Genomes and Genes
Saccharomyces cerevisiae S288c
Publications127 found, 100 shown here
- Transcriptional silencing and longevity protein Sir2 is an NAD-dependent histone deacetylaseS Imai
Department of Biology, Massachusetts Institute of Technology, Cambridge 02139, USA
Nature 403:795-800. 2000..These findings provide a molecular framework of NAD-dependent histone deacetylation that connects metabolism, genomic silencing and ageing in yeast and, perhaps, in higher eukaryotes...
- Genomic expression programs in the response of yeast cells to environmental changesA P Gasch
Department of Biochemistry, Stanford University School of Medicine, Stanford, CA 94305 5428, USA
Mol Biol Cell 11:4241-57. 2000..Physiological themes in the genomic responses to specific environmental stresses provided insights into the effects of those stresses on the cell...
- A molecular mechanism of chronological aging in yeastChristopher R Burtner
Department of Biochemistry, University of Washington, 1959 NE Pacific Street, Seattle, WA 98195, USA
Cell Cycle 8:1256-70. 2009..We conclude that acetic acid induced mortality is the primary mechanism of chronological aging in yeast under standard conditions...
- A protein conjugation system essential for autophagyN 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...
- TOR, a central controller of cell growthT Schmelzle
Department of Biochemistry, Biozentrum, University of Basel, Switzerland
Cell 103:253-62. 2000....
- Spo11-accessory proteins link double-strand break sites to the chromosome axis in early meiotic recombinationSilvia Panizza
Department of Chromosome Biology, Max F Perutz Laboratories, University of Vienna, Dr Bohr Gasse 1, A 1030 Vienna, Austria
Cell 146:372-83. 2011..Loss of Rec114, Mer2, and Mei4 binding correlates with loss of DSBs. Our results strongly suggest that hotspot sequences become tethered to axis sites by the DSB machinery prior to DSB formation...
- Regulatory control of the resolution of DNA recombination intermediates during meiosis and mitosisJoao Matos
London Research Institute, Cancer Research UK, Clare Hall Laboratories, South Mimms, Herts EN6 3LD, UK
Cell 147:158-72. 2011..Mitotic regulation thereby facilitates chromosome segregation while limiting the potential for loss of heterozygosity and sister-chromatid exchanges...
- The complete spectrum of yeast chromosome instability genes identifies candidate CIN cancer genes and functional roles for ASTRA complex componentsPeter C Stirling
Michael Smith Laboratories, University of British Columbia, Vancouver, Canada
PLoS Genet 7:e1002057. 2011..Overall, the CIN gene spectrum reveals new chromosome biology and will help us to understand CIN phenotypes in human disease...
- BLM helicase ortholog Sgs1 is a central regulator of meiotic recombination intermediate metabolismArnaud 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...
- Eco1-dependent cohesin acetylation during establishment of sister chromatid cohesionTom 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...
- Unipolar cell divisions in the yeast S. cerevisiae lead to filamentous growth: regulation by starvation and RASC J Gimeno
Whitehead Institute for Biomedical Research, Massachusetts Institute of Technology, Cambridge 02142
Cell 68:1077-90. 1992..Constitutive activation of RAS2 or mutation of SHR3, a gene required for amino acid uptake, enhance the pseudohyphal phenotype; a dominant mutation in RSR1/BUD1 that causes random budding suppresses pseudohyphal growth...
- Yeast Sen1 helicase protects the genome from transcription-associated instabilityHannah 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...
- RNase H and multiple RNA biogenesis factors cooperate to prevent RNA:DNA hybrids from generating genome instabilityLamia Wahba
Howard Hughes Medical Institute Department of Molecular and Cell Biology, University of California, Berkeley, Berkeley, CA 94720, USA
Mol Cell 44:978-88. 2011..In summary, RNA:DNA hybrids are a potent source for changing genome structure. By preventing their formation and accumulation, multiple RNA biogenesis factors and RNase H act as guardians of the genome...
- Acetylation of Smc3 by Eco1 is required for S phase sister chromatid cohesion in both human and yeastJinglan 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...
- A molecular determinant for the establishment of sister chromatid cohesionElcin 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...
- An ER-mitochondria tethering complex revealed by a synthetic biology screenBenoît Kornmann
Department of Biochemistry and Biophysics, University of California at San Francisco, San Francisco, CA 94158, USA
Science 325:477-81. 2009..The tethering complex localized to discrete foci, suggesting that discrete sites of close apposition between ER and mitochondria facilitate interorganelle calcium and phospholipid exchange...
- A Mec1- and PP4-dependent checkpoint couples centromere pairing to meiotic recombinationJill E Falk
Whitehead Institute for Biomedical Research, Cambridge, MA 02142, USA
Dev Cell 19:599-611. 2010....
- The transmembrane kinase Ire1p is a site-specific endonuclease that initiates mRNA splicing in the unfolded protein responseC Sidrauski
Department of Biochemistry and Biophysics, University of California, School of Medicine, San Francisco 94143 0448, USA
Cell 90:1031-9. 1997..The addition of purified tRNA ligase completes splicing; we therefore have reconstituted HAC1 mRNA splicing in vitro from purified components...
- An AIF orthologue regulates apoptosis in yeastSilke 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)...
- Mature ribosomes are selectively degraded upon starvation by an autophagy pathway requiring the Ubp3p/Bre5p ubiquitin proteaseClaudine 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...
- Identification of Holliday junction resolvases from humans and yeastStephen C Y Ip
Genetic Recombination Laboratory, Cancer Research UK, London Research Institute, Clare Hall Laboratories, South Mimms, Herts EN6 3LD, UK
Nature 456:357-61. 2008..Recombinant GEN1 and Yen1 resolve Holliday junctions by the introduction of symmetrically related cuts across the junction point, to produce nicked duplex products in which the nicks can be readily ligated...
- The reversible modification regulates the membrane-binding state of Apg8/Aut7 essential for autophagy and the cytoplasm to vacuole targeting pathwayT Kirisako
Department of Cell Biology, National Institute for Basic Biology, Okazaki 444 8585, Japan
J Cell Biol 151:263-76. 2000..A reaction similar to ubiquitination is probably involved in the second modification. The reversible modification of Apg8 appears to be coupled to the membrane dynamics of autophagy and the Cvt pathway...
- Mechanism of the ATP-dependent DNA end-resection machinery from Saccharomyces cerevisiaeHengyao Niu
Department of Molecular Biophysics and Biochemistry, Yale University School of Medicine, New Haven, Connecticut 06520, USA
Nature 467:108-11. 2010..Our reconstituted system should serve as a useful model for delineating the mechanistic intricacy of the DNA break resection process in eukaryotes...
- DNA end resection by Dna2-Sgs1-RPA and its stimulation by Top3-Rmi1 and Mre11-Rad50-Xrs2Petr Cejka
Department of Microbiology, University of California, Davis, Davis, California 95616 8665, USA
Nature 467:112-6. 2010..We suggest that Top3-Rmi1 and MRX are important for recruitment of the Sgs1-Dna2 complex to DSBs. Our experiments provide a mechanistic framework for understanding the initial steps of recombinational DNA repair in eukaryotes...
- R-loop-mediated genome instability in mRNA cleavage and polyadenylation mutantsPeter C Stirling
Michael Smith Laboratories, University of British Columbia, Vancouver, BC, Canada
Genes Dev 26:163-75. 2012..Our findings illuminate how mCP maintains genome integrity by suppressing R-loop formation and suggest that this function may be relevant to certain human cancers...
- SKP1 connects cell cycle regulators to the ubiquitin proteolysis machinery through a novel motif, the F-boxC Bai
Howard Hughes Medical Institute, Baylor College of Medicine, Houston, Texas 77030, USA
Cell 86:263-74. 1996..Different skp1 mutants arrest cells in either G1 or G2, suggesting a connection between regulation of proteolysis in different stages of the cycle...
- A suppressor of two essential checkpoint genes identifies a novel protein that negatively affects dNTP poolsX Zhao
Department of Genetics and Development, Columbia University, College of Physicians and Surgeons, New York, New York 10032 2704, USA
Mol Cell 2:329-40. 1998..Finally, both in vivo and in vitro experiments show that Sml1 binds to Rnr1. We propose that Sml1 inhibits dNTP synthesis posttranslationally by binding directly to Rnr1 and that Mec1 and Rad53 are required to relieve this inhibition...
- Cotranscriptionally formed DNA:RNA hybrids mediate transcription elongation impairment and transcription-associated recombinationPablo Huertas
Departamento de Genetica, Facultad de Biologia, Universidad de Sevilla, Avenida Reina, Mercedes 6, 41012 Seville, Spain
Mol Cell 12:711-21. 2003..These data support a model to explain the connection between recombination, transcription, and mRNA metabolism and provide a new perspective to understanding transcription-associated recombination...
- Alpha-synuclein is part of a diverse and highly conserved interaction network that includes PARK9 and manganese toxicityAaron D Gitler
Whitehead Institute for Biomedical Research and Howard Hughes Medical Institute, Cambridge, Massachusetts 02142, USA
Nat Genet 41:308-15. 2009..Finally, we show that additional genes from our yeast screen, with diverse functions, are potent modifiers of alpha-syn-induced neuron loss in animals, establishing a diverse, highly conserved interaction network for alpha-syn...
- Building sister chromatid cohesion: smc3 acetylation counteracts an antiestablishment activityBenjamin D Rowland
University of Oxford, Department of Biochemistry, South Parks Road, Oxford OX1 3QU, UK
Mol Cell 33:763-74. 2009..According to this model, Eco1 promotes sister DNA entrapment partly by relieving an antiestablishment activity associated with Scc3, Pds5, and Rad61...
- Cascades of multisite phosphorylation control Sic1 destruction at the onset of S phaseMardo Kõivomägi
Institute of Technology, University of Tartu, Tartu 50411, Estonia
Nature 480:128-31. 2011....
- Tor, a phosphatidylinositol kinase homologue, controls autophagy in yeastT Noda
National Institute for Basic Biology, Department of Cell Biology, Nishigonaka 38, Myodaijicho, Okazaki 444, Japan
J Biol Chem 273:3963-6. 1998..In nutrient-rich medium, Apg proteins are involved also in the transport of aminopeptidase I from the cytosol to the vacuole. Tor may act to switch Apg function between autophagy and transport of aminopeptidase I...
- Toward a comprehensive temperature-sensitive mutant repository of the essential genes of Saccharomyces cerevisiaeShay Ben-Aroya
Michael Smith Laboratories, University of British Columbia, Vancouver, BC V6T 1Z4, Canada
Mol Cell 30:248-58. 2008..The importance of this collection is demonstrated by biochemical and genetic screens that reveal essential genes involved in RNA processing and maintenance of chromosomal stability...
- FLO1 is a variable green beard gene that drives biofilm-like cooperation in budding yeastScott Smukalla
FAS Center for Systems Biology, Harvard University, Northwest Labs, Cambridge, MA 02138, USA
Cell 135:726-37. 2008..Moreover, FLO1 is highly variable among strains both in expression and in sequence, suggesting that flocculation in S. cerevisiae is a dynamic, rapidly evolving social trait...
- Ulp1-SUMO crystal structure and genetic analysis reveal conserved interactions and a regulatory element essential for cell growth in yeastE Mossessova
Biochemistry Department, Weill Medical College of Cornell University, New York, New York 10021, USA
Mol Cell 5:865-76. 2000..Genetic analysis guided by the structure further reveals a regulatory element N-terminal to the proteolytic domain that is required for cell growth in yeast...
- Budding yeast Wpl1(Rad61)-Pds5 complex counteracts sister chromatid cohesion-establishing reactionTakashi Sutani
Graduate School of Bioscience and Biotechnology, Tokyo Institute of Technology, 4259 Nagatsuta cho, Midori ku, Yokohama, Kanagawa 226 8501, Japan
Curr Biol 19:492-7. 2009..Taken together, the presented data suggest that Wpl1-Pds5 complex is inhibitory for cohesion establishment and that Eco1 establishes cohesion by hindering the function of Wpl1-Pds5 temporally in S phase...
- Dimethylation of H3K4 by Set1 recruits the Set3 histone deacetylase complex to 5' transcribed regionsTaesoo Kim
Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, 240 Longwood Avenue, Boston, MA 02115, USA
Cell 137:259-72. 2009....
- A class of dynamin-like GTPases involved in the generation of the tubular ER networkJunjie Hu
Howard Hughes Medical Institute, Department of Cell Biology, Harvard Medical School, 240 Longwood Avenue, Boston, MA 02115, USA
Cell 138:549-61. 2009..Since atlastin-1 mutations cause a common form of hereditary spastic paraplegia, we suggest ER-shaping defects as a neuropathogenic mechanism...
- Concerted loading of Mcm2-7 double hexamers around DNA during DNA replication origin licensingDirk Remus
Clare Hall Laboratories, Cancer Research UK London Research Institute, South Mimms EN6 3LD, UK
Cell 139:719-30. 2009..Our work has significant implications for understanding how eukaryotic DNA replication origins are chosen and licensed, how replisomes assemble during initiation, and how unwinding occurs during DNA replication...
- Interplay between the Smc5/6 complex and the Mph1 helicase in recombinational repairYu Hung Chen
Molecular Biology Program, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA
Proc Natl Acad Sci U S A 106:21252-7. 2009..We suggest that the Smc5/6 complex can counteract/modulate a pro-recombinogenic function of Mph1 or facilitate the resolution of recombination structures generated by Mph1...
- Ubiquitin-dependent DNA damage bypass is separable from genome replicationYasukazu Daigaku
Cancer Research UK London Research Institute, Clare Hall Laboratories, Blanche Lane, South Mimms EN6 3LD, UK
Nature 465:951-5. 2010..Our approach has revealed the distribution of PRR tracts in a synchronized cell population. It will allow an in-depth mechanistic analysis of how cells manage the processing of lesions to their genomes during and after replication...
- The cortical protein Lte1 promotes mitotic exit by inhibiting the spindle position checkpoint kinase Kin4Daniela Trinca Bertazzi
DKFZ ZMBH Alliance, German Cancer Research Center, 69120 Heidelberg, Germany
J Cell Biol 193:1033-48. 2011..This Lte1-mediated exclusion of Kin4 from the dSPB is essential for proper mitotic exit of cells with a correctly aligned spindle. Therefore, Lte1 promotes mitotic exit by inhibiting Kin4 activity at the dSPB...
- A cluster of ribosome synthesis factors regulate pre-rRNA folding and 5.8S rRNA maturation by the Rat1 exonucleaseSander Granneman
Wellcome Trust Centre for Cell Biology and Centre for Systems Biology at Edinburgh, University of Edinburgh, Edinburgh, Scotland
EMBO J 30:4006-19. 2011..We predict that Nop4 and the A(3) cluster establish long-range interactions between the 5.8S and 25S rRNAs, which are subsequently maintained by ribosomal protein binding...
- Efficient bypass of a thymine-thymine dimer by yeast DNA polymerase, PoletaR E Johnson
Sealy Center for Molecular Science, University of Texas Medical Branch at Galveston, 6 104 Medical Research Building, 11th and Mechanic Streets, Galveston, TX 77555 1061, USA
Science 283:1001-4. 1999..When incubated in vitro with all four nucleotides, Rad30 incorporates two adenines opposite the thymine-thymine dimer. Rad30 is the seventh eukaryotic DNA polymerase to be described and hence is named DNA polymerase eta...
- COMPASS: a complex of proteins associated with a trithorax-related SET domain proteinT Miller
Department of Biochemistry, Saint Louis University School of Medicine, St Louis, MO 63104, USA
Proc Natl Acad Sci U S A 98:12902-7. 2001..Molecular characterization of trithorax complexes will facilitate defining the role of this class of proteins in the regulation of gene expression and how their misregulation results in the development of human cancer...
- The yeast THO complex and mRNA export factors link RNA metabolism with transcription and genome instabilityS Jimeno
Departamento de Genetica, Facultad de Biologia, Universidad de Sevilla, 41012 Sevilla, Spain
EMBO J 21:3526-35. 2002..These results indicate a functional link between the processes of elongation and metabolism of nascent mRNA mediated by THO and mRNA export proteins, which have important consequences for the maintenance of genome stability...
- Direct eIF2-eIF3 contact in the multifactor complex is important for translation initiation in vivoLEOS VALASEK
Laboratory of Gene Regulation and Development, National Institute of Child Health and Human Development, Bethesda, MD 20892, USA
EMBO J 21:5886-98. 2002....
- Transcriptional activation via sequential histone H2B ubiquitylation and deubiquitylation, mediated by SAGA-associated Ubp8Karl W Henry
The Wistar Institute, Philadelphia, Pennsylvania 19104, USA
Genes Dev 17:2648-63. 2003..These results suggest that the histone H2B ubiquitylation state is dynamic during transcription, and that the sequence of histone modifications helps to control transcription...
- Histone H3 methylation by Set2 directs deacetylation of coding regions by Rpd3S to suppress spurious intragenic transcriptionMichael J Carrozza
Stowers Institute for Medical Research, Kansas City, Missouri 64110, USA
Cell 123:581-92. 2005..This erases transcription elongation-associated acetylation to suppress intragenic transcription initiation...
- YCA1 participates in the acetic acid induced yeast programmed cell death also in a manner unrelated to its caspase-like activityNicoletta Guaragnella
CNR, Istituto di Biomembrane e Bioenergetica, I 70126 Bari, Italy
FEBS Lett 580:6880-4. 2006..Since in Deltayca1 cells this effect is lost, but z-VAD-fmk does not prevent both WT and Deltayca1 cell death, PCD in WT cells occurs via a Yca1p caspase and a non-caspase route with similar characteristics...
- A single subunit, Dis3, is essentially responsible for yeast exosome core activityAndrzej Dziembowski
Equipe Labellisée La Ligue, Centre de Genetique Moleculaire, Centre National de la Recherche Scientifique UPR2167, associée à l Université Pierre et Marie Curie, Avenue de la Terrasse, 91198 Gif sur Yvette Cedex, France
Nat Struct Mol Biol 14:15-22. 2007..We observed that the yeast exosome ring mediates interactions with protein partners, providing an explanation for its essential function...
- Distinct roles for SWR1 and INO80 chromatin remodeling complexes at chromosomal double-strand breaksHaico van Attikum
Division of Epigenetics, Friedrich Miescher Institute for Biomedical Research, Basel, Switzerland
EMBO J 26:4113-25. 2007..Thus, these two related chromatin remodelers have distinct roles in DSB repair and checkpoint activation...
- Stress-dependent relocalization of translationally primed mRNPs to cytoplasmic granules that are kinetically and spatially distinct from P-bodiesNathaniel P Hoyle
Faculty of Life Sciences, University of Manchester, Manchester M13 9PT, England, UK
J Cell Biol 179:65-74. 2007..Overall, this study highlights new potential control points in both the regulation of mRNA fate and the global control of translation initiation...
- Atg8 controls phagophore expansion during autophagosome formationZhiping Xie
Life Sciences Institute and Department of Molecular, Cellular, and Developmental Biology, University of Michigan, Ann Arbor, MI 48109, USA
Mol Biol Cell 19:3290-8. 2008..This model provides a foundation for future analyses of the functions and dynamics of known autophagy-related proteins and for screening new genes...
- Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesisAlexandre Huber
Department of Molecular Biology, University of Geneva, Geneva, Switzerland
Genes Dev 23:1929-43. 2009..This demonstrates that Sch9 is a master regulator of protein synthesis...
- Cse4 is part of an octameric nucleosome in budding yeastRaymond Camahort
Stowers Institute for Medical Research, Kansas City, MO 64110, USA
Mol Cell 35:794-805. 2009..Taken together, our experimental evidence supports the model that the Cse4 nucleosome is an octamer, containing two copies each of Cse4, H2A, H2B, and H4...
- The RAD6 DNA damage tolerance pathway operates uncoupled from the replication fork and is functional beyond S phaseGeorgios I Karras
Department of Molecular Cell Biology, Max Planck Institute of Biochemistry, Am Klopferspitz 18, 82152 Martinsried, Germany
Cell 141:255-67. 2010..We therefore propose that the RAD6 pathway acts on single-stranded gaps left behind newly restarted replication forks...
- Phosphatidic acid is a pH biosensor that links membrane biogenesis to metabolismBarry P Young
Department of Cellular and Physiological Sciences, University of British Columbia, Vancouver, British Columbia, V6T 1Z3, Canada
Science 329:1085-8. 2010..This enabled coupling of membrane biogenesis to nutrient availability...
- Retrotranslocation of a misfolded luminal ER protein by the ubiquitin-ligase Hrd1pPedro Carvalho
Howard Hughes Medical Institute and Department of Cell Biology, Harvard Medical School, 240 Longwood Avenue, Boston, MA 02115, USA
Cell 143:579-91. 2010..Our results suggest a model for how Hrd1p promotes polypeptide movement through the ER membrane...
- Global regulation of H2A.Z localization by the INO80 chromatin-remodeling enzyme is essential for genome integrityManolis Papamichos-Chronakis
Program in Molecular Medicine, University of Massachusetts Medical School, Worcester, MA 01655, USA
Cell 144:200-13. 2011..Z/H2B with free H2A/H2B dimers. Genetic interactions between ino80 and htz1 support a model in which INO80 catalyzes the removal of unacetylated H2A.Z from chromatin as a mechanism to promote genome stability...
- A small ubiquitin-related polypeptide involved in targeting RanGAP1 to nuclear pore complex protein RanBP2R Mahajan
Department of Cell Biology, The Scripps Research Institute, La Jolla, California 92037, USA
Cell 88:97-107. 1997..Inhibition of nuclear protein import resulting from antibodies directed at NPC-associated RanGAP1 cannot be overcome by soluble cytosolic RanGAP1, indicating that GTP hydrolysis by Ran at RanBP2 is required for nuclear protein import...
- A caspase-related protease regulates apoptosis in yeastFrank Madeo
Institute for Physiological Chemistry, University of Tubingen, Hoppe Seyler Strasse 4, 72076 Tubingen, Germany
Mol Cell 9:911-7. 2002..We conclude that Yor197w indeed functions as a bona fide caspase in yeast and propose the name Yeast Caspase-1 (YCA1, gene YCA1)...
- PKA and Sch9 control a molecular switch important for the proper adaptation to nutrient availabilityJohnny Roosen
Functional Biology, Katholieke Universiteit Leuven, Kasteelpark Arenberg, B 3001 Leuven Heverlee, Belgium
Mol Microbiol 55:862-80. 2005..This mechanism allows fine-tuning various nutritional responses in yeast cells, allowing them to adapt metabolism and growth appropriately...
- Endonucleolytic RNA cleavage by a eukaryotic exosomeAlice Lebreton
Equipe Labellisée La Ligue, Centre de Genetique Moleculaire, CNRS UPR 2167, 91198 Gif sur Yvette, France
Nature 456:993-6. 2008..The mode of action of eukaryotic exosome cores in RNA processing and degradation should be reconsidered, taking into account the cooperation between its multiple ribonucleolytic activities...
- The exosome contains domains with specific endoribonuclease, exoribonuclease and cytoplasmic mRNA decay activitiesDaneen Schaeffer
Department of Microbiology and Molecular Genetics, University of Texas Health Science Center Houston, 6431 Fannin Street, MSB 1 212 Houston, Texas 77030, USA
Nat Struct Mol Biol 16:56-62. 2009..The combination of an endoRNase and an exoRNase activity seems to be a widespread feature of RNA-degrading machines...
- Dynein achieves processive motion using both stochastic and coordinated steppingWeihong Qiu
Department of Cell Biology, Harvard Medical School, Boston, Massachusetts, USA
Nat Struct Mol Biol 19:193-200. 2012..However, coordination emerges as the distance between motor domains increases, implying that a tension-based mechanism governs these steps. This plasticity may allow tuning of dynein for its diverse cellular functions...
- During replication stress, non-SMC element 5 (NSE5) is required for Smc5/6 protein complex functionality at stalled forksDenise E Bustard
Department of Biochemistry and Molecular Biology, Southern Alberta Cancer Research Institute, University of Calgary, Calgary, Alberta T2N 4N1, Canada
J Biol Chem 287:11374-83. 2012..Overall, these data support the premise that Nse5 is important for vital interactions between components within the Smc5/6 complex, and for its functionality during replication stress...
- Translational infidelity-induced protein stress results from a deficiency in Trm9-catalyzed tRNA modificationsAshish Patil
Cancer Research Center, University at Albany, State University of New York, Rensselaer, NY, USA
RNA Biol 9:990-1001. 2012....
- Cohesin's DNA exit gate is distinct from its entrance gate and is regulated by acetylationKok Lung Chan
University of Oxford, Department of Biochemistry, South Parks Road, Oxford OX1 3QU, UK
Cell 150:961-74. 2012..According to this notion, the function of Smc3 acetylation is to block its dissociation from α-kleisin. The functional implications of regulated ring opening are discussed...
- Involvement of GDH3-encoded NADP+-dependent glutamate dehydrogenase in yeast cell resistance to stress-induced apoptosis in stationary phase cellsYong Joo Lee
Department of Microbiology and Molecular Biology, Chungnam National University, Daejeon 305 764, Korea
J Biol Chem 287:44221-33. 2012....
- Crystal structure of Prp8 reveals active site cavity of the spliceosomeWojciech P Galej
MRC Laboratory of Molecular Biology, Francis Crick Avenue, Cambridge CB2 0QH, UK
Nature 493:638-43. 2013..The structure provides crucial insights into the architecture of the spliceosome active site, and reinforces the notion that nuclear pre-mRNA splicing and group II intron splicing have a common origin...
- In the absence of ATPase activity, pre-RC formation is blocked prior to MCM2-7 hexamer dimerizationCecile Evrin
DNA replication Group, MRC Clinical Sciences Centre, Imperial College, London W12 0NN, UK
Nucleic Acids Res 41:3162-72. 2013....
- Kinetochores coordinate pericentromeric cohesion and early DNA replication by Cdc7-Dbf4 kinase recruitmentToyoaki Natsume
Centre for Gene Regulation and Expression, College of Life Sciences, University of Dundee, Dundee DD1 5EH, UK
Mol Cell 50:661-74. 2013..Thus, we have found the central mechanism by which kinetochores orchestrate early S phase DNA replication and robust sister chromatid cohesion at microtubule attachment sites...
- Identification of novel methyltransferases, Bmt5 and Bmt6, responsible for the m3U methylations of 25S rRNA in Saccharomyces cerevisiaeSunny Sharma
Department of Molecular Genetics and Cellular Microbiology, Institute of Molecular Biosciences, Goethe University, Frankfurt, Max von Laue Strasse 9, Frankfurt M 60438, Germany
Nucleic Acids Res 42:3246-60. 2014..With Bmt5 and Bmt6, all base methyltransferases of the 25S rRNA have been identified. This will facilitate the analyses of the significance of these modifications in ribosome function and cellular physiology...
- H3K4 trimethylation by Set1 promotes efficient termination by the Nrd1-Nab3-Sen1 pathwayNihal Terzi
Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115, USA
Mol Cell Biol 31:3569-83. 2011..We speculate that Set1 promotes proper early termination by the Nrd1-Nab3-Sen1 complex by affecting the kinetics of Pol II transcription in early elongation...
- Diauxic shift-dependent relocalization of decapping activators Dhh1 and Pat1 to polysomal complexesSheona P Drummond
Manchester Interdisciplinary Biocentre, University of Manchester, Manchester, UK
Nucleic Acids Res 39:7764-74. 2011..This reveals a new dimension to the relationship between translation activity and interactions between mRNA, the translation machinery and decapping activator proteins...
- The non-canonical protein binding site at the monomer-monomer interface of yeast proliferating cell nuclear antigen (PCNA) regulates the Rev1-PCNA interaction and Polζ/Rev1-dependent translesion DNA synthesisNeeru M Sharma
Eppley Institute for Research in Cancer and Allied Diseases, University of Nebraska Medical Center, Omaha, Nebraska 68198, USA
J Biol Chem 286:33557-66. 2011..The new mode of Rev1-PCNA binding described here suggests a mechanism by which Rev1 adopts a catalytically inactive configuration at the replication fork...
- Repressive chromatin affects factor binding at yeast HO (homothallic switching) promoterShinya Takahata
Department of Pathology, University of Utah Health Sciences Center, Salt Lake City, Utah 84112, USA
J Biol Chem 286:34809-19. 2011..Ash1 therefore appears to play a central role in generating the strongly repressive environment at the HO promoter, which limits the binding of several coactivators at URS2 and TATA region...
- Selective regulation of autophagy by the Iml1-Npr2-Npr3 complex in the absence of nitrogen starvationXi Wu
Department of Biochemistry, UT Southwestern Medical Center, Dallas, TX 75390, USA
Mol Biol Cell 22:4124-33. 2011..Collectively, our findings have revealed the existence of additional mechanisms that regulate autophagy under previously unrecognized conditions, in response to relatively more subtle changes in metabolic and nutritional state...
- The genome maintenance factor Mgs1 is targeted to sites of replication stress by ubiquitylated PCNAIrene Saugar
Cancer Research UK London Research Institute, Clare Hall Laboratories, Blanche Lane, South Mimms, EN6 3LD, UK
Nucleic Acids Res 40:245-57. 2012..Our identification of Mgs1 as a UBZ-dependent downstream effector of ubiquitylated PCNA suggests an explanation for the ambivalent role of the protein in damage processing...
- Cdc15 integrates Tem1 GTPase-mediated spatial signals with Polo kinase-mediated temporal cues to activate mitotic exitJeremy M Rock
David H Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
Genes Dev 25:1943-54. 2011..The Cdc15-dependent integration of these temporal (Cdc5 and Tem1 activity) and spatial (Tem1 activity) signals ensures that exit from mitosis occurs only after proper genome partitioning...
- Sic1 plays a role in timing and oscillatory behaviour of B-type cyclinsMatteo Barberis
Institute for Biology, Theoretical Biophysics, Humboldt University Berlin, Berlin, Germany
Biotechnol Adv 30:108-30. 2012..Our results highlight an additional role for Sic1 in regulating Cdk1-Clb complexes, coordinating their appearance...
- A role for SUMO in nucleotide excision repairHannah R Silver
Department of Biochemistry and Molecular Biology, Thomas Jefferson University, Philadelphia, PA 19107, USA
DNA Repair (Amst) 10:1243-51. 2011..Collectively, these results suggest that SIZ-dependent sumoylation may modulate the activity of multiple proteins to promote efficient NER...
- Mps3 SUN domain is important for chromosome motion and juxtaposition of homologous chromosomes during meiosisHanumanthu B D Prasada Rao
Institute for Protein Research, Graduate School of Science, Osaka University, 3 2 Yamadaoka, Suita, Osaka 565 0871, Japan
Genes Cells 16:1081-96. 2011..These findings suggest that in meiosis, the Mps3 SUN domain is important for modulating chromosome motion events that act in meiotic chromosome juxtaposition and by extension, promoting proper morphogenesis of the synaptonemal complex...
- Cysteine-dependent ubiquitination of Pex18p is linked to cargo translocation across the peroxisomal membraneAstrid Hensel
Abteilung für Systembiochemie, Institut fur Physiologische Chemie, Medizinische Fakultät der Ruhr Universität Bochum, D 44780 Bochum, Germany
J Biol Chem 286:43495-505. 2011..This finding indicates that Pex18p export is linked to cargo translocation, which supports the idea of an export-driven import of proteins into peroxisomes...
- Nitrogen-responsive regulation of GATA protein family activators Gln3 and Gat1 occurs by two distinct pathways, one inhibited by rapamycin and the other by methionine sulfoximineIsabelle Georis
Institut de Recherches Microbiologiques JM Wiame, Laboratoire de Microbiologie Université Libre de Bruxelles, B1070 Brussels, Belgium
J Biol Chem 286:44897-912. 2011..Collectively, our data support the existence of two different nitrogen-responsive regulatory pathways, one inhibited by Msx and the other by rapamycin...
- Ubiquitin ligase Ufd2 is required for efficient degradation of Mps1 kinaseChang Liu
Institute of Biotechnology, Department of Molecular Medicine, University of Texas Health Science Center, San Antonio, Texas 78245, USA
J Biol Chem 286:43660-7. 2011..We demonstrate that Ufd2-mediated Mps1 degradation is conserved in humans. Our results underscore the significance of Ufd2 in proteolysis and further suggest that Ufd2-like enzymes regulate far more substrates than previously envisioned...
- Hsp42 is required for sequestration of protein aggregates into deposition sites in Saccharomyces cerevisiaeSebastian Specht
Zentrum fur Molekulare Biologie der Universitat Heidelberg, Deutsches Krebsforschungszentrum, DKFZ ZMBH Allianz, Im Neuenheimer Feld 282, Heidelberg 69120, Germany
J Cell Biol 195:617-29. 2011..Our data suggest that Hsp42 acts via its amino-terminal domain to coaggregate with misfolded proteins and perhaps link such complexes to further sorting factors...
- Structure of minimal tetratricopeptide repeat domain protein Tah1 reveals mechanism of its interaction with Pih1 and Hsp90Beatriz Jimenez
Structural Biochemistry Laboratory, Medicinal Chemistry Department, Centro de Investigacion Principe Felipe, E 46012 Valencia, Spain
J Biol Chem 287:5698-709. 2012..The C terminus of Pih1 destabilizes the protein in vitro and in vivo, whereas the binding of Tah1 to Pih1 allows for the formation of a stable complex. Based on our data, a model for an Hsp90-Tah1-Pih1 ternary complex is proposed...
- Endogenous DNA replication stress results in expansion of dNTP pools and a mutator phenotypeMarta B Davidson
Department of Biochemistry and Donnelly Centre, University of Toronto, Toronto, Ontario, Canada
EMBO J 31:895-907. 2012..Together, our data point to a vicious circle in which mutations in gatekeeper genes give rise to genomic instability during S phase, inducing expansion of the dNTP pool, which in turn results in high levels of spontaneous mutagenesis...
- Replisome stability at defective DNA replication forks is independent of S phase checkpoint kinasesGiacomo De Piccoli
Paterson Institute for Cancer Research, University of Manchester, Wilmslow Road, Manchester M20 2FA, UK
Mol Cell 45:696-704. 2012....
- Linking DNA replication checkpoint to MBF cell-cycle transcription reveals a distinct class of G1/S genesFrancisco M Bastos de Oliveira
Department of Molecular Biology and Genetics, Weill Institute for Cell and Molecular Biology, Cornell University, Ithaca, NY, USA
EMBO J 31:1798-810. 2012..Our results reveal that replication stress induces expression of G1/S genes via the Rad53-MBF pathway and that an SBF-to-MBF switch characterizes a new class of genes that can be induced by replication stress...
- Structural basis for specific recognition of Rpt1p, an ATPase subunit of 26 S proteasome, by proteasome-dedicated chaperone Hsm3pKenji Takagi
Picobiology Institute, Department of Life Science, Graduate School of Life Science, University of Hyogo, 3 2 1, Kouto, Kamigori cho, Ako gun, Hyogo, 678 1297, Japan
J Biol Chem 287:12172-82. 2012..Collectively, our results provide the structural basis of the molecular functions of Hsm3 for the RP assembly...
- The histone deacetylase Hos2 forms an Hsp42-dependent cytoplasmic granule in quiescent yeast cellsI Chun Liu
Institute of Molecular Biology, Academia Sinica, Taipei 114, Taiwan
Mol Biol Cell 23:1231-42. 2012..Hsp42 is also vital for the relocalization of the other components to Hos2 SPGs, suggesting that Hsp42 plays a central role in spatial regulation of proteins in quiescent cells...
- Sumoylation of transcription factor Gcn4 facilitates its Srb10-mediated clearance from promoters in yeastEmanuel Rosonina
Department of Biological Sciences, Columbia University, New York, New York 10027, USA
Genes Dev 26:350-5. 2012..Our study demonstrates an unexpected role for protein sumoylation in the process of transcriptional activation...
- A balance between Tel1 and Rif2 activities regulates nucleolytic processing and elongation at telomeresMarina Martina
Dipartimento di Biotecnologie e Bioscienze, Universita di Milano Bicocca, Milan, Italy
Mol Cell Biol 32:1604-17. 2012..Altogether, these findings highlight a primary role of Tel1 in overcoming Rif2-dependent negative regulation of MRX activity in telomere resection and elongation...
- Mutually exclusive binding of telomerase RNA and DNA by Ku alters telomerase recruitment modelJennifer S Pfingsten
Howard Hughes Medical Institute, Department of Chemistry and Biochemistry, University of Colorado Biofrontiers Institute, Boulder, CO 80309 0215, USA
Cell 148:922-32. 2012..These findings force reconsideration of the mechanisms by which Ku assists in recruiting telomerase to natural telomeres and broken chromosome ends. PAPERCLIP:..
- Saccharomyces cerevisiae Cmr1 protein preferentially binds to UV-damaged DNA in vitroDo Hee Choi
Department of Biological Sciences, College of Natural Science, Inha University, Incheon, 402 751, Republic of Korea
J Microbiol 50:112-8. 2012..These results suggest that Cmr1 may be involved in DNA-damage responses in yeast...
- Overexpression of PDE2 or SSD1-V in Saccharomyces cerevisiae W303-1A strain renders it ethanol-tolerantLiat Avrahami-Moyal
Department of Biological Chemistry, Institute of Life Sciences, Hebrew University of Jerusalem, Jerusalem, Israel
FEMS Yeast Res 12:447-55. 2012..The SSD1-V allele of the polymorphic SSD1 gene expressed from a low-copy number plasmid also resulted in the tolerant phenotype. Both SSD1 and PDE2 seemed to improve ethanol tolerance by maintaining robustness of the yeast cell wall...
- The TOR complex 1 is a direct target of Rho1 GTPaseGonghong Yan
Department of Pharmacology and Chemical Biology, University of Pittsburgh School of Medicine, Pittsburgh, PA 15261, USA
Mol Cell 45:743-53. 2012..Our findings demonstrate that TORC1 acts both upstream and downstream of Rho1 GTPase, unveiling a mechanism that integrates stress and nutrient signals to coordinate Rho1-mediated spatial expansion and TORC1-dependent mass increase...
- Mutations of the mitochondrial-tRNA modifier MTO1 cause hypertrophic cardiomyopathy and lactic acidosisDaniele Ghezzi
Unit of Molecular Neurogenetics, Fondazione IRCCS, Milan, Italy
Am J Hum Genet 90:1079-87. 2012..The respiratory yeast phenotype was dramatically worsened in stress conditions and in the presence of a paromomycin-resistant (P(R)) mitochondrial rRNA mutation. Lastly, in vivo mtDNA translation was impaired in the mutant yeast strains...
- Mechanism of Meclp in the Checkpoint ResponseGEORGE 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. ..
- RADIATION INDUCTION OF GENOMIC REARRANGEMENTS IN YEASTMichael Fasullo; Fiscal Year: 2004..abstract_text> ..
- Activating liver carcinogens in yeast by expressing CYP450 polymorphismsMichael Fasullo; Fiscal Year: 2007..unreadable] [unreadable] [unreadable]..
- KINASES AND CONTROL OF CELL-TYPE SPECIALIZATIONBeverly Errede; Fiscal Year: 2002..Genetic methods will be used to identity the "second messengers" coordinating the of activities of these two pathways. ..
- MECHANISM OF TERMINATION OF DNA REPLICATIONDeepak Bastia; Fiscal Year: 2010..Finally, we wish to uncover the mode of action of the Swi1 and Swi3 proteins to determine if these act as "antisweepases". ..
- The Role of Cell Size and G1-phase Cdks in Cell Growth ControlBrandt L Schneider; Fiscal Year: 2010..This exemplifies the critical importance of understanding the role of G1-phase Cdks in proliferation because this type of information is essential before effective anti-cancer clinical interventions can be designed. ..
- Yeast Ess1, a Conserved PPlase Essential for MitosisSteven D Hanes; Fiscal Year: 2010..The results may also establish Ess1 as a new drug target for treatment of patients with life- threatening fungal infections. ..
- STRUCTURAL CHANGES AND THE FUNCTION OF RAS ONCOGENESRobert J Deschenes; Fiscal Year: 2010..The goals of this study fall within the general area of "Molecular Targets of Prevention, Diagnosis, and Treatment", one of the five priority areas identified in the 2005 National Investment in Cancer Research (NCI). ..
- Dynamic and Catalysis by Alcohol DehydrogenasesBRYCE PLAPP; Fiscal Year: 2009..Design of better inhibitors for treating the pathology of alcoholism depends on understanding the dynamics of catalysis by the rate-limiting enzyme in the pathway of alcohol metabolism. ..
- MECHANISM OF REPLICATION OF DRUG RESISTANCE FACTORSDeepak Bastia; Fiscal Year: 2008..abstract_text> ..
- Sequence Determinants of Meiotic Recombination HotspotsWalter 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]..
- DNA Unwinding and Translocation by HelicasesKEVIN RANEY; Fiscal Year: 2007..Lastly, new methods will be developed to observe helicase translocation and unwinding directly in single molecule experiments. [unreadable] [unreadable]..
- Transcription Coupled DNA Repair in S. cerevisiaeShisheng Li; Fiscal Year: 2007..Furthermore, how transcription levels and the transcription activator Gal4 may be involved in the regulation will also be investigated. ..
- Role of the Snf1 protein kinase in regulating eukaryotic gene expressionKaren 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]..
- Regulation of eucaryotic histidine kinasesRobert Deschenes; Fiscal Year: 2006..abstract_text> ..
- RECOMBINATION MECHANISMS IN YEAST CELL DIFFERENTIATIONJames Haber; Fiscal Year: 2006..abstract_text> ..
- GENOME STABILITY IN RAD MUTANTSADAM 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. ..
- HCV NS3: Biological, Biochemical and Structural AnalysisKEVIN RANEY; Fiscal Year: 2006..We have found that NS5A binds tightly to RNA and to NS5B. We will now examine possible functional interactions between NS5A, NS3, and NS5B and attempt to solve the crystal structure of NS5A. ..
- Cell-fate determinants of yeast pseudohyphal growthBeverly Errede; Fiscal Year: 2005..Errede defines will be directly applicable to those underlying fungal pathogenicity. Additionally, the project has the potential to reveal fungal proteins that would be excellent candidates as targets for drug intervention. ..
- 4 iron-4sulfur Clusters in Aging and Alzheimer's DiseaseValter Longo; Fiscal Year: 2004..abstract_text> ..
- DUAL ROLE FOR CDC13 IN YEAST TELOMERE FUNCTIONVictoria 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. ..
- TRANSCRIPTION FACTOR MUTANTS OF YEASTKaren Arndt; Fiscal Year: 2004..abstract_text> ..
- SPECIFICITY AND FUNCTION OF ALCOHOL DEHYDROGENASESBRYCE PLAPP; Fiscal Year: 2004....
- MECHANISM OF HEPACIVIRUS REPLICASE ASSEMBLYKEVIN RANEY; Fiscal Year: 2003..This work will provide the initial step toward our long term goal of recapitulating HCV replication in vitro using biologically relevant proteins and RNA. ..
- DNA END-JOINING PROTEINS AND TELOMERE FUNCTIONVictoria 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. ..
- Conference on Wiring and Plasticity of Nervous SystemsThomas Pollard; Fiscal Year: 2002..We are confident that mutually beneficial insights will emerge from learning about each others work. ..
- CAUSATIVE GENETIC VARIATION IN HUMAN TELOMERE GENESVictoria 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. ..
- The Role of MYST histone acetyltransferases in genome stabilityM Smith; Fiscal Year: 2008..These experiments will greatly expand our understanding of Hbo1 function in regulating DNA replication and cell proliferation. ..
- Chronological Age-Dependent Genomic Instability in YeastValter 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. ..
- Jessica K Tyler; Fiscal Year: 2016..The mechanistic understanding of chromatin assembly and disassembly that will come from this work will further our ability to modify the epigenetic codes involved in human diseases for the purpose of therapeutic intervention. ..
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