WILLIAM CHARLES NIERMAN

Summary

Affiliation: The Institute for Genomic Research
Country: USA

Publications

  1. pmc Genome sequence alterations detected upon passage of Burkholderia mallei ATCC 23344 in culture and in mammalian hosts
    Claudia M Romero
    The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
    BMC Genomics 7:228. 2006
  2. pmc Burkholderia Hep_Hag autotransporter (BuHA) proteins elicit a strong antibody response during experimental glanders but not human melioidosis
    Rachaneeporn Tiyawisutsri
    Faculty of Tropical Medicine, Mahidol University, Bangkok, Thailand
    BMC Microbiol 7:19. 2007
  3. pmc Genomic patterns of pathogen evolution revealed by comparison of Burkholderia pseudomallei, the causative agent of melioidosis, to avirulent Burkholderia thailandensis
    Yiting Yu
    Genome Institute of Singapore, Singapore 138672, Republic of Singapore
    BMC Microbiol 6:46. 2006
  4. pmc Comparative analysis of programmed cell death pathways in filamentous fungi
    Natalie D Fedorova
    The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
    BMC Genomics 6:177. 2005
  5. pmc Genomic islands from five strains of Burkholderia pseudomallei
    Apichai Tuanyok
    Department of Biological Sciences, Northern Arizona University, Flagstaff, AZ 86011 5640, USA
    BMC Genomics 9:566. 2008
  6. ncbi request reprint Genomic sequence of the pathogenic and allergenic filamentous fungus Aspergillus fumigatus
    William C Nierman
    The Institute for Genomic Research, Rockville, Maryland 20850, USA
    Nature 438:1151-6. 2005
  7. ncbi request reprint What the Aspergillus genomes have told us
    W C Nierman
    Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
    Med Mycol 43:S3-5. 2005
  8. pmc Structural flexibility in the Burkholderia mallei genome
    William C Nierman
    Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
    Proc Natl Acad Sci U S A 101:14246-51. 2004
  9. ncbi request reprint Genome data: what do we learn?
    W C Nierman
    The Institute for Genomic Research, Rockville, MD 20850, USA
    Curr Opin Struct Biol 10:343-8. 2000
  10. pmc Complete genome sequence of Caulobacter crescentus
    W C Nierman
    The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
    Proc Natl Acad Sci U S A 98:4136-41. 2001

Research Grants

  1. The Transcriptome of Pathogenic Aspergillus Fumigatus
    William Nierman; Fiscal Year: 2003
  2. Microarray Expression Analysis of Burkholderia Mallei
    William Nierman; Fiscal Year: 2003
  3. Regulation of Burkholderia mallei virulence genes
    William Nierman; Fiscal Year: 2005
  4. Host-Pathogen Interactions in Invasive Aspergillosis
    William Nierman; Fiscal Year: 2009
  5. Host-Pathogen Interactions in Invasive Aspergillosis
    WILLIAM CHARLES NIERMAN; Fiscal Year: 2010

Detail Information

Publications47

  1. pmc Genome sequence alterations detected upon passage of Burkholderia mallei ATCC 23344 in culture and in mammalian hosts
    Claudia M Romero
    The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
    BMC Genomics 7:228. 2006
    ..mallei ATCC 23344 isolates, one from each source, were sequenced from culture, a mouse, a horse, and two isolates from a single human patient, and the sequence compared to the published B. mallei ATCC 23344 genome sequence...
  2. pmc Burkholderia Hep_Hag autotransporter (BuHA) proteins elicit a strong antibody response during experimental glanders but not human melioidosis
    Rachaneeporn Tiyawisutsri
    Faculty of Tropical Medicine, Mahidol University, Bangkok, Thailand
    BMC Microbiol 7:19. 2007
    ..Genomic and epidemiological studies have shown that B. mallei is a recently emerged, host restricted clone of B. pseudomallei...
  3. pmc Genomic patterns of pathogen evolution revealed by comparison of Burkholderia pseudomallei, the causative agent of melioidosis, to avirulent Burkholderia thailandensis
    Yiting Yu
    Genome Institute of Singapore, Singapore 138672, Republic of Singapore
    BMC Microbiol 6:46. 2006
    ..To understand the evolutionary mechanisms contributing to Bp virulence, we performed a comparative genomic analysis of Bp K96243 and B. thailandensis (Bt) E264, a closely related but avirulent relative...
  4. pmc Comparative analysis of programmed cell death pathways in filamentous fungi
    Natalie D Fedorova
    The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
    BMC Genomics 6:177. 2005
    ....
  5. pmc Genomic islands from five strains of Burkholderia pseudomallei
    Apichai Tuanyok
    Department of Biological Sciences, Northern Arizona University, Flagstaff, AZ 86011 5640, USA
    BMC Genomics 9:566. 2008
    ..The purpose of this study was to examine the role of genomic islands (GIs) as sources of genomic diversity in this species...
  6. ncbi request reprint Genomic sequence of the pathogenic and allergenic filamentous fungus Aspergillus fumigatus
    William C Nierman
    The Institute for Genomic Research, Rockville, Maryland 20850, USA
    Nature 438:1151-6. 2005
    ..The Af293 genome sequence provides an unparalleled resource for the future understanding of this remarkable fungus...
  7. ncbi request reprint What the Aspergillus genomes have told us
    W C Nierman
    Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
    Med Mycol 43:S3-5. 2005
    ..fumigatus and a closely related Aspergillus species provides microarray based examples of the beginning of functional analysis of the genomes of these organisms going forward from the genome sequence...
  8. pmc Structural flexibility in the Burkholderia mallei genome
    William C Nierman
    Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
    Proc Natl Acad Sci U S A 101:14246-51. 2004
    ..Variation in simple sequence repeats in key genes can provide a mechanism for generating antigenic variation that may account for the mammalian host's inability to mount a durable adaptive immune response to a B. mallei infection...
  9. ncbi request reprint Genome data: what do we learn?
    W C Nierman
    The Institute for Genomic Research, Rockville, MD 20850, USA
    Curr Opin Struct Biol 10:343-8. 2000
    ..Approaches to using data from completely sequenced microbial genomes in phylogenetic studies are being explored, as is the application of microarrays to whole genome expression analysis...
  10. pmc Complete genome sequence of Caulobacter crescentus
    W C Nierman
    The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
    Proc Natl Acad Sci U S A 98:4136-41. 2001
    ....
  11. pmc Phylogenomics of the reproductive parasite Wolbachia pipientis wMel: a streamlined genome overrun by mobile genetic elements
    Martin Wu
    The Institute for Genomic Research, Rockville, Maryland, USA
    PLoS Biol 2:E69. 2004
    ..With the availability of the complete genomes of both species and excellent genetic tools for the host, the wMel-D. melanogaster symbiosis is now an ideal system for studying the biology and evolution of Wolbachia infections...
  12. ncbi request reprint Genomics of Aspergillus fumigatus
    Catherine M Ronning
    The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
    Rev Iberoam Micol 22:223-8. 2005
    ..A. fumigatus was compared with the food biotechnology fungus Aspergillus oryzae and sexual fungus Aspergillus nidulans, as well as other fungi, in an attempt to discern key differences between these organisms...
  13. pmc The complete genome sequence of Chlorobium tepidum TLS, a photosynthetic, anaerobic, green-sulfur bacterium
    Jonathan A Eisen
    The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
    Proc Natl Acad Sci U S A 99:9509-14. 2002
    ..tepidum and many Archaeal species...
  14. pmc Bacterial genome adaptation to niches: divergence of the potential virulence genes in three Burkholderia species of different survival strategies
    H Stanley Kim
    The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
    BMC Genomics 6:174. 2005
    ..To investigate the genomic factors resulting in such a dramatic difference, we first identified the Bm genes responsive to the mouse environment, and then examined the divergence of these genes in Bp and Bt...
  15. ncbi request reprint Genome sequence of Theileria parva, a bovine pathogen that transforms lymphocytes
    Malcolm J Gardner
    Institute for Genomic Research TIGR, 9712 Medical Center Drive, Rockville, MD 20850, USA
    Science 309:134-7. 2005
    ..Several biosynthetic pathways are incomplete or absent, suggesting substantial metabolic dependence on the host cell. One protein family that may generate parasite antigenic diversity is not telomere-associated...
  16. ncbi request reprint Transcriptional divergence of the duplicated oxidative stress-responsive genes in the Arabidopsis genome
    H Stanley Kim
    The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
    Plant J 41:212-20. 2005
    ....
  17. pmc Human, mouse, and rat genome large-scale rearrangements: stability versus speciation
    Shaying Zhao
    Institute for Genomic Research, Rockville, Maryland 20850, USA
    Genome Res 14:1851-60. 2004
    ....
  18. ncbi request reprint The genome sequence of Bacillus anthracis Ames and comparison to closely related bacteria
    Timothy D Read
    The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, Maryland 20850, USA
    Nature 423:81-6. 2003
    ..The complete sequence of B. anthracis is a step towards a better understanding of anthrax pathogenesis...
  19. pmc Genetic and phenotypic diversity in Burkholderia: contributions by prophage and phage-like elements
    Catherine M Ronning
    J Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD 20850, USA
    BMC Microbiol 10:202. 2010
    ..These GIs may provide some strains with a competitive advantage in the environment and/or in the host relative to other strains...
  20. ncbi request reprint The power in comparison
    William C Nierman
    The Institute for Genomic Research, Rockville, MD 20850, USA
    Trends Microbiol 12:62-3. 2004
  21. ncbi request reprint Genomics for applied microbiology
    William C Nierman
    Institute for Genomic Research, 9712 Medical Center Drive, Rockville, Maryland 20850, USA
    Adv Appl Microbiol 51:201-45. 2002
  22. doi request reprint Using aCGH to study intraspecific genetic variability in two pathogenic molds, Aspergillus fumigatus and Aspergillus flavus
    Natalie D Fedorova
    The J Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD 20850, USA
    Med Mycol 47:S34-41. 2009
    ..Preliminary evidence suggests that gene flow in both species is largely constrained by VCG boundaries, although further VCG sampling is required to confirm this observation...
  23. doi request reprint Effect of competition on the production and activity of secondary metabolites in Aspergillus species
    Liliana Losada
    J Craig Venter Institute, Rockville, Maryland 20850, USA
    Med Mycol 47:S88-96. 2009
    ..These findings indicate that co-cultivation could be a very promising method for inducing and characterizing novel antifungal compounds produced by species of Aspergillus...
  24. ncbi request reprint Type VI secretion is a major virulence determinant in Burkholderia mallei
    Mark A Schell
    Department of Microbiology, University of Georgia, Athens, GA 30602, USA
    Mol Microbiol 64:1466-85. 2007
    ..Purified His-tagged BMAA0742 was recognized by glanders antiserum from a horse, a human and mice, indicating that this Hcp-family protein is produced in vivo during infection...
  25. ncbi request reprint Gene profiling for studying the mechanism of aflatoxin biosynthesis in Aspergillus flavus and A. parasiticus
    Jiujiang Yu
    USDA ARS, Southern Regional Research Center, New Orleans, LA 70124, USA
    Food Addit Contam 24:1035-42. 2007
    ..flavus and A. parasiticus. Genes consistently expressed in several aflatoxin-supportive media are reported...
  26. pmc Origin and distribution of epipolythiodioxopiperazine (ETP) gene clusters in filamentous ascomycetes
    Nicola J Patron
    Department of Botany, University of British Columbia, Vancouver, British Columbia, V6T 1Z4, Canada
    BMC Evol Biol 7:174. 2007
    ..Phylogenetic analysis of cluster genes has been used to investigate the assembly and heredity of these gene clusters...
  27. pmc Sub-telomere directed gene expression during initiation of invasive aspergillosis
    Andrew McDonagh
    Department of Microbiology, Imperial College London, London, United Kingdom
    PLoS Pathog 4:e1000154. 2008
    ....
  28. pmc Impaired ribosome biogenesis disrupts the integration between morphogenesis and nuclear duplication during the germination of Aspergillus fumigatus
    Ruchi Bhabhra
    Department of Pathology and Laboratory Medicine, University of Cincinnati, College of Medicine, 231 Albert Sabin Way, Cincinnati, OH 45267 0529, USA
    Eukaryot Cell 7:575-83. 2008
    ..These findings indicate that the germination process is particularly vulnerable to global disruption of protein synthesis and suggest that CgrA is involved in both ribosome biogenesis and polarized cell growth in A. fumigatus...
  29. pmc Genomic islands in the pathogenic filamentous fungus Aspergillus fumigatus
    Natalie D Fedorova
    The J Craig Venter Institute, Rockville, Maryland, United States of America
    PLoS Genet 4:e1000046. 2008
    ..The role of duplication in the origin of lineage-specific genes is further underlined by the discovery of genomic islands that seem to function as designated "gene dumps" and, perhaps, simultaneously, as "gene factories"...
  30. pmc Characterization of clinically-attenuated Burkholderia mallei by whole genome sequencing: candidate strain for exclusion from Select Agent lists
    Steven E Schutzer
    Department of Medicine, University of Medicine and Dentistry New Jersey Medical School, Newark, New Jersey, United States of America
    PLoS ONE 3:e2058. 2008
    ..Whole genomic sequencing (WGS) is an apt approach to characterize newly discovered or poorly understood microbial pathogens...
  31. pmc SreA-mediated iron regulation in Aspergillus fumigatus
    Markus Schrettl
    Divisions of Molecular Biology Biocenter, Medical University Innsbruck, Fritz Pregl Str 3, A 6020 Innsbruck, Austria
    Mol Microbiol 70:27-43. 2008
    ..As all detrimental effects of sreA disruption are restricted to iron-replete conditions these data underscore that A. fumigatus faces iron-depleted conditions during infection...
  32. doi request reprint Elucidation of the functional genomics of antioxidant-based inhibition of aflatoxin biosynthesis
    Jong H Kim
    Plant Mycotoxin Research Unit, Western Regional Research Center, USDA ARS, 800 Buchanan St, Albany, CA 94710, USA
    Int J Food Microbiol 122:49-60. 2008
    ..g., lipoperoxides, reactive oxygen species, etc.) produced during host-plant infection and this detoxification attenuates upstream signals triggering aflatoxigenesis are discussed...
  33. pmc Transcriptional regulation of chemical diversity in Aspergillus fumigatus by LaeA
    Robyn M Perrin
    Department of Plant Pathology, University of Wisconsin Madison, Madison, Wisconsin, United States of America
    PLoS Pathog 3:e50. 2007
    ..Our findings suggest that LaeA is a novel target for comprehensive modification of chemical diversity and pathogenicity...
  34. pmc Sequence and annotation of the 369-kb NY-2A and the 345-kb AR158 viruses that infect Chlorella NC64A
    Lisa A Fitzgerald
    Department of Chemistry, University of Nebraska Lincoln, Lincoln, NE 68588 0304, USA
    Virology 358:472-84. 2007
    ..Comparison of NY-2A and AR158 protein-encoding genes with the prototype chlorella virus PBCV-1 indicates that 85% of the genes are present in all three viruses...
  35. ncbi request reprint Cloning and characterization of a gene cluster for geldanamycin production in Streptomyces hygroscopicus NRRL 3602
    Andreas Rascher
    Kosan Biosciences, 3832 Bay Center Place, 94545, Hayward, CA, USA
    FEMS Microbiol Lett 218:223-30. 2003
    ..geldanus NRRL 3602...
  36. ncbi request reprint Genome sequence of the Brown Norway rat yields insights into mammalian evolution
    Richard A Gibbs
    Human Genome Sequencing Center, Department of Molecular and Human Genetics, Baylor College of Medicine, MS BCM226, One Baylor Plaza, Houston, Texas 77030, USA lt http www hgsc bcm tmc edu
    Nature 428:493-521. 2004
    ....
  37. pmc The Aspergillus fumigatus StuA protein governs the up-regulation of a discrete transcriptional program during the acquisition of developmental competence
    Donald C Sheppard
    Department of Microbiology and Immunology, McGill University, Montreal, Quebec H3A 2B4, Canada
    Mol Biol Cell 16:5866-79. 2005
    ..Additionally, hyphae of the DeltastuA mutant displayed reduced expression of the catalase gene CAT1 and were hypersusceptible to hydrogen peroxide...
  38. ncbi request reprint Sequencing of Aspergillus nidulans and comparative analysis with A. fumigatus and A. oryzae
    James E Galagan
    The Broad Institute of MIT and Harvard, 320 Charles Street, Cambridge, Massachusetts 02142, USA
    Nature 438:1105-15. 2005
    ..These results enhance our understanding of these widely studied fungi as well as provide new insight into eukaryotic genome evolution and gene regulation...
  39. ncbi request reprint Genome sequencing and analysis of Aspergillus oryzae
    Masayuki Machida
    Institute for Biological Resources and Functions, National Institute of Advanced Industrial Science and Technology AIST, Higashi 1 1 1, Tsukuba, Ibaraki 305 8566, Japan
    Nature 438:1157-61. 2005
    ..Specific expansion of genes for secretory hydrolytic enzymes, amino acid metabolism and amino acid/sugar uptake transporters supports the idea that A. oryzae is an ideal microorganism for fermentation...
  40. ncbi request reprint The aflatoxin pathway regulator AflR induces gene transcription inside and outside of the aflatoxin biosynthetic cluster
    Michael S Price
    North Carolina State University, Center for Integrated Fungal Research and Department of Plant Pathology, Raleigh, NC, USA
    FEMS Microbiol Lett 255:275-9. 2006
    ..This report is the first to demonstrate genes outside the biosynthetic cluster as being associated with aflR expression...
  41. ncbi request reprint Aspergillus flavus genomics: gateway to human and animal health, food safety, and crop resistance to diseases
    Jiujiang Yu
    USDA ARS, Southern Regional Research Center, 1100 Robert E Lee Boulevard, New Orleans, LA 70124, USA
    Rev Iberoam Micol 22:194-202. 2005
    ..Further, it will provide vital clues for engineering commercial crops resistant to fungal infection by incorporating antifungal genes that may prevent aflatoxin contamination of agricultural harvest...
  42. ncbi request reprint Transcriptome analysis of Aspergillus fumigatus exposed to voriconazole
    Márcia Eliana da Silva Ferreira
    Departamento de Ciencias Farmaceuticas, Faculdade de Ciencias Farmaceuticas de Ribeirao Preto, Universidade de Sao Paulo, Ribeirao Preto, Brazil
    Curr Genet 50:32-44. 2006
    ....
  43. ncbi request reprint Genome-wide expression analysis of iron regulation in Burkholderia pseudomallei and Burkholderia mallei using DNA microarrays
    Apichai Tuanyok
    Department of Microbiology and Infectious Diseases, Faculty of Medicine, University of Calgary Health Sciences Centre, Alta, Canada
    FEMS Microbiol Lett 252:327-35. 2005
    ..The observations relative to the induction of specific metabolic enzymes during bacterial growth under low iron conditions warrants further experimentation...
  44. ncbi request reprint A physical map of the mouse genome
    Simon G Gregory
    The Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, UK
    Nature 418:743-50. 2002
    ..The human sequence may be used to facilitate construction of other mammalian genome maps using the same strategy...
  45. pmc Burkholderia pseudomallei genome plasticity associated with genomic island variation
    Sarinna Tumapa
    Mahidol Oxford Tropical Medicine Research Unit, Faculty of Tropical Medicine, Mahidol University, Bangkok, Thailand
    BMC Genomics 9:190. 2008
    ..pseudomallei isolates, little is known about the extent of variation between related strains or their association with disease or environmental survival...
  46. ncbi request reprint Aspergillus flavus expressed sequence tags for identification of genes with putative roles in aflatoxin contamination of crops
    Jiujiang Yu
    Food and Feed Safety Research, USDA ARS, Southern Regional Research Center, 1100 Robert E Lee Blvd, New Orleans, LA 70124, USA
    FEMS Microbiol Lett 237:333-40. 2004
    ..These include the aflatoxin biosynthetic pathway, signal transduction, global regulation, pathogenicity of the fungus, and stress response...
  47. pmc Complete genome sequence of the broad-host-range vibriophage KVP40: comparative genomics of a T4-related bacteriophage
    Eric S Miller
    Department of Microbiology, North Carolina State University, Raleigh, NC 27695 7615, USA
    J Bacteriol 185:5220-33. 2003
    ..Features of the KVP40 genome that distinguish it from T4 are presented, as well as those, such as the replication and virion gene clusters, that are substantially conserved...

Research Grants9

  1. The Transcriptome of Pathogenic Aspergillus Fumigatus
    William Nierman; Fiscal Year: 2003
    ..abstract_text> ..
  2. Microarray Expression Analysis of Burkholderia Mallei
    William Nierman; Fiscal Year: 2003
    ..Function and virulence validation of the identified virulence genes will be explored by construction and phenotype analysis of targeted knockout strains. ..
  3. Regulation of Burkholderia mallei virulence genes
    William Nierman; Fiscal Year: 2005
    ..It will provide critical information on virulence control and virulence mechanisms of B. mallei and will be crucial to the development of effective therapeutic interventions and vaccine strategies. ..
  4. Host-Pathogen Interactions in Invasive Aspergillosis
    William Nierman; Fiscal Year: 2009
    ..necessary to maintain protective immunity against the invading fungus. This hithertn inaccessible ... in order to >.E =.m m'- N'3 ..' 'C3 _.n '-' a.. m._ o'< m- ..
  5. Host-Pathogen Interactions in Invasive Aspergillosis
    WILLIAM CHARLES NIERMAN; Fiscal Year: 2010
    ..necessary to maintain protective immunity against the invading fungus. This hithertn inaccessible ... in order to >.E =.m m'- N'3 ..' 'C3 _.n '-' a.. m._ o'< m- ..