic switching as a survival strategy in fluctuating environments
    Murat 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 ..
  41. pmc Comprehensive polyadenylation site maps in yeast and human reveal pervasive alternative polyadenylation
    Fatih 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...
  42. pmc Dissection of genetically complex traits with extremely large pools of yeast segregants
    Ian 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...
  43. pmc DNA replication through G-quadruplex motifs is promoted by the Saccharomyces cerevisiae Pif1 DNA helicase
    Katrin 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...
  44. pmc Genome-wide measurement of RNA secondary structure in yeast
    Michael 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...
  45. ncbi MMEJ repair of double-strand breaks (director's cut): deleted sequences and alternative endings
    Mitch 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...
  46. ncbi Genotype to phenotype: a complex problem
    Robin 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. 2010
    We generated a high-resolution whole-genome sequence and individually deleted 5100 genes in Sigma1278b, a Saccharomyces cerevisiae strain closely related to reference strain S288c...
  47. pmc A molecular mechanism of chronological aging in yeast
    Christopher 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...
  48. pmc Extension of chronological life span in yeast by decreased TOR pathway signaling
    R 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. 2006
    Chronological 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...
  49. pmc An integrated approach to characterize genetic interaction networks in yeast metabolism
    Balázs 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-..
  50. ncbi Atg8, a ubiquitin-like protein required for autophagosome formation, mediates membrane tethering and hemifusion
    Hitoshi 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...
  51. ncbi A ubiquitin-like system mediates protein lipidation
    Y 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...
  52. ncbi Stress signaling from the lumen of the endoplasmic reticulum: coordination of gene transcriptional and translational controls
    R 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
  53. ncbi Exploiting indirect neighbours and topological weight to predict protein function from protein-protein interactions
    Hon 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...
  54. pmc Why do hubs in the yeast protein interaction network tend to be essential: reexamining the connection between the network topology and essentiality
    Elena 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...
  55. pmc The biomass objective function
    Adam 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...
  56. pmc The DNA-encoded nucleosome organization of a eukaryotic genome
    Noam 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...
  57. pmc Synthetic chromosome arms function in yeast and generate phenotypic diversity by design
    Jessica 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...
  58. ncbi A protein conjugation system essential for autophagy
    N 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...
  59. pmc Regulation of cell wall biogenesis in Saccharomyces cerevisiae: the cell wall integrity signaling pathway
    David 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...
  60. pmc Connecting extracellular metabolomic measurements to intracellular flux states in yeast
    Monica 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...
  61. pmc A phenotypic profile of the Candida albicans regulatory network
    Oliver 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...
  62. pmc Complete subunit architecture of the proteasome regulatory particle
    Gabriel C Lander
    Life Sciences Division, Lawrence Berkeley National Laboratory, University of California, Berkeley, California 94720, USA
    Nature 482:186-91. 2012
    ..We provide a structural basis for the ability of the proteasome to degrade a diverse set of substrates and thus regulate vital cellular processes...
  63. pmc Lessons on longevity from budding yeast
    Matt 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...
  64. pmc Rewiring of genetic networks in response to DNA damage
    Sourav 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...
  65. pmc Hsp90 and environmental stress transform the adaptive value of natural genetic variation
    Daniel 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...
  66. pmc Point centromeres contain more than a single centromere-specific Cse4 (CENP-A) nucleosome
    Josh 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...
  67. ncbi High-efficiency yeast transformation using the LiAc/SS carrier DNA/PEG method
    R 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 ..
  68. pmc Aneuploidy drives genomic instability in yeast
    Jason 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...
  69. pmc Elevated histone expression promotes life span extension
    Jason 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...
  70. pmc Bridging high-throughput genetic and transcriptional data reveals cellular responses to alpha-synuclein toxicity
    Esti 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...
  71. ncbi Mitochondria-anchored receptor Atg32 mediates degradation of mitochondria via selective autophagy
    Koji 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...
  72. pmc Gene-environment interaction in yeast gene expression
    Erin 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...
  73. pmc High-resolution view of the yeast meiotic program revealed by ribosome profiling
    Gloria 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...
  74. pmc A genetic interaction map of RNA-processing factors reveals links between Sem1/Dss1-containing complexes and mRNA export and splicing
    Gwendolyn 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...
  75. ncbi Two TOR complexes, only one of which is rapamycin sensitive, have distinct roles in cell growth control
    Robbie Loewith
    Division of Biochemistry, Biozentrum, University of Basel, Klingelbergstrasse 70, CH 4056 Basel, Switzerland
    Mol Cell 10:457-68. 2002
    The target of rapamycin (TOR) proteins in Saccharomyces cerevisiae, TOR1 and TOR2, redundantly regulate growth in a rapamycin-sensitive manner...
  76. ncbi Histone H3 methylation by Set2 directs deacetylation of coding regions by Rpd3S to suppress spurious intragenic transcription
    Michael 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...
  77. ncbi Induction of autophagy by spermidine promotes longevity
    Tobias 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...
  78. ncbi Spo11-accessory proteins link double-strand break sites to the chromosome axis in early meiotic recombination
    Silvia 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...
  79. pmc Cse4 is part of an octameric nucleosome in budding yeast
    Raymond 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...
  80. pmc Cryo-EM structure and rRNA model of a translating eukaryotic 80S ribosome at 5.5-A resolution
    Jean 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...
  81. ncbi Immune recognition. A new receptor for beta-glucans
    G 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...
  82. pmc Translation efficiency is determined by both codon bias and folding energy
    Tamir 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 ..
  83. pmc GENECODIS: a web-based tool for finding significant concurrent annotations in gene lists
    Pedro 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/...
  84. pmc Two strategies for gene regulation by promoter nucleosomes
    Itay 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...
  85. ncbi Mechanism of eukaryotic homologous recombination
    Joseph 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...
  86. pmc Cell wall integrity signaling in Saccharomyces cerevisiae
    David 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
    ....
  87. pmc Aneuploidy confers quantitative proteome changes and phenotypic variation in budding yeast
    Norman Pavelka
    Stowers Institute for Medical Research, 1000 East 50th Street, Kansas City, Missouri 64110, USA
    Nature 468:321-5. 2010
    ....
  88. pmc Unstable tandem repeats in promoters confer transcriptional evolvability
    Marcelo 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 ..
  89. ncbi Antisense RNA stabilization induces transcriptional gene silencing via histone deacetylation in S. cerevisiae
    Jurgi Camblong
    Department of Cell Biology, Sciences III, University of Geneva, 30 quai E Ansermet, 1211 Geneva 4, Switzerland
    Cell 131:706-17. 2007
    ....
  90. pmc An ER-mitochondria tethering complex revealed by a synthetic biology screen
    Benoît 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...
  91. ncbi Systematic genetic analysis with ordered arrays of yeast deletion mutants
    A H Tong
    Banting and Best Department of Medical Research, University of Toronto, Toronto ON, Canada M5G 1L6
    Science 294:2364-8. 2001
    In 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...
  92. ncbi The transmembrane kinase Ire1p is a site-specific endonuclease that initiates mRNA splicing in the unfolded protein response
    C 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...
  93. ncbi Evolution of biomolecular networks: lessons from metabolic and protein interactions
    Takuji 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...
  94. ncbi Systematic mapping of genetic interaction networks
    Scott 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 ..
  95. pmc Full dynamic range proteome analysis of S. cerevisiae by targeted proteomics
    Paola 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...
  96. pmc A comprehensive strategy enabling high-resolution functional analysis of the yeast genome
    David 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. 2008
    Functional genomic studies in Saccharomyces cerevisiae have contributed enormously to our understanding of cellular processes...
  97. ncbi RNA polymerase II subunits link transcription and mRNA decay to translation
    Liat 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...
  98. pmc Increased mutagenesis and unique mutation signature associated with mitotic gene conversion
    Wade M Hicks
    Department of Biology and Rosenstiel Center, Brandeis University, Waltham, MA 02454 9110, USA
    Science 329:82-5. 2010
    To 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...
  99. ncbi Uniform transitions of the general RNA polymerase II transcription complex
    Andreas 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...
  100. ncbi Kinetochore recruitment of two nucleolar proteins is required for homolog segregation in meiosis I
    Kirsten 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...
  101. pmc Identification of aneuploidy-tolerating mutations
    Eduardo M Torres
    David H Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
    Cell 143:71-83. 2010
    ....

Research Grants66

  1. Genetic variation and regulatory networks: Mechanisms and complexity
    DANA PE ER; Fiscal Year: 2009
    ..These tools will be made publicly available, including a friendly graphical user interface and visualization. ..
  2. CFI Pathogen Inactivation Technology
    Trevor P Castor; Fiscal Year: 2010
    ..In addition to human plasma and human plasma proteins such as fibrinogen, the developed technology will also be applicable to recombinant therapeutics, monoclonal antibodies, transgenics and vaccines. ..
  3. Biochemical Characterization of Cytochrome b5 Reductase in Candida albicans
    MARY JOLENE PATRICIA HOLLOWAY; Fiscal Year: 2010
    ..in response to pH, heat shock, and oxidative stress in Candida albicans and the yeast model system, Saccharomyces cerevisiae. This will allow me to test the hypothesis that the cb5r knockouts affect susceptibility to various ..
  4. Diverse Roles for RIC8 During G Protein Signaling in Fungi
    Katherine A Borkovich; Fiscal Year: 2012
    ..RIC8 is absent from plants, protists and the yeast Saccharomyces cerevisiae. There are striking similarities between the functions of RIC8 in animals and the model eukaryotic ..
  5. Neuroimaging Assessments of Brain Integrity in Aging Mice
    Ai Ling Lin; Fiscal Year: 2013
    ..CR perhaps is the most well-studied one for various model organisms of extended longevity, including Saccharomyces cerevisiae, Caenorhabditis elegans, rodents and monkeys...
  6. Protein composition and interactions of telemeric chromatin
    Michael P Killoran; Fiscal Year: 2010
    ..Together, a model for telomere breakdown and large-scale approaches for studying chromatin dynamics at telomeres will make a strong contribution to understanding genome instability in cancer formation. ..
  7. Evaluating the role of histone H3K79 methylation states in DNA damage repair in S
    Jeffrey S Thompson; Fiscal Year: 2010
    ..Using the yeast Saccharomyces cerevisiae as a model system, we have shown that loss of this modification renders cells hypersensitive to UV ..
  8. Mechanisms of Splicing Regulation During Environmental Stress in Yeast
    Jaclyn C Greimann; Fiscal Year: 2012
    DESCRIPTION (provided by applicant): Less than 5% of Saccharomyces cerevisiae genes have introns and most yeast intron-containing genes have only one intron...
  9. DNA REPAIR IN A HORMONE RESPONSIVE GENE
    Michael J Smerdon; Fiscal Year: 2013
    ..Thus, results from our laboratory have implications for the broad spectrum of cancer etiology, prevention and treatment. ..
  10. Mechanism of Translation Elongation Factor 2 Inhibition by Bacterial Toxins
    Terri Goss Kinzy; Fiscal Year: 2010
    ..Recent structural analysis of eEF2 from the yeast Saccharomyces cerevisiae, which is also modified by these toxins, demonstrates the diphthamide residue lies on the tip of domain ..
  11. Using Mass Spectroscopy to Characterize Transcription Proteins and F2-Isoprostane
    BETTYE HENNINTON; Fiscal Year: 2011
    Project 1. Characterizing Phosphorylation Sites of Saccharomyces cerevisiae Transcription Factors, Rap1 and GcM Using Nanospray Mass Spectrometry Two Saccharomyces cerevisiae transcription factors, Raplp and Gcrlp, have been partially ..
  12. GENETIC REGULATION OF ALCOHOL METABOLISM IN YEAST
    Elton T Young; Fiscal Year: 2013
    ..In the simple single celled microbe, the budding yeast Saccharomyces cerevisiae, the simplest experimental paradigm for a nutrient shift is the response to loss of glucose, the ..
  13. REGULATION OF PHOSPHOLIPID SYNTHESIS
    George M Carman; Fiscal Year: 2013
    DESCRIPTION (provided by applicant): In the yeast Saccharomyces cerevisiae, the PAH1 gene encodes phosphatidate phosphatase (Pah1p PAP), which has emerged as one of the most important and highly regulated enzymes in lipid metabolism...
  14. RNA polymerase II Elongation Complex: Structure and Function
    Daniel Reines; Fiscal Year: 2013
    ..This has been best examined in the yeast Saccharomyces cerevisiae. In the two conditions, different sets of proteins are involved depending upon RNA sequence signals and ..
  15. Activating liver carcinogens in yeast by expressing CYP450 polymorphisms
    MICHAEL THOMAS FASULLO; Fiscal Year: 2010
    ..per se are sufficient to increase the genotoxicity of carcinogens, we have expressed the P450 genes in Saccharomyces cerevisiae (yeast), which lacks the detoxification enzymes...
  16. The Role of hPso4 in DNA Repair and Chemotherapy Resistance
    Montaser Shaheen; Fiscal Year: 2013
    ..There is data to indicate a role of Pso4 in DNA repair from yeast to humans. Saccharomyces cerevisiae Mutant pso4...
  17. Triazole hypersensitivity in Candida albicans
    Neeraj Chauhan; Fiscal Year: 2009
    ..three HKs and two RRs, of which Ssk1p is a response regulator that is not functionally related to the Saccharomyces cerevisiae homologue...
  18. Is symmetrical dimethylation of Arginine 2 of Histone H3 used as an epigenetic si
    Marjorie A Oettinger; Fiscal Year: 2010
    ..The experiments proposed here should define the roles of this modification and lead to insights into its possible role in both normal development and human disease. ..
  19. Centromere Structure and Function in Candida albicans
    Judith G Berman; Fiscal Year: 2012
    ..like those of higher organisms including humans, and unlike the well characterized point centromeres of Saccharomyces cerevisiae. Importantly, C...
  20. Genetic and Evolutionary Basis of Fungal Drug Resistance
    Zhenglong Gu; Fiscal Year: 2013
    ..This work may improve diagnosis and treatment strategies for pathogenic fungal infection. ..
  21. FASEB SRC on Yeast Chromosome Structure, Replication and Segregation
    Scott Keeney; Fiscal Year: 2012
    ..investigators studying many diverse aspects of chromosome biology and cell biology in the budding yeast Saccharomyces cerevisiae and the fission yeast Schizosaccharomyces pombe, using a range of experimental approaches including ..
  22. The development of probiotic yeast as an inexpensive vaccine delivery platform
    TRACEY JANE LAMB; Fiscal Year: 2013
    ..Using genetic techniques already established for Saccharomyces cerevisiae I will genetically engineer S...
  23. RNA CONFORMATION AND CATALYSIS
    David P Bartel; Fiscal Year: 2013
    ..Although RNAi has been lost in Saccharomyces cerevisiae, it is present in other budding yeasts, including Saccharomyces castellii (a close relative of S...
  24. Genomic profiling of yeast resistance to AFB1, a P450-activated carcinogen
    MICHAEL THOMAS FASULLO; Fiscal Year: 2013
    ..many DNA metabolism and housekeeping genes are conserved from yeast to man, high throughput analysis of Saccharomyces cerevisiae (budding yeast) genes that confer resistance to carcinogens have identified human genes that confer ..
  25. Meiosis, SUMOylation and the ZIP3 Protein: Parallel Studies in Mouse and Yeast.
    Neil Hunter; Fiscal Year: 2012
    Crossing-over is essential for accurate chromosome segregation during meiosis. In Saccharomyces cerevisiae, crossing-over is specifically promoted by ScZip3, a putative E3-ligase for SUMO...
  26. Histoplasma Gene Expression and Organism Persistence
    ALAN GEORGE SMULIAN; Fiscal Year: 2012
    ..the gene encoding Orf 12k15 as an ACS by determining the activity of Orf 12k15 protein biochemically in Saccharomyces cerevisiae (Sc) and Hc and by functional complementation in Sc...
  27. Mechanics and regulation of chromosome dynamics in meiotic prophase
    MICHAEL EDWARD DRESSER; Fiscal Year: 2012
    ..Understanding this new process will provide a new perspective to understand how chromosomes are prepared for inheritance and what makes chromosome transmission fail so frequently in humans. ..
  28. Genetic Interactions and Synthetic Population Biology
    Michael B Elowitz; Fiscal Year: 2013
    ..These fundamental issues are critical for understanding the link between population genetics and the observed complex disease phenotypes, and are thus central to the development of genomic medicine. ..
  29. Genetic Risk for Orofacial Clefts in the Folate/Homocysteine Pathway
    NICHOLAS MARINI; Fiscal Year: 2013
    ..This research plan capitalizes on an ongoing and successful collaboration that unites a unique combination of expertise for its execution. ..
  30. Environmental and genetic regulation of copy number variation (CNV)
    THOMAS PETES; Fiscal Year: 2010
    ..In this proposal, we describe the use of the yeast Saccharomyces cerevisiae as a model to find out how environmental contaminants and various mutations control the rate of CNVs...
  31. Regulation of an Iron Import Facilitator by Transcriptional Interference
    CAMILLE REYES NERY; Fiscal Year: 2010
    ..In Saccharomyces cerevisiae, genes encoding iron transporters and iron uptake facilitators are activated by the transcription factors ..
  32. PHOSPHOLIPID METABOLISM AND MEMBRANE FUNCTION
    George M Carman; Fiscal Year: 2013
    ..of PAP in lipid metabolism became possible by our discoveries of the PAP-encoding genes from the yeast Saccharomyces cerevisiae (e.g., PAH1) and mammals (e.g., LPIN1)...
  33. The Roles of Trm9 and tRNA Methylation in the DNA Damage Response
    Thomas J Begley; Fiscal Year: 2010
    ..We will exploit three powerful model systems (based in Saccharomyces cerevisiae, humans, and mice) to test our hypothesis, to increase our understanding of translational regulation ..
  34. V-ATPase H+ PUMP REGULATION IN FUEL ENERGY SELECTION
    Karlett J Parra; Fiscal Year: 2013
    ..As pathophysiology of the glucose-fatty acid cycle results in metabolic disorders including diabetes and chronic kidney disease, our studies will also contribute towards their understanding. ..
  35. Investigation of the structure and function of urea amidolyase
    MARTIN RAOUL ST. MAURICE; Fiscal Year: 2012
    ..Both Saccharomyces cerevisiae and C. albicans require UAL for urea-dependent growth...
  36. Targeted Degradation of DNA Damage Response Proteins by Autophagy
    Thomas J Begley; Fiscal Year: 2013
    ..We will perform genetic, biochemical and proteomic based experiments in S. cerevisiae to test our hypothesis and to define the molecular signals that allow autophagy to target specific proteins for degradation. ..
  37. Bioactive lipids in food and pharmaceutical products
    Eric J Haas-Stapleton; Fiscal Year: 2013
    ..Our preliminary studies show that Saccharomyces cerevisiae (brewers yeast), a saprophytic fungus, also produces PGE2. PGE2 generated by S...
  38. Pneumocystis carinii: Macrophage &Epithelial Activation
    Andrew H Limper; Fiscal Year: 2013
    ..Moreover, this proposal also presents the potential to develop new agents with strongly beneficial effects on organism-driven lung inflammation during this important cause of morbidity and mortality in patients with AIDS. ..
  39. A Simple Cellular Model for Lipodystrophy
    Joel M Goodman; Fiscal Year: 2013
    ..Bakers yeast, Saccharomyces cerevisiae is a great system for this research, since the cells can robustly store lipid in droplets and the ..
  40. Role of Ca2+/Calcineurin Signaling in S. cerevisiae
    Martha S Cyert; Fiscal Year: 2013
    ..Preliminary observations suggest roles for CN and Whi3 in yeast stress granules, which form in response to glucose starvation and contain non-translating mRNAs complexed with initiation factors. ..
  41. Yeast Based Assays for Chemical Screens Against SARS-CoV Targets
    DANIEL A contact ENGEL; Fiscal Year: 2010
    ..The budding yeast Saccharomyces cerevisiae will be used as a living test tube to measure the effects of specific SARS-CoV proteins on growth...
  42. Facilitating large scale biomass generation: acquisition of an automated 100 L fe
    Roger D Kornberg; Fiscal Year: 2010
    ..investigate the structure and regulation of the RNA polymerase II transcription machinery from the yeast Saccharomyces cerevisiae. This research has been critically dependent for several decades on large scale fermentation, to obtain ..
  43. Role of chromatin structure in regulating gene silencing
    Mary Bryk; Fiscal Year: 2009
    ..of RNA polymerase II-transcribed genes located in the ribosomal DNA locus (rDNA) of the budding yeast Saccharomyces cerevisiae. The experiments in this proposal will use a combination of genetic, molecular, and biochemical ..
  44. Nikon TiE Motorized Microscope System For 3D Image Acquisition, Deconvolution, Li
    Robert S Fuller; Fiscal Year: 2010
    ..The Engelke lab is examining the three-dimensional organization of nuclear genomes in the budding yeast, Saccharomyces cerevisiae, and in murine and human cells...
  45. AIDS Opportunistic Infections: Virulence of C. glabrata
    Brendan Cormack; Fiscal Year: 2013
    ..We have identified two key transcriptional regulators that dramatically alter virulence and are studying how they control the infectious process. ..
  46. The regulation and function of cytoplasmic foci in quiescent cells
    Paul K Herman; Fiscal Year: 2013
    ..This proposal addresses these broader issues by examining a model RNP complex, the P-body of the yeast, Saccharomyces cerevisiae. P-bodies have been conserved from yeast to humans, and much of what we know about these RNP structures ..
  47. MICROFILAMENTS IN THE YEAST SACCHAROMYCES CEREVISIAE
    Anthony P Bretscher; Fiscal Year: 2013
    ....
  48. DNA REPLICATION AND CHROMOSOME STRUCTURE IN YEAST
    Virginia A Zakian; Fiscal Year: 2013
    ..These studies will lay the groundwork for the identification and analysis of human proteins with similar functions. ..
  49. Regulation of RNA Surveillance
    MILES FROME WILKINSON; Fiscal Year: 2012
    ..estimates from microarray analyses from several groups indicate that between 5 and 10% of the genes in Saccharomyces cerevisiae, Drosophila melanogaster, and mammals give rise to transcripts that are subject to NMD...
  50. Activation of rapamycin-sensitive TORC1 by endomembrane amino acid transporters
    MARIA E CARDENAS-CORONA; Fiscal Year: 2013
    ..The central TORC1 members are the Tor protein kinases, which were discovered in the yeast Saccharomyces cerevisiae, a model system that has been crucial in elucidating the TORC1 signaling cascade...
  51. Identifying novel small molecules for improved antifungal drug treatment
    Martha L Bulyk; Fiscal Year: 2012
    ..project is to identify small molecule inhibitors of PDR TFs involved in antifungal drug resistance in Saccharomyces cerevisiae as well as the pathogenic species Candida albicans and Candida glabrata...
  52. Drs2p Function in Clathrin-coated Vesicle Budding
    Todd R Graham; Fiscal Year: 2013
    ..Characterization of P4-ATPases in the budding yeast Saccharomyces cerevisiae (Drs2, Neo1, Dnf1, Dnf2 and Dnf3) has allowed the application of powerful molecular genetic tools to ..
  53. Genetic Analysis of the Nucleosome and RNA Polymerase II: A Systems Approach
    Nevan J Krogan; Fiscal Year: 2012
    ..cerevisiae, in order to more easily understand and eventually manipulate the vast complexity of human cells. ..
  54. Identification of broad-spectrum antifungal efflux pump inhibitors
    Richard Cannon; Fiscal Year: 2009
    ..of New Mexico Center for Molecular Discovery (UNMCMD) and a panel of strains of the model yeast Saccharomyces cerevisiae, developed in our laboratory...
  55. Genetics of the formation of repair &recombination foci
    RODNEY J ROTHSTEIN; Fiscal Year: 2013
    ..control of these processes by studying the formation and disassembly of repair/recombination foci using Saccharomyces cerevisiae as a model system...
  56. Degradation of Short Lived Regulatory Protein in Yeast
    MARK W HOCHSTRASSER; Fiscal Year: 2013
    ..The proposed research will concentrate on the yeast Saccharomyces cerevisiae because of its experimental advantages and the fact that the Ub system in general, and the ERAD machinery ..
  57. Kinetochore Function and Cell Cycle Progression Revision
    Katsumi Kitagawa; Fiscal Year: 2012
    ..For these studies we will use the budding yeast Saccharomyces cerevisiae, as its process of mitotic division is comparable with that of multicellular eukaryotes...
  58. Spinocerebellar ataxia 7 protein function.
    Patrick A Grant; Fiscal Year: 2010
    ..are 2 homologous and highly conserved multi-subunit HAT complexes that were originally identified in Saccharomyces cerevisiae. We have identified the protein Sgf73/ySca7, a homologue of the human protein ataxin-7, as a component of ..
  59. Interaction Between DNA Repair and Antioxidant Genes During Aging
    Carlos A Torres Ramos; Fiscal Year: 2010
    ..To test this hypothesis we will use two model organisms, a simple eukaryotic organism, the yeast Saccharomyces cerevisiae, and a more complex mammalian organism, a knockout mouse heterozygous for Ape1, the main AP endonuclease ..
  60. Regulation of Replication Origin Usage in Saccharomyces cerevisiae
    Bik Kwoon Tye; Fiscal Year: 2009
    ..Therefore, understanding the regulation of DNA replication is central to the study of the etiology of all genetic diseases rooted in genome instability including trisomy and cancer. ..
  61. Role of Set2 and H3 methylation in chromatin function
    Brian D Strahl; Fiscal Year: 2013
    ..Using Saccharomyces cerevisiae as a model organism, we plan to use a combination of biochemistry and genetics to further address the ..
  62. REGULATION OF NUCLEAR PORE COMPLEX ASSEMBLY
    Susan R Wente; Fiscal Year: 2011
    ..Knowledge of how nuclear pore complexes are assembled and function will be important for finding therapeutic strategies to regulate nuclear transport in disease states and moderate viral proliferation/pathogenesis. ..
  63. High Mannose Type Carbohydrate-based HIV/AIDS Vaccine
    Yu Geng; Fiscal Year: 2009
    ..If success, this novel formulation of immunogen from yeast mutant strain will be a safe, cheap, and effective HIV/AIDS vaccine against a broad range of HIV-1 primary isolates. ..
  64. MOLECULAR MARKER FOR INVASIVE CANDIDA ALBICANS
    MARGARET HOSTETTER; Fiscal Year: 2001
    ..albicans and thereby bring forward new strategies for the control of candidal infection. ..
  65. CONTROL OF ARG-2 GENE EXPRESSION IN NEUROSPORA
    MATTHEW 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...
  66. Molecular Structure of Yeast Chromosome 1
    DAVID KABACK; Fiscal Year: 2005
    We 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...