fungal dna

Summary

Summary: Deoxyribonucleic acid that makes up the genetic material of fungi.

Top Publications

  1. ncbi Meiosis-specific DNA double-strand breaks are catalyzed by Spo11, a member of a widely conserved protein family
    S Keeney
    Department of Molecular and Cellular Biology, Harvard University, Cambridge, Massachusetts 02138, USA
    Cell 88:375-84. 1997
  2. ncbi The genome sequence of Schizosaccharomyces pombe
    V Wood
    The Wellcome Trust Sanger Institute, The Wellcome Trust Genome Campus, Hinxton, Cambridge, UK
    Nature 415:871-80. 2002
  3. ncbi Systematic genetic analysis with ordered arrays of yeast deletion mutants
    A H Tong
    Banting and Best Department of Medical Research, University of Toronto, Toronto ON, Canada M5G 1L6
    Science 294:2364-8. 2001
  4. ncbi Ubc9- and mms21-mediated sumoylation counteracts recombinogenic events at damaged replication forks
    Dana Branzei
    FIRC Institute of Molecular Oncology Foundation and Department of Biomedical Sciences and Biotechnology, Universita degli Studi di Milano, Via Adamello 16, 20139 Milan, Italy
    Cell 127:509-22. 2006
  5. ncbi Genomics of the fungal kingdom: insights into eukaryotic biology
    James E Galagan
    The Broad Institute of Massachusetts Institute of Technology and Harvard, Cambridge, Massachusetts 02141, USA
    Genome Res 15:1620-31. 2005
  6. pmc Alternate pathways involving Sgs1/Top3, Mus81/ Mms4, and Srs2 prevent formation of toxic recombination intermediates from single-stranded gaps created by DNA replication
    Francis Fabre
    Unité mixte de recherche 217, Centre National de la Recherche Scientifique Commissariat à l Energie Atomique Département de Radiobiologie et Radiopathologie BP6, 92265 Fontenay aux Roses, France
    Proc Natl Acad Sci U S A 99:16887-92. 2002
  7. ncbi Identification and phylogeny of ascomycetous yeasts from analysis of nuclear large subunit (26S) ribosomal DNA partial sequences
    C P Kurtzman
    National Center for Agricultural Utilization Research, Agricultural Research Service, U S Department of Agriculture, Peoria, Illinois 61604, USA
    Antonie Van Leeuwenhoek 73:331-71. 1998
  8. pmc Multiple pathways of recombination induced by double-strand breaks in Saccharomyces cerevisiae
    F Pâques
    Rosenstiel Center and Department of Biology, Brandeis University, Waltham, Massachusetts 02454 9110, USA
    Microbiol Mol Biol Rev 63:349-404. 1999
  9. ncbi Phylogenetic analysis reveals a high level of speciation in the Paracoccidioides genus
    Marcus M Teixeira
    Instituto de Ciencias Biologicas, Universidade de Brasilia, Brasilia, DF, Brazil
    Mol Phylogenet Evol 52:273-83. 2009
  10. ncbi nmt1 of fission yeast. A highly transcribed gene completely repressed by thiamine
    K Maundrell
    Sclavo Research Centre, Siena, Italy
    J Biol Chem 265:10857-64. 1990

Research Grants

  1. Assembling a Centric Nucleosome
    Richard Baker; Fiscal Year: 2004
  2. STRATEGIES TO IDENTIFY AND DISTINGUISH FUNGAL PATHOGENS
    RHONDA HONEYCUTT; Fiscal Year: 2000
  3. PCR ASSAY FOR RAPID DETECTION OF FUNGAL INFECTION
    Jo Anne van Burik; Fiscal Year: 2000
  4. NOVEL DRUGS FROM UNCULTURABLE FUNGI
    YIGAL KOLTIN; Fiscal Year: 1999
  5. Evaluating Trichophyton tonsurans Carriage and Infection
    Susan Abdel Rahman; Fiscal Year: 2006
  6. FUNGAL PROTEIN/GLYCOPROTEIN EXPRESSION IN TINEA CAPITIS
    Susan Abdel Rahman; Fiscal Year: 2003
  7. Telomerase function and regulation in a new model system
    Neal Lue; Fiscal Year: 2007
  8. ANALYSIS OF TELOMERASE REVERSE TRANSCRIPTASE
    Neal F Lue; Fiscal Year: 2010
  9. Transcriptional Integration of Metabolism
    ELTON YOUNG; Fiscal Year: 2007
  10. Transcriptional control of Drosophila heart development
    Martha Bulyk; Fiscal Year: 2008

Detail Information

Publications285 found, 100 shown here

  1. ncbi Meiosis-specific DNA double-strand breaks are catalyzed by Spo11, a member of a widely conserved protein family
    S Keeney
    Department of Molecular and Cellular Biology, Harvard University, Cambridge, Massachusetts 02138, USA
    Cell 88:375-84. 1997
    ..The S. pombe homolog, rec12p, is also known to be required for meiotic recombination. Thus, these findings provide direct evidence that the mechanism of meiotic recombination initiation is evolutionarily conserved...
  2. ncbi The genome sequence of Schizosaccharomyces pombe
    V Wood
    The Wellcome Trust Sanger Institute, The Wellcome Trust Genome Campus, Hinxton, Cambridge, UK
    Nature 415:871-80. 2002
    ....
  3. ncbi Systematic genetic analysis with ordered arrays of yeast deletion mutants
    A H Tong
    Banting and Best Department of Medical Research, University of Toronto, Toronto ON, Canada M5G 1L6
    Science 294:2364-8. 2001
    ..Systematic application of this approach should produce a global map of gene function...
  4. ncbi Ubc9- and mms21-mediated sumoylation counteracts recombinogenic events at damaged replication forks
    Dana Branzei
    FIRC Institute of Molecular Oncology Foundation and Department of Biomedical Sciences and Biotechnology, Universita degli Studi di Milano, Via Adamello 16, 20139 Milan, Italy
    Cell 127:509-22. 2006
    ..Our results indicate that Ubc9- and Mms21-mediated sumoylation functions as a regulatory mechanism, different from that of replication checkpoints, to prevent pathological accumulation of cruciform structures at damaged forks...
  5. ncbi Genomics of the fungal kingdom: insights into eukaryotic biology
    James E Galagan
    The Broad Institute of Massachusetts Institute of Technology and Harvard, Cambridge, Massachusetts 02141, USA
    Genome Res 15:1620-31. 2005
    ..We also discuss insights into the fundamental cellular biology shared between fungi and other eukaryotic organisms...
  6. pmc Alternate pathways involving Sgs1/Top3, Mus81/ Mms4, and Srs2 prevent formation of toxic recombination intermediates from single-stranded gaps created by DNA replication
    Francis Fabre
    Unité mixte de recherche 217, Centre National de la Recherche Scientifique Commissariat à l Energie Atomique Département de Radiobiologie et Radiopathologie BP6, 92265 Fontenay aux Roses, France
    Proc Natl Acad Sci U S A 99:16887-92. 2002
    ..Our results suggest that Srs2 channels recombination intermediates back into the gap-filling route, whereas Sgs1Top3 and Mus81Mms4 are involved in recombination andor in replication to allow replication restart...
  7. ncbi Identification and phylogeny of ascomycetous yeasts from analysis of nuclear large subunit (26S) ribosomal DNA partial sequences
    C P Kurtzman
    National Center for Agricultural Utilization Research, Agricultural Research Service, U S Department of Agriculture, Peoria, Illinois 61604, USA
    Antonie Van Leeuwenhoek 73:331-71. 1998
    ..Species relationships were highly concordant between the D1/D2 and 18S trees when branches were statistically well supported...
  8. pmc Multiple pathways of recombination induced by double-strand breaks in Saccharomyces cerevisiae
    F Pâques
    Rosenstiel Center and Department of Biology, Brandeis University, Waltham, Massachusetts 02454 9110, USA
    Microbiol Mol Biol Rev 63:349-404. 1999
    ..This review encompasses these different aspects of DSB-induced recombination in Saccharomyces and attempts to relate genetic, molecular biological, and biochemical studies of the processes of DNA repair and recombination...
  9. ncbi Phylogenetic analysis reveals a high level of speciation in the Paracoccidioides genus
    Marcus M Teixeira
    Instituto de Ciencias Biologicas, Universidade de Brasilia, Brasilia, DF, Brazil
    Mol Phylogenet Evol 52:273-83. 2009
    ..Consequently, we recommend the formal description of the "Pb01-like" cluster as the new species Paracoccidioides lutzii, a tribute to Adolpho Lutz, discoverer of P. brasiliensis in 1908...
  10. ncbi nmt1 of fission yeast. A highly transcribed gene completely repressed by thiamine
    K Maundrell
    Sclavo Research Centre, Siena, Italy
    J Biol Chem 265:10857-64. 1990
    ..The nmt1 promotor has been subcloned, and thiamine-mediated transcriptional control has been transferred to the bacterial reporter gene chloramphenicol acetyltransferase...
  11. ncbi GINS maintains association of Cdc45 with MCM in replisome progression complexes at eukaryotic DNA replication forks
    Agnieszka Gambus
    Cancer Research UK, Paterson Institute for Cancer Research, University of Manchester, Wilmslow Road, Manchester, M20 4BX, UK
    Nat Cell Biol 8:358-66. 2006
    ..GINS is also important for the normal progression of DNA replication forks, and we show that it is required after initiation to maintain the association between MCM and Cdc45 within RPCs...
  12. ncbi Establishment and maintenance of a heterochromatin domain
    Ira M Hall
    Cold Spring Harbor Laboratory, Post Office Box 100, Cold Spring Harbor, NY 11724, USA
    Science 297:2232-7. 2002
    ..This work defines sequential requirements for the initiation and propagation of regional heterochromatic domains...
  13. ncbi Large-scale essential gene identification in Candida albicans and applications to antifungal drug discovery
    Terry Roemer
    Elitra Canada, Montreal, Quebec, Canada, H2X 3Y8
    Mol Microbiol 50:167-81. 2003
    ..albicans essential gene set, and their respective conditional mutant strains may be directly used as sensitive whole-cell assays for drug screening...
  14. ncbi The pattern of gene amplification is determined by the chromosomal location of hairpin-capped breaks
    Vidhya Narayanan
    School of Biology and Institute for Bioengineering and Bioscience, Georgia Institute of Technology, Atlanta, GA 30332, USA
    Cell 125:1283-96. 2006
    ..The rules for the palindrome-dependent pathway of gene amplification defined in yeast may operate during the formation of amplicons in human tumors...
  15. ncbi Cohesins bind to preferential sites along yeast chromosome III, with differential regulation along arms versus the centric region
    Y Blat
    Department of Molecular and Cellular Biology, Harvard University, Cambridge, Massachusetts 02138, USA
    Cell 98:249-59. 1999
    ..The methodology described can be used to analyze the distribution of any DNA-binding protein and, via microchips, along entire genomes...
  16. ncbi Multiple mechanisms control chromosome integrity after replication fork uncoupling and restart at irreparable UV lesions
    Massimo Lopes
    Department of Biology, Institute of Cell Biology, ETH Honggerberg, CH 8093 Zurich, Switzerland
    Mol Cell 21:15-27. 2006
    ....
  17. ncbi Chromosomal association of the Smc5/6 complex reveals that it functions in differently regulated pathways
    Hanna Betts Lindroos
    Department of Cell and Molecular Biology, Karolinska Institute, 171 77 Stockholm, Sweden
    Mol Cell 22:755-67. 2006
    ..Altogether this shows that the complex maintains genomic integrity in multiple ways, and evidence is presented that the Smc5/6 complex is needed during replication to prevent the accumulation of branched chromosome structures...
  18. ncbi Phylogenetic relationships among yeasts of the 'Saccharomyces complex' determined from multigene sequence analyses
    Cletus P Kurtzman
    Microbial Genomics and Bioprocessing Research Unit, National Center for Agricultural Utilization Research, Agricultural Research Service, U S Department of Agriculture, 1815 N University Street, Peoria, IL 61604, USA
    FEMS Yeast Res 3:417-32. 2003
    ..Analysis of combined gene sequences resolved the 75 species compared into 14 clades, many of which differ from currently circumscribed genera...
  19. ncbi Genome sequencing and analysis of the biomass-degrading fungus Trichoderma reesei (syn. Hypocrea jecorina)
    Diego Martinez
    Los Alamos National Laboratory Joint Genome Institute, PO Box 1663, Los Alamos, New Mexico 87545, USA
    Nat Biotechnol 26:553-60. 2008
    ..Our analysis, coupled with the genome sequence data, provides a roadmap for constructing enhanced T. reesei strains for industrial applications such as biofuel production...
  20. ncbi The complete sequence of the mitochondrial genome of Saccharomyces cerevisiae
    F Foury
    Unite de Biochimie Physiologique, Louvain la Neuve, Belgium
    FEBS Lett 440:325-31. 1998
    ..Our data suggest that shuffling of mobile elements plays an important role in the remodelling of the yeast mitochondrial genome...
  21. ncbi Identification of cohesin association sites at centromeres and along chromosome arms
    T Tanaka
    Research Institute of Molecular Pathology, Vienna, Austria
    Cell 98:847-58. 1999
    ..Finally, cohesion associated with "minimal" centromeres is insufficient to resist the splitting force exerted by microtubules and appears to be reinforced by cohesion provided by their flanking DNA sequences...
  22. ncbi The Srs2 helicase activity is stimulated by Rad51 filaments on dsDNA: implications for crossover incidence during mitotic recombination
    Pauline Dupaigne
    Laboratorie de Microscopie Moléculaire et Cellulaire, UMR 8126, Interactions Moléculaires et Cancer CNRS Université Paris Sud Institut de Cancérologie Gustave Roussy, Villejuif, France
    Mol Cell 29:243-54. 2008
    ..These properties strongly support the idea that Srs2 actively prevents crossovers by promoting SDSA...
  23. ncbi Colocalization of multiple DNA double-strand breaks at a single Rad52 repair centre
    Michael Lisby
    Department of Genetics and Development, Columbia University, College of Physicians and Surgeons, 701 West 168th Street, New York, NY 10032 2704, USA
    Nat Cell Biol 5:572-7. 2003
    ..Finally, analyses of cells experiencing multiple DSBs demonstrate that Rad52 foci are centres of DNA repair capable of simultaneously recruiting more than one DSB...
  24. pmc The yeast THO complex and mRNA export factors link RNA metabolism with transcription and genome instability
    S 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...
  25. ncbi Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry
    Yuen Ho
    MDS Proteomics, 251 Attwell Drive, Toronto, Canada M9W 7H4, and Staermosegaardsvej 6, DK 5230 Odense M, Denmark
    Nature 415:180-3. 2002
    ..Given the high degree of connectivity observed in this study, even partial HMS-PCI coverage of complex proteomes, including that of humans, should allow comprehensive identification of cellular networks...
  26. pmc A barrier nucleosome model for statistical positioning of nucleosomes throughout the yeast genome
    Travis N Mavrich
    Center for Gene Regulation, Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, Pennsylvania 16802, USA
    Genome Res 18:1073-83. 2008
    ..3' NFRs may be important for transcription termination and anti-sense initiation. We present a high-resolution genome-wide map of TFIIB locations that implicates 3' NFRs in gene looping...
  27. ncbi ORC and Cdc6p interact and determine the frequency of initiation of DNA replication in the genome
    C Liang
    Cold Spring Harbor Laboratory, New York 11724, USA
    Cell 81:667-76. 1995
    ..We suggest that ORC and Cdc6p form a prereplication complex at individual replicators and therefore cooperate to determine the frequency of initiation of DNA replication in the genome...
  28. ncbi Efficient bypass of a thymine-thymine dimer by yeast DNA polymerase, Poleta
    R 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...
  29. pmc Rapid identification of fungi by using the ITS2 genetic region and an automated fluorescent capillary electrophoresis system
    C Y Turenne
    Department of Medical Microbiology, Faculty of Medicine, University of Manitoba, Health Sciences Centre, Winnipeg, Manitoba R3A 1R9, Canada
    J Clin Microbiol 37:1846-51. 1999
    ..We have found that most clinically significant fungal isolates can be differentiated by this method, and it therefore serves to be a promising tool for the rapid (<7 h) diagnosis of fungemia and other invasive fungal infections...
  30. ncbi Interhomolog bias during meiotic recombination: meiotic functions promote a highly differentiated interhomolog-only pathway
    A Schwacha
    Department of Molecular and Cellular Biology, Harvard University, Cambridge, Massachusetts 02138, USA
    Cell 90:1123-35. 1997
    ..Coordinate action of mitotic recA homologs as one functional unit, two functions of RED1, and an interhomolog interaction function of DMC1 are also revealed...
  31. pmc Molecular characterization of a chromosomal rearrangement involved in the adaptive evolution of yeast strains
    José E Pérez-Ortín
    Departament de Bioquimica i Biologia Molecular, Universitat de Valencia, Spain
    Genome Res 12:1533-9. 2002
    ..This is the first time that a gross chromosomal rearrangement is shown to be involved in the adaptive evolution of Saccharomyces cerevisiae...
  32. pmc Top1- and Top2-mediated topological transitions at replication forks ensure fork progression and stability and prevent DNA damage checkpoint activation
    Rodrigo Bermejo
    Fondazione Italiana per la Ricerca sul Cancro FIRC, Institute of Molecular Oncology Foundation IFOM IEO Campus and DSBB Università degli Studi di Milano, 20139 Milan, Italy
    Genes Dev 21:1921-36. 2007
    ..A failure in resolving fork-related topological constrains during S phase may therefore result in abnormal chromosome transitions, DNA damage checkpoint activation, and chromosome breakage during segregation...
  33. ncbi The Fusarium graminearum genome reveals a link between localized polymorphism and pathogen specialization
    Christina A Cuomo
    Broad Institute of the Massachusetts Institute of Technology and Harvard, Cambridge, MA 02142, USA
    Science 317:1400-2. 2007
    ..These regions of genome innovation may result from selection due to interactions of F. graminearum with its plant hosts...
  34. ncbi A Rad26-Def1 complex coordinates repair and RNA pol II proteolysis in response to DNA damage
    Elies C Woudstra
    Mechanisms of Gene Transcription Laboratory, Cancer Research UK, Clare Hall Laboratories, Blanche Lane, South Mimms, Hertfordshire EN6 3LD, UK
    Nature 415:929-33. 2002
    ....
  35. ncbi Evolution of a fungal regulatory gene family: the Zn(II)2Cys6 binuclear cluster DNA binding motif
    R B Todd
    Department of Genetics, University of Melbourne, Parkville, Victoria, Australia
    Fungal Genet Biol 21:388-405. 1997
    ..Based on these relationships, we have assigned potential functions to a number of these unknown proteins...
  36. ncbi Search for primary infection by Pneumocystis carinii in a cohort of normal, healthy infants
    S L Vargas
    Program in Microbiology, Instituto de Ciencias Biomedicus, Universidad de Chile, Santiago, Chile
    Clin Infect Dis 32:855-61. 2001
    ..carinii in the community. Further investigation is needed to identify whether P. carinii causes overt respiratory disease in infants...
  37. pmc Smc5/6 is required for repair at collapsed replication forks
    Eleni Ampatzidou
    Genome Damage and Stability Centre, University of Sussex, Brighton BN1 9RQ, United Kingdom
    Mol Cell Biol 26:9387-401. 2006
    ....
  38. ncbi Coordinate binding of ATP and origin DNA regulates the ATPase activity of the origin recognition complex
    R D Klemm
    Massachusetts Institute of Technology, Department of Biology, Cambridge 02139, USA
    Cell 88:493-502. 1997
    ..These data demonstrate that occupancy of the Orc1p ATP-binding site has a profound effect on ORC function and that ATP hydrolysis by Orc1p has the potential to drive transitions between different functional states of ORC...
  39. ncbi Replication dynamics of the yeast genome
    M K Raghuraman
    Department of Genetics, Department of Mathematics, University of Washington, Seattle, WA 98195, USA
    Science 294:115-21. 2001
    ..The two ends of each of the 16 chromosomes are highly correlated in their times of replication. This microarray approach is readily applicable to other organisms, including humans...
  40. ncbi Current state and perspectives of fungal DNA barcoding and rapid identification procedures
    Dominik Begerow
    Ruhr Universitat Bochum, Geobotanik ND03 174, Universitatsstr 150, 44801 Bochum, Germany
    Appl Microbiol Biotechnol 87:99-108. 2010
    ....
  41. ncbi The Saccharomyces Pif1p DNA helicase and the highly related Rrm3p have opposite effects on replication fork progression in ribosomal DNA
    A S Ivessa
    Department of Molecular Biology, Princeton University, New Jersey 08544 1014, USA
    Cell 100:479-89. 2000
    ..These data support a model in which replication fork pausing causes breakage and recombination in the rDNA...
  42. pmc Highly efficient gene replacements in Neurospora strains deficient for nonhomologous end-joining
    Yuuko Ninomiya
    Department of Regulation Biology, Faculty of Science, Saitama University, 255 Shimo okubo, Sakura ku, Saitama City 338 8570, Japan
    Proc Natl Acad Sci U S A 101:12248-53. 2004
    ..Similar results were obtained when the ad-3A gene was targeted for disruption. These results indicate that KU disruption strains are efficient recipients for gene targeting...
  43. ncbi Translational and rotational settings of H2A.Z nucleosomes across the Saccharomyces cerevisiae genome
    Istvan Albert
    Center for Comparative Genomics and Bioinformatics, The Pennsylvania State University, University Park, Pennsylvania 16802, USA
    Nature 446:572-6. 2007
    ..Transcriptional start sites tended to reside about one helical turn inside the nucleosome border. These findings reveal an intimate relationship between chromatin architecture and the underlying DNA sequence it regulates...
  44. pmc Yeast DNA polymerase epsilon participates in leading-strand DNA replication
    Zachary F Pursell
    Laboratory of Molecular Genetics and Laboratory of Structural Biology, National Institute of Environmental Health Sciences, NIH, DHHS, Research Triangle Park, NC 27709, USA
    Science 317:127-30. 2007
    ....
  45. ncbi Branch migrating sister chromatid junctions form at replication origins through Rad51/Rad52-independent mechanisms
    Massimo Lopes
    Istituto F I R C di Oncologia Molecolare, Via Adamello 16, Milano 20141, Italy
    Mol Cell 12:1499-510. 2003
    ....
  46. ncbi Mus81-Eme1 are essential components of a Holliday junction resolvase
    M N Boddy
    Department of Molecular Biology, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA
    Cell 107:537-48. 2001
    ..The mus81 meiotic defect is rescued by expression of a bacterial Holliday junction resolvase. These findings constitute strong evidence that Mus81 and Eme1 are subunits of a nuclear Holliday junction resolvase...
  47. pmc Mms2-Ubc13-dependent and -independent roles of Rad5 ubiquitin ligase in postreplication repair and translesion DNA synthesis in Saccharomyces cerevisiae
    Venkateswarlu Gangavarapu
    Sealy Center for Molecular Science, University of Texas Medical Branch at Galveston, Galveston, TX 77555 1061
    Mol Cell Biol 26:7783-90. 2006
    ..In contrast to the role of Rad5 in PRR, however, where its function is coupled with that of Mms2-Ubc13, Rad5 function in TLS would be largely independent of this ubiquitin-conjugating enzyme complex...
  48. ncbi The cohesin ring concatenates sister DNA molecules
    Christian H Haering
    University of Oxford, Department of Biochemistry, South Parks Road, Oxford OX1 3QU, UK
    Nature 454:297-301. 2008
    ..As predicted by the ring entrapment model, this procedure produced dimeric DNA-cohesin structures that are resistant to protein denaturation. We conclude that cohesin rings concatenate individual sister minichromosome DNA molecules...
  49. ncbi Genome sequence of the lignocellulose degrading fungus Phanerochaete chrysosporium strain RP78
    Diego Martinez
    US DOE Joint Genome Institute, Walnut Creek, California 94598, USA
    Nat Biotechnol 22:695-700. 2004
    ..This genome provides a high quality draft sequence of a basidiomycete, a major fungal phylum that includes important plant and animal pathogens...
  50. ncbi Identification and distribution of sequences having similarity to mitochondrial plasmids in mitochondrial genomes of filamentous fungi
    Patrick Cahan
    Department of Biology, Saint Louis University, St Louis, MO 63103, USA
    Mol Genet Genomics 273:462-73. 2005
    ..The tools developed here will be useful in assessing the contribution plasmids have made to mitochondrial function and in understanding the co-evolution of mitochondrial plasmids and their hosts...
  51. ncbi Components and dynamics of DNA replication complexes in S. cerevisiae: redistribution of MCM proteins and Cdc45p during S phase
    O M Aparicio
    Department of Biology, Massachusetts Institute of Technology, Cambridge 02139, USA
    Cell 91:59-69. 1997
    ..Our results identify protein components of the pre-RC and a novel replication complex appearing at the G1/S transition (the RC), and suggest that after initiation MCM proteins and Cdc45p move with eukaryotic replication forks...
  52. pmc Centromeric DNA sequences in the pathogenic yeast Candida albicans are all different and unique
    Kaustuv Sanyal
    Department of Molecular, Cellular and Developmental Biology, University of California, Santa Barbara, CA 93106, USA
    Proc Natl Acad Sci U S A 101:11374-9. 2004
    ..albicans contains a different and unique CaCse4p-rich centromeric DNA sequence, a centromeric property previously unobserved in other organisms...
  53. pmc The yeast recombinational repair protein Rad59 interacts with Rad52 and stimulates single-strand annealing
    A P Davis
    Department of Microbiology and Institute of Cancer Research, Columbia University College of Physicians and Surgeons, New York, New York 10032, USA
    Genetics 159:515-25. 2001
    ..These results suggest that in vivo Rad59 is unable to compete with RPA for single-stranded DNA and therefore is unable to promote single-strand annealing. Instead, Rad59 appears to augment the activity of Rad52 in strand annealing...
  54. pmc Mapping meiotic single-strand DNA reveals a new landscape of DNA double-strand breaks in Saccharomyces cerevisiae
    Cyril Buhler
    Laboratory of Biochemistry and Molecular Biology, National Cancer Institute, National Institutes of Health, Bethesda, Maryland, United States of America
    PLoS Biol 5:e324. 2007
    ....
  55. ncbi Genetic diversity and host plant preferences revealed by simple sequence repeat and mitochondrial markers in a population of the arbuscular mycorrhizal fungus Glomus intraradices
    Daniel Croll
    Department of Ecology and Evolution, Biophore Building, University of Lausanne, CH 1015 Lausanne, Switzerland
    New Phytol 178:672-87. 2008
    ..Host plants in a field could provide a heterogeneous environment favouring certain genotypes. Such preferences may partly explain within-population patterns of genetic diversity...
  56. pmc A universal framework for regulatory element discovery across all genomes and data types
    Olivier Elemento
    Lewis Sigler Institute for Integrative Genomics, Department of Molecular Biology, Princeton University, Princeton, NJ 08544, USA
    Mol Cell 28:337-50. 2007
    ....
  57. pmc Replication fork blockage by RTS1 at an ectopic site promotes recombination in fission yeast
    Jong Sook Ahn
    Department of Biochemistry, University of Oxford, Oxford, UK
    EMBO J 24:2011-23. 2005
    ..These data indicate that Rqh1 acts to prevent blocked replication forks from collapsing and thereby inducing deletion events...
  58. pmc Sae2 is an endonuclease that processes hairpin DNA cooperatively with the Mre11/Rad50/Xrs2 complex
    Bettina M Lengsfeld
    Department of Molecular Genetics and Microbiology, University of Texas at Austin, Austin, TX 78712, USA
    Mol Cell 28:638-51. 2007
    ....
  59. ncbi Genome sequence of the lignocellulose-bioconverting and xylose-fermenting yeast Pichia stipitis
    Thomas W Jeffries
    US Department of Agriculture, Forest Service, Forest Products Laboratory, One Gifford Pinchot Drive, Madison, Wisconsin 53705, USA
    Nat Biotechnol 25:319-26. 2007
    ..The genome sequence provides insight into how P. stipitis regulates its redox balance while very efficiently fermenting xylose under microaerobic conditions...
  60. pmc Intrinsic histone-DNA interactions are not the major determinant of nucleosome positions in vivo
    Yong Zhang
    Department of Biostatistics and Computational Biology, Dana Farber Cancer Institute and Harvard School of Public Health, Boston, Massachusetts, USA
    Nat Struct Mol Biol 16:847-52. 2009
    ....
  61. ncbi Phylogenomic analyses support the monophyly of Taphrinomycotina, including Schizosaccharomyces fission yeasts
    Yu Liu
    Robert Cedergren Centre, Departement de Biochimie, Universite de Montreal, Montreal, Quebec, Canada
    Mol Biol Evol 26:27-34. 2009
    ....
  62. ncbi Suppression of genomic instability by SLX5 and SLX8 in Saccharomyces cerevisiae
    Chaoying Zhang
    Department of Biochemistry, University of Toronto, Toronto, Ont, Canada M5S 1A8
    DNA Repair (Amst) 5:336-46. 2006
    ..This suggested that Slx8 and Slx8 played limited roles in stabilizing, restarting, or resolving transiently stalled replication forks, but were critical for preventing the accumulation of DNA damage during normal cell cycle progression...
  63. pmc Anticoagulants interfere with PCR used to diagnose invasive aspergillosis
    Marta E Garcia
    J Clin Microbiol 40:1567-8. 2002
  64. pmc The hyper-gene conversion hpr5-1 mutation of Saccharomyces cerevisiae is an allele of the SRS2/RADH gene
    L Rong
    Department of Biochemistry, New York University Medical Center, New York 10016
    Genetics 127:75-85. 1991
    ..We propose that the HPR5 gene functions in the RAD6 repair pathway...
  65. pmc The beetle gut: a hyperdiverse source of novel yeasts
    Sung Oui Suh
    Department of Biological Sciences, Louisiana State University, Baton Rouge, Louisiana 70803, USA
    Mycol Res 109:261-5. 2005
    ..The discovery of high yeast diversity in a previously unexplored habitat is a first step toward investigating the basis of the interactions and their impact in relation to ecology and evolution...
  66. ncbi Molecular phylogeny and biogeography of the widely distributed Amanita species, A. muscaria and A. pantherina
    Takashi Oda
    Laboratory of Environmental Mycoscience, Graduate School of Agriculture, Kyoto University, Kyoto, 606 8502, Japan
    Mycol Res 108:885-96. 2004
    ..For both A. muscaria and A. pantherina, the intracontinental relationships of both Eurasia and North America were closer than the relationships between eastern Asia and eastern North America...
  67. pmc DNA repair by a Rad22-Mus81-dependent pathway that is independent of Rhp51
    Claudette L Doe
    Department of Biochemistry, University of Oxford, South Parks Road, Oxford OX1 3QU, UK
    Nucleic Acids Res 32:5570-81. 2004
    ..Consistent with this we show that in vitro Rad22 can promote strand invasion to form a D-loop that can be cleaved by Mus81...
  68. pmc Rapid extraction of genomic DNA from medically important yeasts and filamentous fungi by high-speed cell disruption
    F M Muller
    Immunocompromised Host Section, Pediatric Oncology Branch, National Cancer Institute, National Institutes of Health, Bethesda, Maryland 20892, USA
    J Clin Microbiol 36:1625-9. 1998
    ..We conclude that mechanical disruption of fungal cells by HSCD is a safe, rapid, and efficient procedure for extracting genomic DNA from medically important yeasts and especially from filamentous fungi...
  69. pmc Molecular characterization of new natural hybrids of Saccharomyces cerevisiae and S. kudriavzevii in brewing
    Sara S González
    Departamento de Biotecnologia, Instituto de Agroquimica y Tecnologia de Alimentos CSIC, P O Box 73, 46100 Burjassot, Valencia, Spain
    Appl Environ Microbiol 74:2314-20. 2008
    ..The present study raises new questions about the prevalence of these new hybrids in brewing as well as their contribution to the properties of the final product...
  70. pmc Mutations in a partitioning protein and altered chromatin structure at the partitioning locus prevent cohesin recruitment by the Saccharomyces cerevisiae plasmid and cause plasmid missegregation
    Xian Mei Yang
    Molecular Genetics and Microbiology, University of Texas at Austin, 78712, USA
    Mol Cell Biol 24:5290-303. 2004
    ..The phenotypes of the Rep1p mutations and of the rsc2 Delta mutant are consistent with the role of cohesin in plasmid partitioning being analogous to that in chromosome partitioning...
  71. ncbi New Paracoccidioides brasiliensis isolate reveals unexpected genomic variability in this human pathogen
    Lilia L Carrero
    Instituto Venezolano de Investigaciones Cientificas, Laboratorio de Micologia, P O Box 21827, Caracas, Venezuela
    Fungal Genet Biol 45:605-12. 2008
    ..This isolate clearly separates from all other Paracoccidioides isolates in phylogenetic analyses and greatly increases the genomic variation known in this genus...
  72. pmc Yeast Mre11 and Rad1 proteins define a Ku-independent mechanism to repair double-strand breaks lacking overlapping end sequences
    Jia Lin Ma
    Department of Molecular Medicine, Institute of Biotechnology, The University of Texas Health Science Center at San Antonio, San Antonio, Texas 78245, USA
    Mol Cell Biol 23:8820-8. 2003
    ..The increased gamma ray sensitivity of rad1Delta rad52Delta yku70Delta strains compared to rad52Delta yku70Delta strains suggests that MMEJ also contributes to the repair of DSBs induced by ionizing radiation...
  73. ncbi The Aspergillus nidulans alcA promoter drives tightly regulated conditional gene expression in Aspergillus fumigatus permitting validation of essential genes in this human pathogen
    Beatriz Romero
    Departamento de Microbiologia y Parasitologia, Facultad de Farmacia, Campus Universitario, Universidad de Alcala, Ctra Madrid Barcelona Km 33, E 28871 Alcala de Henares, Madrid, Spain
    Fungal Genet Biol 40:103-14. 2003
    ..This conditional expression system, the first one described in A. fumigatus, will also be useful for investigating the function of essential genes by altering the threonine/glucose ratio in the growth medium...
  74. ncbi A complete survey of Trichoderma chitinases reveals three distinct subgroups of family 18 chitinases
    Verena Seidl
    Research Area Gene Technology and Applied Biochemistry, Institute of Chemical Engineering, TU Vienna, Austria
    FEBS J 272:5923-39. 2005
    ..solani. Therefore, group C and the novel clade in group B may contain chitinases of potential relevance for the biocontrol properties of Trichoderma...
  75. pmc Taxonomic reliability of DNA sequences in public sequence databases: a fungal perspective
    R Henrik Nilsson
    Department of Plant and Environmental Sciences, Goteborg University, Sweden
    PLoS ONE 1:e59. 2006
    ..Such approaches, popularly known as barcoding, are underpinned by the assumption that the reference databases used for comparison are sufficiently complete and feature correctly and informatively annotated entries...
  76. pmc Candida orthopsilosis and Candida metapsilosis spp. nov. to replace Candida parapsilosis groups II and III
    Arianna Tavanti
    Aberdeen Fungal Group, School of Medical Sciences, Institute of Medical Sciences, University of Aberdeen, Aberdeen AB25 2ZD, United Kingdom
    J Clin Microbiol 43:284-92. 2005
    ..parapsilosis and relatively high levels of sequence variability among isolates of C. orthopsilosis suggest that the former species may have evolved very recently from the latter...
  77. ncbi A Beauveria phylogeny inferred from nuclear ITS and EF1-alpha sequences: evidence for cryptic diversification and links to Cordyceps teleomorphs
    Stephen A Rehner
    Insect Biocontrol Laboratory, USDA ARS, Beltsville, Maryland 20705, USA
    Mycologia 97:84-98. 2005
    ..These results establish a phylogenetic framework for further taxonomic, phylogenetic and comparative biological investigations of Beauveria and their corresponding Cordyceps teleomorphs...
  78. pmc Tracking the roots of cellulase hyperproduction by the fungus Trichoderma reesei using massively parallel DNA sequencing
    Stephane Le Crom
    Institut National de la Sante et de la Recherche Medicale, U784, 46 rue d Ulm, 75230 Paris Cedex 05, France
    Proc Natl Acad Sci U S A 106:16151-6. 2009
    ..reesei strains for industrial applications such as biofuel production...
  79. pmc Telomeric circles: universal players in telomere maintenance?
    Lubomir Tomaska
    Department of Genetics, Comenius University in Bratislava, Faculty of Natural Sciences, Bratislava, Slovakia
    Nat Struct Mol Biol 16:1010-5. 2009
    ..In this Perspective, we summarize these findings and discuss how t-circles may be related to t-loops and how t-circles may have initiated the evolution of telomeres...
  80. pmc Genome structure of a Saccharomyces cerevisiae strain widely used in bioethanol production
    Juan Lucas Argueso
    Department of Molecular Genetics and Microbiology, Duke University Medical Center, Durham, North Carolina 27710, USA
    Genome Res 19:2258-70. 2009
    ..The genomic manipulation of such strains could enable the creation of a new generation of industrial organisms, ideally suited for use as delivery vehicles for future bioenergy technologies...
  81. pmc A conserved stress-activated protein kinase regulates a core stress response in the human pathogen Candida albicans
    Deborah A Smith
    School of Cell and Molecular Biosciences, University of Newcastle upon Tyne, Newcastle upon Tyne NE2 4HH, United Kingdom
    Mol Biol Cell 15:4179-90. 2004
    ..This niche specificity is reflected by the specific environmental conditions that drive the Hog1-regulated core stress response in C. albicans and by differences in the molecular circuitry that control this response...
  82. pmc Signal sequences specify the targeting route to the endoplasmic reticulum membrane
    D T Ng
    Department of Biochemistry and Biophysics, University of California, School of Medicine, San Francisco 94143 0448, USA
    J Cell Biol 134:269-78. 1996
    ..Our studies show a previously unrecognized diversity in ER-directed signal sequences, that carry structural information that serves to identify the route taken...
  83. ncbi An essential role for the Cdc6 protein in forming the pre-replicative complexes of budding yeast
    J H Cocker
    Imperial Cancer Research Fund, Clare Hall Laboratories, South Mimms, Hertfordshire, UK
    Nature 379:180-2. 1996
    ..These results suggest that pre-RCs play an essential role in initiating DNA replication and support a two-step mechanism for the assembly of functional initiation complexes...
  84. pmc Efficient yeast ChIP-Seq using multiplex short-read DNA sequencing
    Philippe Lefrançois
    Department of Molecular, Cellular and Developmental Biology, Yale University, New Haven, CT 06520, USA
    BMC Genomics 10:37. 2009
    ....
  85. pmc Previously uncharacterized genes in the UV- and MMS-induced DNA damage response in yeast
    Denise Hanway
    Department of Chemistry and Cell Biology, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA
    Proc Natl Acad Sci U S A 99:10605-10. 2002
    ..Epistatsis analysis of four of the genes was performed to determine the DNA damage repair pathways in which the protein products function...
  86. ncbi The single-end invasion: an asymmetric intermediate at the double-strand break to double-holliday junction transition of meiotic recombination
    N Hunter
    Department of Molecular and Cellular Biology, Harvard University, 7 Divinity Avenue, Cambridge, MA 02138, USA
    Cell 106:59-70. 2001
    ..This feature can explain crossover suppression between homeologous and structurally heterozygous chromosomes...
  87. ncbi S. pombe mei2+ encodes an RNA-binding protein essential for premeiotic DNA synthesis and meiosis I, which cooperates with a novel RNA species meiRNA
    Y Watanabe
    Department of Biophysics and Biochemistry School of Science, University of Tokyo, Japan
    Cell 78:487-98. 1994
    ..Mutations that apparently block the RNA binding ability of Mei2 inhibit premeiotic DNA synthesis. Mei2 is thus likely to couple with another RNA species to promote premeiotic DNA synthesis...
  88. ncbi Two modes of survival of fission yeast without telomerase
    T M Nakamura
    Howard Hughes Medical Institute, Department of Chemistry and Biochemistry, University of Colorado, Boulder, CO 80309 0215, USA
    Science 282:493-6. 1998
    ..Moreover, the massive elongation of telomeres in taz1- cells is absent in the double mutant. Thus, Taz1p appears to regulate telomeric recombination as well as telomerase activity in fission yeast...
  89. pmc Fungal-specific PCR primers developed for analysis of the ITS region of environmental DNA extracts
    Kendall J Martin
    Dynamac Corporation, National Health and Environmental Effects Research Laboratory, Corvallis, OR, USA
    BMC Microbiol 5:28. 2005
    ..Typically, it has been necessary to use multiple primer sets to accommodate the range of fungi under study, potentially creating artificial distinctions for fungal sequences that amplify with more than one primer set...
  90. pmc Pheromones are essential for male fertility and sufficient to direct chemotropic polarized growth of trichogynes during mating in Neurospora crassa
    Hyojeong Kim
    Department of Plant Pathology, 1415 Boyce Hall, 900 University Avenue, University of California, Riverside, CA 92521, USA
    Eukaryot Cell 5:544-54. 2006
    ..Furthermore, a self-attraction signal can be transmitted within a strain that expresses a pheromone and its cognate receptor...
  91. pmc ATM-related Tel1 associates with double-strand breaks through an Xrs2-dependent mechanism
    Daisuke Nakada
    Division of Biological Science, Graduate School of Science, Nagoya University, Chikusa ku, Nagoya 464 0814, Japan
    Genes Dev 17:1957-62. 2003
    ..Tel1 and the C terminus of Xrs2 are similarly involved in cell survival and Rad53 phosphorylation after DNA damage. Our findings suggest that the Tel1 association with DNA lesions is required for the activation of DNA damage responses...
  92. pmc Acetylation of histone H3 lysine 56 regulates replication-coupled nucleosome assembly
    Qing Li
    Department of Biochemistry and Molecular Biology, Mayo Clinic, College of Medicine, 200 First Street SW, Rochester, MN 55905, USA
    Cell 134:244-55. 2008
    ..These results reveal a mechanism by which H3K56Ac regulates replication-coupled nucleosome assembly mediated by CAF-1 and Rtt106...
  93. pmc H2A.Z has a function reminiscent of an activator required for preferential binding to intergenic DNA
    Marc Larochelle
    Departement de Biologie, Faculte des Sciences, Universite de Sherbrooke, Sherbrooke, Quebec J1K 2R1, Canada
    EMBO J 22:4512-22. 2003
    ..Our results suggest that H2A.Z modulates functional interactions with transcription regulatory components, and thus increases its localization to promoters where it helps poise chromatin for gene activation...
  94. ncbi Isolation and analysis of xlnR, encoding a transcriptional activator co-ordinating xylanolytic expression in Aspergillus niger
    N N van Peij
    Section Molecular Genetics of Industrial Microorganisms, Wageningen Agricultural University, The Netherlands
    Mol Microbiol 27:131-42. 1998
    ..Therefore, this sequence may be an important and conserved cis-acting element in induction of xylanolytic genes in filamentous fungi. Our results indicate that XlnR is a transcriptional activator of the xylanolytic system in A. niger...
  95. pmc The mating-type chromosome in the filamentous ascomycete Neurospora tetrasperma represents a model for early evolution of sex chromosomes
    Audrius Menkis
    Department of Forest Mycology and Pathology, Swedish University of Agricultural Sciences, Uppsala, Sweden
    PLoS Genet 4:e1000030. 2008
    ..tetrasperma involved more than one evolutionary event, covers the majority of the mating-type chromosome and is flanked by distal regions with obligate crossovers...
  96. pmc The wild-type Schizosaccharomyces pombe mat1 imprint consists of two ribonucleotides
    Sonya Vengrova
    Marie Curie Research Institute, The Chart, Oxted, Surrey, UK
    EMBO Rep 7:59-65. 2006
    ..Second, using a novel assay based on ligation-mediated PCR, a 3'-terminal ribonucleotide is detected at the hydrolysed imprint. Our observations allow the unification of available data sets characterizing the wild-type imprint...
  97. pmc Hypermutability of damaged single-strand DNA formed at double-strand breaks and uncapped telomeres in yeast Saccharomyces cerevisiae
    Yong Yang
    Department of Health and Human Services, Laboratory of Molecular Genetics, National Institute of Environmental Health Sciences, National Institutes of Health, Research Triangle Park, North Carolina, United States of America
    PLoS Genet 4:e1000264. 2008
    ..Hypermutability and multiple mutations associated with lesions in transient stretches of long single-strand DNA may be a source of carcinogenesis and provide selective advantage in adaptive evolution...
  98. ncbi A physical assay for sister chromatid cohesion in vitro
    Dmitri Ivanov
    Research Institute of Molecular Pathology, Dr Bohr Gasse 7, Vienna, Austria
    Mol Cell 27:300-10. 2007
    ..These data represent the best evidence so far that the cohesin ring physically holds sister DNAs together and are consistent with the notion that it does so by using a topological principle involving the trapping DNAs inside its ring...
  99. pmc Chemical inactivation of cdc7 kinase in budding yeast results in a reversible arrest that allows efficient cell synchronization prior to meiotic recombination
    Lihong Wan
    Department of Biochemistry and Cell Biology, SUNY, Stony Brook, NY 11794 5215, USA
    Genetics 174:1767-74. 2006
    ..The cdc7-as3 mutant therefore provides a valuable tool not only for understanding the role of Cdc7 in meiosis, but also for facilitating biochemical and cytological studies of recombination...
  100. ncbi ATR homolog Mec1 controls association of DNA polymerase zeta-Rev1 complex with regions near a double-strand break
    Yukinori Hirano
    Department of Cell Biology and Molecular Medicine, University of Medicine and Dentistry of New Jersey, New Jersey Medical School, Newark, New Jersey 07103, USA
    Curr Biol 16:586-90. 2006
    ..Our results reveal a novel role of Mec1 in the localization of the Polzeta-Rev1 complex to DNA lesions and highlight a linkage of TLS polymerases to the checkpoint response...
  101. pmc Single-molecule analysis reveals clustering and epigenetic regulation of replication origins at the yeast rDNA locus
    Philippe Pasero
    Institute of Molecular Genetics, CNRS UMR 5535 and Université Montpellier II, 34293 Montpellier Cedex 5, France
    Genes Dev 16:2479-84. 2002
    ..We conclude that rDNA replication is regulated epigenetically and that Sir2p may promote genome stability and longevity by suppressing replication-dependent rDNA recombination...

Research Grants62

  1. Assembling a Centric Nucleosome
    Richard Baker; Fiscal Year: 2004
    ..Given the high conservation of centric histone H3 variants throughout evolution, the results will illuminate the problem of centromere formation and function in higher eukaryotes including humans. ..
  2. STRATEGIES TO IDENTIFY AND DISTINGUISH FUNGAL PATHOGENS
    RHONDA HONEYCUTT; Fiscal Year: 2000
    ..and/or subspecies-specific primer pairs will then be tested in mock specimens using mixed templates of human and fungal DNA to optimize reaction conditions and determine the sensitivity of the assay. Validations of the species...
  3. PCR ASSAY FOR RAPID DETECTION OF FUNGAL INFECTION
    Jo Anne van Burik; Fiscal Year: 2000
    ..Rapid detection of fungal DNA is practical with the application of polymerase chain reaction (PCR) amplification...
  4. NOVEL DRUGS FROM UNCULTURABLE FUNGI
    YIGAL KOLTIN; Fiscal Year: 1999
    ..These include screening more libaries from diverse groups of unculturable fungi; expressing unculturable fungal DNA in multiple heterologous hosts; and growing the transgenic strains under various fermentation conditions...
  5. Evaluating Trichophyton tonsurans Carriage and Infection
    Susan Abdel Rahman; Fiscal Year: 2006
    ..abstract_text> ..
  6. FUNGAL PROTEIN/GLYCOPROTEIN EXPRESSION IN TINEA CAPITIS
    Susan Abdel Rahman; Fiscal Year: 2003
    ..abstract_text> ..
  7. 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. ..
  8. ANALYSIS OF TELOMERASE REVERSE TRANSCRIPTASE
    Neal F Lue; Fiscal Year: 2010
    ....
  9. Transcriptional Integration of Metabolism
    ELTON YOUNG; Fiscal Year: 2007
    ..abstract_text> ..
  10. Transcriptional control of Drosophila heart development
    Martha Bulyk; Fiscal Year: 2008
    ..Collectively, these studies will provide a detailed understanding of the transcriptional regulatory mechanisms underlying cardiac development. ..
  11. Developing genomic resources for the toxic dinoflagellate Alexandrium tamarense
    Debashish Bhattacharya; Fiscal Year: 2008
    ..unreadable] [unreadable] [unreadable]..
  12. Targeted 2nd generation sequencing in phenotyped Framingham & PGP populations.
    George M Church; Fiscal Year: 2010
    ..It will eventually also enable health providers to learn the genetic variations of their patients very inexpensively and thus help refine and improve their medical care. ..
  13. Antibody in Defense Against Neonatal Candida Infections
    JOSEPH BLISS; Fiscal Year: 2008
    ..As such, he will be in an ideal position to orchestrate the translation of basic science to the benefit of patients. ..
  14. Quantitative PCR for the Detection of Fungal Infections
    David Fredricks; Fiscal Year: 2008
    ..Quantitative PCR (qPCR) is a rapid and sensitive method for detecting fungal pathogens based on amplification of fungal DNA. qPCR can be used to identify fungal pathogens and to measure the amount of fungal DNA present in tissues...
  15. 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]..
  16. Mathematical and Statistical Models for Nucleosome
    Ji Ping Wang; Fiscal Year: 2010
    ..5) Automate the developed tools and algorithms. ..
  17. Mechanism of in-vitro aging
    LYSLE LEWIS; Fiscal Year: 2007
    ..The proposed research will enhance our understanding of events that occur as a consequence of shortened chromosomes and factors that affect the rate of shortening. [unreadable] [unreadable] [unreadable]..
  18. Eukaryotic Transcription Factor Binding Site Locations
    Martha Bulyk; Fiscal Year: 2007
    ..In addition, we will make our data publicly available, so that other researchers may focus their efforts on those genomic regions most likely to contain cis regulatory elements. ..
  19. Regulation of DNA replication and the S phase checkpoint
    PEI YUN WU; Fiscal Year: 2007
    ..The experiments in this proposal are all important for understanding the onset of cancer and its treatment. [unreadable] [unreadable]..
  20. GENETIC ANALYSIS OF GENES CONTROLLING A POSITION EFFECT
    Jasper Rine; Fiscal Year: 2008
    ..abstract_text> ..
  21. Cellular & Molecular Fungal Biology 2008 Gordon Research Conference
    Nancy Keller; Fiscal Year: 2008
    ..unreadable] [unreadable] [unreadable]..
  22. Fungal-specific drug targets: static vs. cidal starvation & toxic intermediates
    JOHN MCCUSKER; Fiscal Year: 2008
    ..The identification of fungicidal antifungal drugs, which is a long-term goal, will greatly improve human health. [unreadable] [unreadable] [unreadable]..
  23. GENES AND GENETIC INTERACTIONS UNDERLYING PHARMACOLOGICAL VARIATION IN YEAST
    Weixiong Zhang; Fiscal Year: 2010
    ..The proposed research will develop and evaluate a method of identifying multiple genes that contribute to complex traits and a model to predict their dependence on genetic background using gene expression data. ..
  24. ANALYSIS OF GENETICALLY & ENVIRONMENTALLY OVERLAPPING YEAST QUANTITATIVE TRAITS
    John H McCusker; Fiscal Year: 2010
    ..Therefore, an improved understanding of quantitative traits will aid our understanding of how a harmless commensal/saprophytic yeast can become an opportunistic pathogen. ..
  25. 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. ..
  26. Biochemistry of recombination in gametogenesis
    Wayne P Wahls; Fiscal Year: 2010
    ....
  27. 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. ..
  28. Computational Analysis of Retinal Regulatory Interactions: structure and dynamics
    Jiang Qian; Fiscal Year: 2010
    ..Beyond investigation of retinal disease, the computational programs developed in this proposal should also be generally useful for a broad community. ..
  29. A Novel HTP Assay for Identification of Compounds that Reduce PNC Prevalence
    Sui Huang; Fiscal Year: 2008
    ..unreadable] [unreadable] [unreadable]..
  30. Mechanism of Eukaryotic Translation Termination
    David M Bedwell; Fiscal Year: 2011
    ..The third aim of this proposal will test various aspects of this model so we can better understand the important interplay between translation termination and mRNA stability. ..
  31. Antioxidant Therapy for Ataxia Telangiectasia
    ROBERT SCHIESTL; Fiscal Year: 2009
    ....
  32. YEAST GENETIC INTERACTION MAP
    JEF BOEKE; Fiscal Year: 2008
    ..Thus, to our knowledge, we are the only group that can complete the remaining 98% of the yeast synthetic lethal interaction map. [unreadable] [unreadable] [unreadable]..
  33. Coordination of the late steps of human nucleotide excision repair
    ORLANDO D SCHARER; Fiscal Year: 2010
    ..Since NER proteins also contribute to the resistance of tumor cells to anti-cancer agents our investigations may also provide new targets for anti- tumor therapy. ..
  34. Genetic Dissection of BRCA1's Recombination Function
    DOUGLAS BISHOP; Fiscal Year: 2007
    ..5. To use biochemical and genetic assays to map the regions of BRCA1 that contribute to its DNA binding activity and determine which functions of BRCA1 depend on this activity. [unreadable] [unreadable]..
  35. High Throughput Assay:Topoisomerase Enzyme Targets (RMI)
    JAMES STIVERS; Fiscal Year: 2005
    ..The utility of the assay has been validated, by screening a 2000 member small molecule library from which several novel lead compounds have been identified that specifically target a poxvirus family topoisomerase. ..
  36. High through-put detection of fungal pathogens
    JACK FELL; Fiscal Year: 2004
    ..Resulting data will be disseminated via GenBank, publications in leading scientific journals and as an inexpensive commercial detection system. ..
  37. Combinatoial CREB/ATF dimers and cellular growth control
    WAYNE WAHLS; Fiscal Year: 2004
    ..Aim 3, To further characterize regulatory mechanisms for stress responses mediated by the Mts1 bZIP protein: elucidate the role of the MAP kinase Spcl in controlling an autoinhibitory function of Mts1. ..
  38. STRUCTURAL STUDY OF EUKARYOTIC TRANSCRIPTION REGULATION
    Francisco Asturias; Fiscal Year: 2004
    ..By identifying structural differences and similarities between the complexes we hope to contribute to the understanding of what increasingly appears as a universal mechanism for transcription control. ..
  39. REGULATION OF MEIOTIC DEVELOPMENT BY MTS1-MTS2 PROTEIN
    WAYNE WAHLS; Fiscal Year: 2004
    ..4) To test alternative hypotheses that the Mts1-Mts2-M26 complex either enhances the use of a pre-existing recombinational initiation site or creates a new initiation site. The PI request four years of support to carry out this study. ..
  40. ENERGY COUPLING BY THE YEAST PLASMA MEMBRANE H+_ATPASE
    David Perlin; Fiscal Year: 2004
    ..abstract_text> ..
  41. The Molecular Microbiology of Bacterial Vaginosis
    David Fredricks; Fiscal Year: 2003
    ..In future studies, vaginal fluid samples from a larger cohort of women will be assayed to determine if a candidate pathogen is specifically associated with BV. ..
  42. PHASE VARIATION IN SACCHAROMYCES CEREVISIAE
    JOHN MCCUSKER; Fiscal Year: 2003
    ..The PHI genes will be introduced to the non-phase variable laboratory strain, 288c, in efforts to reconstruct phase variation. ..
  43. REPAIR OF DNA DAMAGED BY UV IRRADIATION IN YEAST
    Louise Prakash; Fiscal Year: 2003
    ..The DNA replication/damage bypass proteins which become ubiquitinated in response to DNA damage will be identified, and the role of RAD6 and RAD18 in this process will be determined. ..
  44. PERINUCLEOLAR COMPARTMENT AND CANCER
    Sui Huang; Fiscal Year: 2003
    ..The results of these experiments will provide an important foundation to address the significance of the PNC in malignant cells. ..
  45. GENETIC DIVERSITY AND COMPLEX TRAITS IN S CEREVISIAE
    JOHN MCCUSKER; Fiscal Year: 2002
    ..the development of S. cerevisiae as genetically manipulable model for the pathogenic fungi and as a host for the interspecific reconstitution of fungal virulence. ..
  46. MECHANISM OF RADIATION INDUCED DELAYED GENOTOXICITY
    ROBERT SCHIESTL; Fiscal Year: 2002
    ..This project should characterize the phenomenon of persistently elevated genetic instability, give insights into its mechanism and might also provide molecular targets for intervention to reverse the phenotype. ..
  47. Gordon Conf. on Cellular and Molecular Fungal Biology
    James Kronstad; Fiscal Year: 2004
    ..In summary, the conference provides a unique opportunity to examine the breadth of fungal biology in a small meeting format that encourages in-depth discussion among the attendees. ..
  48. Desaturases and Acetylenases from Basidiomycete Fungi
    ROBERT MINTO; Fiscal Year: 2004
    ..Through the above studies, we will test the hypothesis that multiple FAD2-like enzymes are required for polyacetylene biosynthesis, while characterizing an understudied group of important fungal enzymes. ..
  49. Application of Bioinformatics to Retinal Gene Regulation
    Jiang Qian; Fiscal Year: 2006
    ..abstract_text> ..
  50. Effect of parkin on DNA damage induced rearrangements
    ROBERT SCHIESTL; Fiscal Year: 2006
    ..If our hypothesis turns out to be true, one could use these mice as model systems to further study the mechanistic basis of the interaction of lack of parkin with DNA repair and cancer. ..
  51. TRANSCRIPTIONAL SILENCING MECHANISMS
    JEF BOEKE; Fiscal Year: 2005
    ..We will use the tools of molecular genetics, biochemistry and structural biology to carry out a comprehensive analysis of the molecular mechanisms involved in silencing. ..
  52. MOLECULAR DISSECTION OF YEAST NUCLEOTIDE EXCISION REPAIR
    Zhigang Wang; Fiscal Year: 2006
    ..These studies should lead to a better understanding of the NER pathway in eukaryotes, which in turn should advance our understanding on the interaction between human health and many genotoxic agents in our environment. ..
  53. Effect of Diesel Exhaust Particles on DNA Deletions
    ROBERT SCHIESTL; Fiscal Year: 2006
    ..abstract_text> ..
  54. Mechanisms of DNA Lesion Bypass in Eukaryotes
    Zhigang Wang; Fiscal Year: 2006
    ..The proposed studies should significantly advance our understanding of mechanisms of lesion bypass and damage-induced mutagenesis in eukaryotic cells. ..
  55. The Perinucleolar Compartment as Breast Cancer Marker
    Sui Huang; Fiscal Year: 2005
    ..We expect the proposed studies will clarify whether the PNC, an easily detectable cellular structure, could improve the accuracy of breast cancer prognosis and prediction when used in combination with existing markers. ..
  56. DNA Repair and Mutagenesis in S cerevisiae
    Elaine Sia; Fiscal Year: 2005
    ..The experiments in this proposal are aimed at understanding the processes of mutagenesis and repair of mitochondrial DNA in yeast, however, these studies may lead to insights into similar processes in human mitochondrial DNA. ..
  57. Mechanisms of Nonhomologous Repair of Damaged DNA
    Sang Eun Lee; Fiscal Year: 2005
    ..Furthermore, since DSB repair by NHEJ is remarkably conserved from yeast to humans, these studies will help to dissect the similar pathways in humans. ..
  58. PROMOTER SPECIFICITY OF TRANSCRIPTION FACTORS
    David J Stillman; Fiscal Year: 2010
    ..Here we study two transcription factors with identical DNA-binding domains that recognize the same DNA sequence in vivo, to determine what mechanisms restrict their ability to activate expression of specific genes in vivo. ..
  59. Cryptococcus gatti mating 1oci; mapping and gene study
    Vishnu Chaturvedi; Fiscal Year: 2004
    ..abstract_text> ..
  60. STRUCTURE/FUNCTION OF YEAST DNA POLYMERASE DELTA
    PETER BURGERS; Fiscal Year: 2002
    ..Improper regulation of these processes in humans may lead to cancer. ..
  61. Oral Chlorhexidine effect on ICU mortality and ventilator-associated pneumonia
    Catherine Binkley; Fiscal Year: 2008
    ..unreadable] [unreadable] [unreadable]..