saccharomyces cerevisiae proteins

Summary

Summary: Proteins obtained from the species SACCHAROMYCES CEREVISIAE. The function of specific proteins from this organism are the subject of intense scientific interest and have been used to derive basic understanding of the functioning similar proteins in higher eukaryotes.

Top Publications

  1. 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
  2. ncbi TOR signaling in growth and metabolism
    Stephan Wullschleger
    Biozentrum, University of Basel, Klingelbergstrasse 70, CH 4056 Basel, Switzerland
    Cell 124:471-84. 2006
  3. 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
  4. 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
  5. pmc Dissecting DNA damage response pathways by analysing protein localization and abundance changes during DNA replication stress
    Johnny M Tkach
    Department of Biochemistry, University of Toronto, Toronto, Ontario M5S 1A8, Canada
    Nat Cell Biol 14:966-76. 2012
  6. 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
  7. 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
  8. ncbi Functional profiling of the Saccharomyces cerevisiae genome
    Guri Giaever
    Stanford Genome Technology Center, Stanford University, Palo Alto, California 94304, USA
    Nature 418:387-91. 2002
  9. 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
  10. ncbi Autophagosome formation: core machinery and adaptations
    Zhiping Xie
    Life Sciences Institute and Department of Molecular, Cellular and Developmental Biology and Biological Chemistry, University of Michigan, Ann Arbor, MI 48109, USA
    Nat Cell Biol 9:1102-9. 2007

Detail Information

Publications275 found, 100 shown here

  1. 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
    ..We also demonstrate that extensive and unbiased mapping of the genetic landscape provides a key for interpretation of chemical-genetic interactions and drug target identification...
  2. ncbi TOR signaling in growth and metabolism
    Stephan Wullschleger
    Biozentrum, University of Basel, Klingelbergstrasse 70, CH 4056 Basel, Switzerland
    Cell 124:471-84. 2006
    ..The physiological consequences of mammalian TORC1 dysregulation suggest that inhibitors of mammalian TOR may be useful in the treatment of cancer, cardiovascular disease, autoimmunity, and metabolic disorders...
  3. 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...
  4. 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
    ..It forms the structural framework for the design and analysis of experiments that explore the eukaryotic translation apparatus and the evolutionary forces that shaped it...
  5. pmc Dissecting DNA damage response pathways by analysing protein localization and abundance changes during DNA replication stress
    Johnny M Tkach
    Department of Biochemistry, University of Toronto, Toronto, Ontario M5S 1A8, Canada
    Nat Cell Biol 14:966-76. 2012
    ..This method identifies response pathways that were not detected in genetic and protein interaction screens, and can be readily applied to any form of chemical or genetic stress to reveal cellular response pathways...
  6. 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
    ..This new toolbox should help to speed up the analysis of gene function in yeast, on the level of single genes, as well as in systematic approaches...
  7. 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
    ..Physiological themes in the genomic responses to specific environmental stresses provided insights into the effects of those stresses on the cell...
  8. ncbi Functional profiling of the Saccharomyces cerevisiae genome
    Guri Giaever
    Stanford Genome Technology Center, Stanford University, Palo Alto, California 94304, USA
    Nature 418:387-91. 2002
    ..Our results validate the yeast gene-deletion collection as a valuable resource for functional genomics...
  9. 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
    ..Many of these molecules, including essential proteins and most transcription factors, are present at levels that are not readily detectable by other proteomic techniques nor predictable by mRNA levels or codon bias measurements...
  10. ncbi Autophagosome formation: core machinery and adaptations
    Zhiping Xie
    Life Sciences Institute and Department of Molecular, Cellular and Developmental Biology and Biological Chemistry, University of Michigan, Ann Arbor, MI 48109, USA
    Nat Cell Biol 9:1102-9. 2007
    ..Additional components allow autophagy to adapt to the changing needs of the cell...
  11. 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...
  12. 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
    ....
  13. pmc Bidirectional promoters generate pervasive transcription in yeast
    Zhenyu Xu
    European Molecular Biology Laboratory, Meyerhofstrasse 1, 69117 Heidelberg, Germany
    Nature 457:1033-7. 2009
    ....
  14. pmc The FunCat, a functional annotation scheme for systematic classification of proteins from whole genomes
    Andreas Ruepp
    Institute for Bioinformatics MIPS, GSF National Research Center for Environment and Health, Ingolstaedter Landstrasse 1, D 85764 Neuherberg, Germany
    Nucleic Acids Res 32:5539-45. 2004
    ..Over the last decade, the FunCat has been established as a robust and stable annotation scheme that offers both, meaningful and manageable functional classification as well as ease of perception...
  15. ncbi Protein translation and folding are coupled by an endoplasmic-reticulum-resident kinase
    H P Harding
    Skirball Institute of Biomolecular Medicine, Department of Medicine, NYU School of Medicine, New York 10016, USA
    Nature 397:271-4. 1999
    ..These properties implicate PERK in a signalling pathway that attenuates protein translation in response to ER stress...
  16. pmc Sae2, Exo1 and Sgs1 collaborate in DNA double-strand break processing
    Eleni P Mimitou
    Department of Microbiology, Columbia University Medical Center, 701 West 168th Street, New York, New York 10032, USA
    Nature 455:770-4. 2008
    ..Second, Exo1 and/or Sgs1 rapidly process this intermediate to generate extensive tracts of single-stranded DNA that serve as substrate for Rad51...
  17. 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...
  18. 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...
  19. 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...
  20. ncbi Widespread bidirectional promoters are the major source of cryptic transcripts in yeast
    Helen Neil
    Institut Pasteur, Unité de Génétique des Interactions Macromoléculaires, CNRS, URA2171, 75015 Paris, France
    Nature 457:1038-42. 2009
    ....
  21. 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...
  22. pmc The HSP70 chaperone machinery: J proteins as drivers of functional specificity
    Harm H Kampinga
    Department of Cell Biology, University of Groningen, University Medical Center, 713 AV Groningen, The Netherlands
    Nat Rev Mol Cell Biol 11:579-92. 2010
    ..Some target HSP70 activity to clients at precise locations in cells and others bind client proteins directly, thereby delivering specific clients to HSP70 and directly determining their fate...
  23. 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
    ..Thus, the distinct TOR complexes account for the diversity, specificity, and selective rapamycin inhibition of TOR signaling. TORC1 and possibly TORC2 are conserved from yeast to man...
  24. pmc Target of rapamycin (TOR) in nutrient signaling and growth control
    Robbie Loewith
    Department of Molecular Biology and National Centers of Competence in Research and Frontiers in Genetics and Chemical Biology, University of Geneva, Geneva, CH 1211, Switzerland
    Genetics 189:1177-201. 2011
    ..The yeast Saccharomyces cerevisiae has played a prominent role in both the discovery of TOR and the elucidation of its function. Here we review the TOR signaling network in S. cerevisiae...
  25. pmc YEASTRACT: providing a programmatic access to curated transcriptional regulatory associations in Saccharomyces cerevisiae through a web services interface
    Dário Abdulrehman
    INESC ID, Knowledge Discovery and Bioinformatics Group, R Alves Redol 9, 1000 029 Lisbon, Portugal
    Nucleic Acids Res 39:D136-40. 2011
    ..We expect that by making the new data and services available, the system will continue to be instrumental for yeast biologists and systems biology researchers...
  26. ncbi Active genes are tri-methylated at K4 of histone H3
    Helena Santos-Rosa
    Wellcome Trust Cancer Research UK Institute and Department of Pathology, Tennis Court Road, Cambridge, CB2 1QR, UK
    Nature 419:407-11. 2002
    ..These findings establish the concept of methyl status as a determinant for gene activity and thus extend considerably the complexity of histone modifications...
  27. ncbi Protein group modification and synergy in the SUMO pathway as exemplified in DNA repair
    Ivan Psakhye
    Department of Molecular Cell Biology, Max Planck Institute of Biochemistry, Am Klopferspitz 18, 82152 Martinsried, Germany
    Cell 151:807-20. 2012
    ..We propose that SUMOylation may thus often target a protein group rather than individual proteins, whereas localized modification enzymes and highly specific triggers ensure specificity...
  28. ncbi XBP1 mRNA is induced by ATF6 and spliced by IRE1 in response to ER stress to produce a highly active transcription factor
    H Yoshida
    Graduate School of Biostudies, Kyoto University, Kyoto 606 8304, Japan
    Cell 107:881-91. 2001
    ..Our results reveal features of the UPR conserved during evolution and clarify the relationship between IRE1- and ATF6-dependent pathways...
  29. pmc Delineation of joint molecule resolution pathways in meiosis identifies a crossover-specific resolvase
    Kseniya Zakharyevich
    Department of Microbiology, University of California, Davis, One Shields Avenue, Davis, CA 95616, USA
    Cell 149:334-47. 2012
    ..Thus, Sgs1, Exo1, and MutLγ together define a previously undescribed meiotic JM resolution pathway that produces the majority of crossovers in budding yeast and, by inference, in mammals...
  30. ncbi Translational regulation of GCN4 and the general amino acid control of yeast
    Alan 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
    ..Remarkably, mammalian cells use the same strategy to downregulate protein synthesis while inducing transcriptional activators of stress-response genes under various stressful conditions, including amino acid starvation...
  31. pmc A library of yeast transcription factor motifs reveals a widespread function for Rsc3 in targeting nucleosome exclusion at promoters
    Gwenael Badis
    Banting and Best Department of Medical Research, University of Toronto, Toronto, ON M5S 3E1, Canada
    Mol Cell 32:878-87. 2008
    ....
  32. 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
    ..These data suggest that G4 structures form in vivo and that they are resolved by Pif1 to prevent replication fork stalling and DNA breakage...
  33. 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...
  34. 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
    ..We propose that up-regulation of a highly conserved response to starvation-induced stress is important for life span extension by decreased TOR signaling in yeast and higher eukaryotes...
  35. ncbi Cohesins: chromosomal proteins that prevent premature separation of sister chromatids
    C Michaelis
    Research Institute of Molecular Pathology, Vienna, Austria
    Cell 91:35-45. 1997
    ..Proteins homologous to Scc1p exist in a variety of eukaryotic organisms including humans. A common cohesion apparatus might be used by all eukaryotic cells during both mitosis and meiosis...
  36. ncbi TREX is a conserved complex coupling transcription with messenger RNA export
    Katja Strasser
    BZH, University of Heidelberg, Im Neuenheimer Feld 328, D 69120 Heidelberg, Germany
    Nature 417:304-8. 2002
    ..Our data indicate that the TREX complex has a conserved role in coupling transcription to mRNA export...
  37. ncbi Noise in protein expression scales with natural protein abundance
    Arren Bar-Even
    Department of Molecular Genetics, Weizmann Institute of Science, Rehovot 76100, Israel
    Nat Genet 38:636-43. 2006
    ..We examined the variation in the expression levels of 43 Saccharomyces cerevisiae proteins, in cells grown under 11 experimental conditions...
  38. pmc Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution
    Liam J Holt
    Departments of Physiology and Biochemistry and Biophysics, University of California, San Francisco, San Francisco, CA 94158, USA
    Science 325:1682-6. 2009
    ..The gain or loss of phosphorylation sites in rapidly evolving regions could facilitate the evolution of kinase-signaling circuits...
  39. 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...
  40. pmc Premature Cdk1/Cdc5/Mus81 pathway activation induces aberrant replication and deleterious crossover
    Barnabas Szakal
    Department of Molecular Oncology, Fondazione IFOM, Istituto FIRC di Oncologia Molecolare, Milan 20139, Italy
    EMBO J 32:1155-67. 2013
    ....
  41. pmc Systematic identification of cell cycle-dependent yeast nucleocytoplasmic shuttling proteins by prediction of composite motifs
    Shunichi Kosugi
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Japan
    Proc Natl Acad Sci U S A 106:10171-6. 2009
    ..The application of this strategy to other functional linear motifs should be useful in systematic studies of protein-protein networks...
  42. 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...
  43. 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...
  44. 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...
  45. 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
    ..Source code for the BioGRID and the linked Osprey network visualization system is now freely available without restriction...
  46. 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
  47. pmc A translation-like cycle is a quality control checkpoint for maturing 40S ribosome subunits
    Bethany S Strunk
    Department of Cancer Biology, The Scripps Research Institute, Jupiter, FL 33458, USA
    Cell 150:111-21. 2012
    ..This cycle thus provides a functional test of 60S subunit binding and the GTPase site before ribosomes enter the translating pool...
  48. pmc Diverse RNA-binding proteins interact with functionally related sets of RNAs, suggesting an extensive regulatory system
    Daniel J Hogan
    Department of Biochemistry, Stanford University School of Medicine, Stanford, California, United States of America
    PLoS Biol 6:e255. 2008
    ..These results strongly suggest that combinatorial binding of RBPs to specific recognition elements in mRNAs is a pervasive mechanism for multi-dimensional regulation of their post-transcriptional fate...
  49. pmc Pex3-anchored Atg36 tags peroxisomes for degradation in Saccharomyces cerevisiae
    Alison M Motley
    Department of Molecular Biology and Biotechnology, University of Sheffield, Western Bank, Sheffield, UK
    EMBO J 31:2852-68. 2012
    ..We conclude that Pex3 recruits the pexophagy receptor Atg36. This reinforces the pivotal role played by Pex3 in coordinating the size of the peroxisome pool, and establishes its role in pexophagy in S. cerevisiae...
  50. ncbi Compact, universal DNA microarrays to comprehensively determine transcription-factor binding site specificities
    Michael F Berger
    Division of Genetics, Department of Medicine, Brigham and Women s Hospital and Harvard Medical School, Boston, Massachusetts 02115, USA
    Nat Biotechnol 24:1429-35. 2006
    ..The unbiased coverage of all k-mers permits high-throughput interrogation of binding site preferences, including nucleotide interdependencies, at unprecedented resolution...
  51. ncbi Increased mobility of double-strand breaks requires Mec1, Rad9 and the homologous recombination machinery
    Vincent Dion
    Friedrich Miescher Institute for Biomedical Research, Maulbeerstrasse 66, CH 4058 Basel, Switzerland
    Nat Cell Biol 14:502-9. 2012
    ..Consistent with a role for movement in the homology-search step of homologous recombination, we show that recombination intermediates take longer to form in cells lacking Rad9...
  52. pmc Near-atomic resolution structural model of the yeast 26S proteasome
    Florian Beck
    Department of Molecular Structural Biology, Max Planck Institute of Biochemistry, 82152 Martinsried, Germany
    Proc Natl Acad Sci U S A 109:14870-5. 2012
    ..Together with the C-terminal helices of the six PCI-domain subunits they form a very large coiled-coil bundle, which appears to serve as a flexible anchoring device for all the lid subunits...
  53. pmc An automated method for finding molecular complexes in large protein interaction networks
    Gary D Bader
    Samuel Lunenfeld Research Institute, MT, Sinai Hospital, Toronto ON Canada M5G 1X5, Dept, of Biochemistry, University of Toronto, Toronto ON Canada M5S 1A8
    BMC Bioinformatics 4:2. 2003
    ..As the size of the interaction set increases, databases and computational methods will be required to store, visualize and analyze the information in order to effectively aid in knowledge discovery...
  54. pmc BLM helicase ortholog Sgs1 is a central regulator of meiotic recombination intermediate metabolism
    Arnaud De Muyt
    Laboratory of Biochemistry and Molecular Biology, Center for Cancer Research, National Cancer Institute, Bethesda, MD 20892, USA
    Mol Cell 46:43-53. 2012
    ..We conclude that Sgs1 is a primary regulator of recombination pathway choice during meiosis and suggest a similar function in the mitotic cell cycle...
  55. ncbi AIP1/ALIX is a binding partner for HIV-1 p6 and EIAV p9 functioning in virus budding
    Bettina Strack
    Department of Cancer Immunology and AIDS, Dana Farber Cancer Institute and Department of Pathology, Harvard Medical School, Boston, MA 02115, USA
    Cell 114:689-99. 2003
    ..These observations identify AIP1 as a component of the viral budding machinery, which serves to link a distinct region in the L domain of HIV-1 p6 and EIAV p9 to ESCRT-III...
  56. 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...
  57. pmc A second set of loxP marker cassettes for Cre-mediated multiple gene knockouts in budding yeast
    U Gueldener
    Heinrich Heine Universitat, Institut fur Mikrobiologie, Universitatsstrasse 1, Geb 26 12 01 64, 40225 Dusseldorf, Germany
    Nucleic Acids Res 30:e23. 2002
    ..The set of disruption cassettes and Cre expression plasmids described here represents a significant further development of the marker rescue system, which is ideally suited to functional analysis of the yeast genome...
  58. 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...
  59. pmc Up-to-date catalogues of yeast protein complexes
    Shuye Pu
    Molecular Structure and Function Program, Hospital for Sick Children, Toronto ON, M5G 1X8
    Nucleic Acids Res 37:825-31. 2009
    ..Some of these partially supported and as yet unsupported complexes may be interesting candidates for experimental follow up. Both catalogues are freely available at: http://wodaklab.org/cyc2008/...
  60. 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
    ..Our results provide further insights into the mechanisms underlying the unique membrane dynamics of autophagy and also indicate the functional versatility of ubiquitin-like proteins...
  61. ncbi DMC1: a meiosis-specific yeast homolog of E. coli recA required for recombination, synaptonemal complex formation, and cell cycle progression
    D K Bishop
    Department of Biochemistry and Molecular Biology, Harvard University, Cambridge, Massachusetts 02138
    Cell 69:439-56. 1992
    ..DMC1 is homologous to yeast's RAD51 gene, supporting the view that mitotic DSB repair has been recruited for use in meiotic chromosome metabolism...
  62. pmc Structure of the cross-beta spine of amyloid-like fibrils
    Rebecca Nelson
    Howard Hughes Medical Institute, UCLA DOE Institute for Genomics and Proteomics, Box 951570, UCLA, Los Angeles, California 90095 1570, USA
    Nature 435:773-8. 2005
    ..The structure illuminates the stability of amyloid fibrils, their self-seeding characteristic and their tendency to form polymorphic structures...
  63. ncbi The exosome: a conserved eukaryotic RNA processing complex containing multiple 3'-->5' exoribonucleases
    P Mitchell
    European Molecular Biology Laboratory, Heidelberg, Germany
    Cell 91:457-66. 1997
    ..8S rRNA. Human Rrp4p is found in a comparably sized complex, and expression of the hRRP4 gene in yeast complements the rrp4-1 mutation. We conclude that the exosome constitutes a highly conserved eukaryotic RNA processing complex...
  64. ncbi A class of membrane proteins shaping the tubular endoplasmic reticulum
    Gia K Voeltz
    Howard Hughes Medical Institute and Department of Cell Biology, Harvard Medical School, 240 Longwood Avenue, Boston, MA 02115, USA
    Cell 124:573-86. 2006
    ..The simultaneous absence of the reticulons and Yop1p in S. cerevisiae results in disrupted tubular ER. We propose that these "morphogenic" proteins partition into and stabilize highly curved ER membrane tubules...
  65. ncbi The AAA ATPase Cdc48/p97 and its partners transport proteins from the ER into the cytosol
    Y Ye
    Howard Hughes Medical Institute and Department of Cell Biology, Harvard Medical School, Boston, Massachusetts 02115, USA
    Nature 414:652-6. 2001
    ..We propose that the Cdc48/p97-Ufd1-Npl4 complex extracts proteins from the ER membrane for cytosolic degradation...
  66. ncbi Hsp104, Hsp70, and Hsp40: a novel chaperone system that rescues previously aggregated proteins
    J R Glover
    Howard Hughes Medical Institute and Department of Molecular Genetics and Cell Biology, The University of Chicago, Illinois 60637, USA
    Cell 94:73-82. 1998
    ..coli. We conclude that Hsp104 has a protein remodeling activity that acts on trapped, aggregated proteins and requires specific interactions with conventional chaperones to promote refolding of the intermediates it produces...
  67. ncbi Cryptic pol II transcripts are degraded by a nuclear quality control pathway involving a new poly(A) polymerase
    Françoise Wyers
    Equipe labelisée La Ligue, Avenue de la Terrasse, 91190 Gif sur Yvette, Paris, France
    Cell 121:725-37. 2005
    ..Our data strongly support the existence of a posttranscriptional quality control mechanism limiting inappropriate expression of genetic information...
  68. ncbi Localization of ASH1 mRNA particles in living yeast
    E Bertrand
    Department of Anatomy and Structural Biology and Cell Biology, Albert Einstein College of Medicine, Bronx, New York 10461, USA
    Mol Cell 2:437-45. 1998
    ..Video microscopy demonstrated that She1p/Myo4p moved particles to the bud tip at 200-440 nm/sec. Therefore, the ASH1 3'UTR-dependent particle serves as a marker for RNA transport and localization...
  69. 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
    ....
  70. 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...
  71. ncbi TOR, a central controller of cell growth
    T Schmelzle
    Department of Biochemistry, Biozentrum, University of Basel, Switzerland
    Cell 103:253-62. 2000
    ....
  72. 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
    ..Furthermore, Apg5 and Apg12 have mammalian homologues, suggesting that this new modification system is conserved from yeast to mammalian cells...
  73. 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...
  74. pmc Reinitiation involving upstream ORFs regulates ATF4 mRNA translation in mammalian cells
    Krishna M Vattem
    Department of Biochemistry and Molecular Biology, Indiana University School of Medicine, Indianapolis, IN 46202, USA
    Proc Natl Acad Sci U S A 101:11269-74. 2004
    ..These results suggest that the mechanism of translation reinitiation involving uORFs is conserved from yeast to mammals...
  75. 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...
  76. ncbi How Saccharomyces responds to nutrients
    Shadia Zaman
    Department of Molecular Biology, Princeton University, Princeton, New Jersey 08544, USA
    Annu Rev Genet 42:27-81. 2008
    ....
  77. 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...
  78. ncbi Dynamics and diversity in autophagy mechanisms: lessons from yeast
    Hitoshi Nakatogawa
    Integrated Research Institute, Tokyo Institute of Technology, Yokohama 2268503, Japan
    Nat Rev Mol Cell Biol 10:458-67. 2009
    ..Analyses of autophagy-related (Atg) proteins have unveiled dynamic and diverse aspects of mechanisms that underlie membrane formation during autophagy...
  79. pmc A systematic survey identifies prions and illuminates sequence features of prionogenic proteins
    Simon Alberti
    Whitehead Institute for Biomedical Research, Cambridge, MA 02142, USA
    Cell 137:146-58. 2009
    ..The self-perpetuating states of these proteins present a vast source of heritable phenotypic variation that increases the adaptability of yeast populations to diverse environments...
  80. pmc A dynamic model of proteome changes reveals new roles for transcript alteration in yeast
    M Violet Lee
    Department of Chemistry, University of Wisconsin Madison, Madison, WI, USA
    Mol Syst Biol 7:514. 2011
    ..high mass accuracy mass spectrometry with isobaric tagging to quantify dynamic changes in ~2500 Saccharomyces cerevisiae proteins, in biological triplicate and with paired mRNA samples, as cells acclimated to high osmolarity...
  81. pmc Ribosome assembly factors prevent premature translation initiation by 40S assembly intermediates
    Bethany S Strunk
    Chemical Biology Doctoral Program, University of Michigan, Ann Arbor, MI 48109, USA
    Science 333:1449-53. 2011
    ..These redundant mechanisms probably ensure that pre-40S particles do not enter the translation pathway, which would result in their rapid degradation...
  82. pmc The repertoire and dynamics of evolutionary adaptations to controlled nutrient-limited environments in yeast
    David Gresham
    Lewis Sigler Institute for Integrative Genomics, Princeton University, Princeton, NJ, USA
    PLoS Genet 4:e1000303. 2008
    ..Thus, in addition to answering basic mechanistic questions about evolutionary mechanisms, our work suggests that experimental evolution can also shed light on the function and regulation of individual metabolic pathways...
  83. ncbi Eco1-dependent cohesin acetylation during establishment of sister chromatid cohesion
    Tom Rolef Ben-Shahar
    Chromosome Segregation Laboratory, Cancer Research UK London Research Institute, 44 Lincoln sInn Fields, London WC2A 3PX, UK
    Science 321:563-6. 2008
    ..Our results indicate that Eco1 modifies cohesin to stabilize sister chromatid cohesion in parallel with a cohesion establishment reaction that is in principle Eco1-independent...
  84. 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...
  85. pmc Single-RNA counting reveals alternative modes of gene expression in yeast
    Daniel Zenklusen
    Department of Anatomy and Structural Biology, Albert Einstein College of Medicine, 1300 Morris Park Avenue, Bronx, New York 10461, USA
    Nat Struct Mol Biol 15:1263-71. 2008
    ..These data directly demonstrate the existence of multiple expression modes used to modulate the transcriptome...
  86. 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...
  87. pmc Replication fork stalling at natural impediments
    Ekaterina V Mirkin
    Department of Biology, Tufts University, Medford, MA 02155, USA
    Microbiol Mol Biol Rev 71:13-35. 2007
    ..This review describes the mechanisms and consequences of replication stalling at various natural impediments, with an emphasis on the role of replication stalling in genomic instability...
  88. ncbi A mammalian protein targeted by G1-arresting rapamycin-receptor complex
    E J Brown
    Department of Chemistry, Howard Hughes Medical Institute, Harvard University, Cambridge, Massachusetts 02138
    Nature 369:756-8. 1994
    ....
  89. pmc Yeast Sen1 helicase protects the genome from transcription-associated instability
    Hannah E Mischo
    Sir William Dunn School of Pathology, University of Oxford, South Parks Road, Oxford OX1 3RE, UK
    Mol Cell 41:21-32. 2011
    ..Based on these findings, we propose that R loop formation is a frequent event during transcription and a key function of Sen1 is to prevent their accumulation and associated genome instability...
  90. ncbi Acetylation of Smc3 by Eco1 is required for S phase sister chromatid cohesion in both human and yeast
    Jinglan Zhang
    Center for Molecular Discovery, Verna and Marrs McLean Department of Biochemistry and Molecular Biology, Baylor College of Medicine, Houston, TX 77030, USA
    Mol Cell 31:143-51. 2008
    ..Our study thus identified a molecular target for the acetyltransferase Eco1 and revealed that Smc3 acetylation is a conserved mechanism in regulating sister chromatid cohesion...
  91. pmc CENP-A exceeds microtubule attachment sites in centromere clusters of both budding and fission yeast
    Valerie C Coffman
    Department of Molecular Genetics, The Ohio State University, Columbus, OH 43210, USA
    J Cell Biol 195:563-72. 2011
    ..In addition, we show that fission yeast has enough Dam1-DASH complex for ring formation around attached MTs. The results of this study suggest the need for significant revision of existing CEN/kinetochore architectural models...
  92. pmc High-quality binary protein interaction map of the yeast interactome network
    Haiyuan Yu
    Center for Cancer Systems Biology CCSB, Dana Farber Cancer Institute, Boston, MA 02115, USA
    Science 322:104-10. 2008
    ..Rather than correlating with essentiality, protein connectivity correlates with genetic pleiotropy...
  93. pmc Eukaryote-to-eukaryote gene transfer events revealed by the genome sequence of the wine yeast Saccharomyces cerevisiae EC1118
    Maite Novo
    Institut National de la Recherche Agronomique, Unité Mixte de Recherche 1083 Sciences Pour l Oenologie, F 34060 Montpellier, France
    Proc Natl Acad Sci U S A 106:16333-8. 2009
    ..Our results suggest that these processes are favored by ecologic proximity and are involved in the molecular adaptation of wine yeasts to conditions of high sugar, low nitrogen, and high ethanol concentrations...
  94. ncbi A molecular determinant for the establishment of sister chromatid cohesion
    Elcin Unal
    Howard Hughes Medical Institute and Department of Embryology, Carnegie Institution, 3520 San Martin Drive, Baltimore, MD 21218, USA
    Science 321:566-9. 2008
    ..Smc3 head acetylation and its cell cycle regulation provide important insights into the biology and mechanism of cohesion establishment...
  95. pmc Integrated approaches reveal determinants of genome-wide binding and function of the transcription factor Pho4
    Xu Zhou
    Howard Hughes Medical Institute, Harvard University Faculty of Arts and Sciences Center for Systems Biology, Northwest Labs, 52 Oxford Street, Cambridge, MA 02138, USA
    Mol Cell 42:826-36. 2011
    ..Combining these experimental observations, we are able to globally predict Pho4 binding and its functionality...
  96. pmc Prions are a common mechanism for phenotypic inheritance in wild yeasts
    Randal Halfmann
    Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, Massachusetts 02142, USA
    Nature 482:363-8. 2012
    ..Fully one-third of wild strains harboured them. These, too, created diverse, often beneficial phenotypes. Thus, prions broadly govern heritable traits in nature, in a manner that could profoundly expand adaptive opportunities...
  97. ncbi Mitochondrial retrograde signaling
    Zhengchang Liu
    Department of Molecular Biology, University of Texas Southwestern Medical Center, Dallas, Texas 75390 9148, USA
    Annu Rev Genet 40:159-85. 2006
    ..Here we review advances in the yeast retrograde signaling pathway and highlight its regulatory factors and regulatory mechanisms, its physiological functions, and its connection to nutrient sensing, TOR signaling, and aging...
  98. ncbi A Mec1- and PP4-dependent checkpoint couples centromere pairing to meiotic recombination
    Jill E Falk
    Whitehead Institute for Biomedical Research, Cambridge, MA 02142, USA
    Dev Cell 19:599-611. 2010
    ....
  99. pmc An AIF orthologue regulates apoptosis in yeast
    Silke Wissing
    Institute for Physiological Chemistry, University of Tubingen, Hoppe Seyler Strasse 4, Tuebingen 72076, Germany
    J Cell Biol 166:969-74. 2004
    ..We conclude that Ynr074cp is a cell death effector in yeast and rename it AIF-1 (Aif1p, gene AIF1)...
  100. ncbi Functional dissection of protein complexes involved in yeast chromosome biology using a genetic interaction map
    Sean R Collins
    Department of Cellular and Molecular Pharmacology, University of California, San Francisco, California 94158, USA
    Nature 446:806-10. 2007
    ..This modification, in turn, enables a ubiquitin ligase complex containing the cullin Rtt101 to ensure genomic integrity during DNA replication...
  101. ncbi Mature ribosomes are selectively degraded upon starvation by an autophagy pathway requiring the Ubp3p/Bre5p ubiquitin protease
    Claudine Kraft
    Institute of Biochemistry, HPM, ETH Honggerberg, 8093 Zurich, Switzerland
    Nat Cell Biol 10:602-10. 2008
    ..Taken together, our results suggest a link between ubiquitination and the regulated degradation of mature ribosomes by autophagy...

Research Grants55

  1. ALIGNMENT BASED METHODS FOR MOLECULAR SEQUENCE ANALYSIS
    Steven Henikoff; Fiscal Year: 2001
    ..This effort could yield new eukaryotic family members of great importance for understanding epigenetic phenomena, some of which, such as parental imprinting, are relevant to human disease. ..
  2. Maintenance of blocks-based tools for functional genomic
    Steven Henikoff; Fiscal Year: 2006
    ..These various components will be packaged to facilitate updates and local implementations. [unreadable] [unreadable]..
  3. 2005 CELL BIOLOGY OF METALS GORDON CONFERENCE
    Dennis Winge; Fiscal Year: 2005
    ..The novelty of the Cell Biology of Metals conference lies in the unique focus on cell biological issues related to metal ions and the integrated consideration of multiple metal ions that are essential to life. ..
  4. FASEB conference on Assembly of the Mitochondrial Respiratory Chain
    Dennis Winge; Fiscal Year: 2007
    ..No other meeting has attempted this. [unreadable] [unreadable] [unreadable]..
  5. METAL HOMEOSTATIC MECHANISMS IN YEAST
    Dennis Winge; Fiscal Year: 2007
    ..Mac1 and Aftl/Aft2 are excellent model eukaryotic systems to study nutritional control of gone expression. Information gleaned on the mechanism of Cu- and Fe-regulation may be applicable to other species. ..
  6. METAL CHELATION IN PROTEINS WITH POLYMETALLIC CLUSTERS
    Dennis Winge; Fiscal Year: 2008
    ....
  7. NUTRITIONAL AND METABOLIC MECHANISMS OF AGING
    S Michal Jazwinski; Fiscal Year: 2006
    ..The results of the proposed research have important implications for aging, diabetes, and cancer. ..
  8. Sequence Determinants of Meiotic Recombination Hotspots
    Walter Steiner; Fiscal Year: 2007
    ..pombe are also active in the distantly related budding yeast Saccharomyces cerevisiae. Sequences that are active in both organisms may be widely conserved among eukaryotes, including man. [unreadable] [unreadable] [unreadable]..
  9. Development & Applications of Knowledge-based Potentials
    Yaoqi Zhou; Fiscal Year: 2006
    ..The successful completion of the proposed studies will likely lead to a new generation of algorithms for more accurate structure determination. ..
  10. DYNAMICS OF PROTEIN-DNA INTERACTIONS IN DNA REPLICATION
    LINDA BLOOM; Fiscal Year: 2008
    ..coli system and many analogies are seen in the human system. An E. coil model system offers the advantage that stable proteins can be obtained in high yields for in vitro analysis. ..
  11. Structure and function of the Mad2 checkpoint protein
    Xuelian Luo; Fiscal Year: 2007
    ..Her proposed studies will facilitate the design of new anti-cancer drugs. ..
  12. Telomerase function and regulation in a new model system
    Neal Lue; Fiscal Year: 2007
    ..We anticipate that our findings will contribute to a detailed molecular understanding of telomerase function and regulation. ..
  13. Genetic Recombination and Chromosome Rearrangements
    LORRAINE SYMINGTON; Fiscal Year: 2007
    ..Much of the conference will be devoted to topics of concern both to the National Cancer Institute and to the Institute of Environmental and Health Sciences. [unreadable] [unreadable] [unreadable] [unreadable]..
  14. DEGRADATION OF SHORT-LIVED REGULATORY PROTEINS IN YEAST
    Mark Hochstrasser; Fiscal Year: 2008
    ..abstract_text> ..
  15. Trafficking of ABC proteins in yeast
    SUSAN D MICHAELIS; Fiscal Year: 2010
    ..Our studies are expected to shed light on a diverse array of membrane protein trafficking diseases, best exemplified by cystic fibrosis, which most commonly results from the ER-retention and degradation of CFTR-deltaF508. ..
  16. PROTEIN KINASE NETWORKS AND SPORULATION IN S. CEREVISIAE
    EDWARD P WINTER; Fiscal Year: 2010
    ..These studies will provide mechanistic insights into how protein kinase networks control developmental programs in general and meiotic development in particular. ..
  17. MOLECULAR CONTROL OF CELL PROLIFERATION
    DAVID OWEN MORGAN; Fiscal Year: 2010
    ..These studies are also likely to illuminate general mechanisms of protein ubiquitination, a regulatory modification of importance throughout cell biology and human disease. ..
  18. Biochemical dissection of epigenetic inheritance by Polycomb group proteins
    NICOLE JANE FRANCIS; Fiscal Year: 2010
    ..This study aims to understand how these proteins function, which will help understand their role in cancer and may eventually make it possible to target them for therapeutic purposes. ..
  19. ANALYSIS OF TELOMERASE REVERSE TRANSCRIPTASE
    Neal F Lue; Fiscal Year: 2010
    ....
  20. Genome-Wide Analysis of Adaptive Evolution in Humans
    JOSHUA MICHAEL AKEY; Fiscal Year: 2010
    ..Research that increases our understanding of the evolutionary forces that shape patterns of human genetic variation will facilitate disease gene mapping studies. ..
  21. Chronological Age-Dependent Genomic Instability in Yeast
    Valter D Longo; Fiscal Year: 2010
    ..Thus, chronologically aging S. cerevisiae can serve as a model to identify genes that regulate genomic instability and understand the mechanisms responsible for age-dependent DNA mutations and cancer in mammals. ..
  22. Gene expression variation in geographically diverse human populations
    JOSHUA MICHAEL AKEY; Fiscal Year: 2010
    ..Research that increases our understanding of gene expression variation will facilitate disease gene mapping studies. ..
  23. Preventing Human Prion Diseases - Inactivation of Prions
    Stanley B Prusiner; Fiscal Year: 2010
    ..Effective protocols for inactivating prions will protect the general public as well as laboratory scientists who are investigating prions. Rarely does a research study have such immediate and important implications. ..
  24. Ubiquitin Ligases, Mechanisms and Functions of the N-End Rule Pathway
    Alexander Varshavsky; Fiscal Year: 2008
    ..5) New components and functions of the deamidation branch of the N-end rule pathway: isolation, cloning and molecular genetic dissection of mouse NTAQ1, a glutamine-specific N-terminal amidase. ..
  25. Mechanisms of Double-strand Break Repair in Yeast
    LORRAINE SYMINGTON; Fiscal Year: 2009
    ..The last aim includes in vitro studies to identify preferred DNA substrates for Rad55:Rad57 binding and stabilization of the Rad51 nucleoprotein by Rad55:Rad57 in the presence or absence of Srs2. ..
  26. A Model Signaling Mucin in Yeast
    Paul Cullen; Fiscal Year: 2008
    ..We use a model genetic system - budding yeast - to investigate mucin function in MAP kinase pathway activation, cell adherence, and biofilm formation. [unreadable] [unreadable] [unreadable]..
  27. Visualizing protein interaction networks by fluorescence complementation
    Mensur Dlakic; Fiscal Year: 2007
    ..unreadable] [unreadable] [unreadable]..
  28. Structure-based prediction of folding mechanism
    Yaoqi Zhou; Fiscal Year: 2007
    ..The analytic tools and computational methods developed in the proposal have the potential to be widely used by those who are interested in determining the preferred folding pathways. ..
  29. 4 iron-4sulfur Clusters in Aging and Alzheimer's Disease
    Valter Longo; Fiscal Year: 2004
    ..abstract_text> ..
  30. Genetic Recombination/Genomic Rearrangements Conference
    LORRAINE SYMINGTON; Fiscal Year: 2005
    ..abstract_text> ..
  31. DUAL ROLE FOR CDC13 IN YEAST TELOMERE FUNCTION
    Victoria Lundblad; Fiscal Year: 2004
    ..Characterization of the dual nature of this essential yeast telomere protein may serve as a paradigm for similar events at mammalian telomeres. ..
  32. TRANSCRIPTION FACTOR MUTANTS OF YEAST
    Karen Arndt; Fiscal Year: 2004
    ..abstract_text> ..
  33. BIOCHEMISTRY OF PREMRNA SPLICING FACTORS
    David Horowitz; Fiscal Year: 2004
    ..Following these interactions through the second step of the reaction will further the understanding of the mechanism of splicing. ..
  34. DNA END-JOINING PROTEINS AND TELOMERE FUNCTION
    Victoria Lundblad; Fiscal Year: 2003
    ..Finally, we propose to use several specific genetic screens to identify and characterize new genes that function with Ku and the Mre11/Rad5O/Xrs2 complex at the telomere. ..
  35. FOLDING AND ACTIVITY OF ABC PROTEINS IN YEAST
    Susan Michaelis; Fiscal Year: 2002
    ..abstract_text> ..
  36. STRUCTURE/FUNCTION OF CYCLIN DEPENDENT KINASES
    David Morgan; Fiscal Year: 2002
    ..The goal in this work will be to achieve a detailed biochemical understanding of the mechanisms by which this complex enzyme is assembled and regulated during mitosis. ..
  37. Conference on Wiring and Plasticity of Nervous Systems
    Thomas Pollard; Fiscal Year: 2002
    ..We are confident that mutually beneficial insights will emerge from learning about each others work. ..
  38. TELOMERE REPLICATION AND SENESCENCE IN YEAST
    Victoria Lundblad; Fiscal Year: 2001
    ..The genes identified in these screens will be incorporated into the ongoing genetic and biochemical experiments with the existing EST genes. ..
  39. Signal transduction by a yeast two-component regulator
    Jan Fassler; Fiscal Year: 2005
    ....
  40. TOBACCO CARCINOGENESIS AND CHEMOPREVENTION
    Karam El Bayoumy; Fiscal Year: 2005
    ..e., selenium compounds, vitamins, and EGCG. ..
  41. Role of the Snf1 protein kinase in regulating eukaryotic gene expression
    Karen Arndt; Fiscal Year: 2007
    ..The conservation between Snf1 and AMPK and between their potential targets strongly suggests that the proposed studies will provide new insights into the function of AMPK. [unreadable] [unreadable] [unreadable]..
  42. Typhoon Trio Imager
    Carol Wilusz; Fiscal Year: 2007
    ..unreadable] [unreadable] [unreadable]..
  43. MECHANISMS OF SULFATE TRANSPORT AND REGULATION
    Michael Jennings; Fiscal Year: 2007
    ..abstract_text> ..
  44. Etiology and Prevention of Oral Cancer
    Karam El Bayoumy; Fiscal Year: 2007
    ..By identifying critical intervention targets in tongue tumorigenesis, it should be possible to minimize the gap between basic research and clinical application, and lead to translational clinical interventions. ..
  45. MECHANICS AND FUNCTIONS OF THE N-END RULE PATHWAY
    Alexander Varshavsky; Fiscal Year: 2007
    ..cerevisiae. ..
  46. CAUSATIVE GENETIC VARIATION IN HUMAN TELOMERE GENES
    Victoria Lundblad; Fiscal Year: 2006
    ..This will, we hope, set the stage for elucidating the target(s) of telomere-based human aging, with the potential for clinical intervention to alleviate the onset of at least some age-dependent diseases. ..
  47. Mechanism of Meclp in the Checkpoint Response
    GEORGE BRUSH; Fiscal Year: 2006
    ..It is expected that these studies will provide significant insight into the molecular mechanisms underlying maintenance of the non-cancerous state under genotoxic conditions. ..
  48. RECOMBINATION MECHANISMS IN YEAST CELL DIFFERENTIATION
    James Haber; Fiscal Year: 2006
    ..abstract_text> ..
  49. GENOME STABILITY IN RAD MUTANTS
    ADAM BAILIS; Fiscal Year: 2006
    ..This combination of genetic and physical methods will promote a more thorough understanding of several of the molecular interactions critical for SSR, and the maintenance of genome stability. ..
  50. Optimized High-Throughput Screen for Small Molecule Inhibitors of P27 Degradation
    Dieter Wolf; Fiscal Year: 2007
    ..If validated, the assay will be used to perform a SMIP screen at the San Diego Center for Chemical Genomics, one of the Molecular Library Screening Centers in the NIH Roadmap Network. [unreadable] [unreadable] [unreadable]..
  51. Spliceosomal snRNA modification in Xenopus oocytes
    Yi Tao Yu; Fiscal Year: 2009
    ..Identification of mRNA/pre- mRNA modifications will form the basis for future functional analyses. ..
  52. Targeted pre-mRNA modification and gene silencing
    Yi Tao Yu; Fiscal Year: 2007
    ..We believe that our novel method will prove effective and useful in mammalian systems as well as in yeast. [unreadable] [unreadable] [unreadable]..
  53. CELL CYCLE ARREST AND SIGNAL TRANSDUCTION IN YEAST
    ELAINE ELION; Fiscal Year: 2009
    ..abstract_text> ..
  54. Applying logic to derive pathways from genome-wide data
    Einat Sprinzak; Fiscal Year: 2007
    ..Furthermore, I will apply the logic analysis to cancer datasets to illuminate the processes which lead cells to neoplastic transformation (Aim4). [unreadable] [unreadable]..