Research Topics
| WILLIAM CHARLES NIERMANSummaryAffiliation: The Institute for Genomic Research Country: USA Publications
Research Grants
| Collaborators
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Detail Information
Publications
Genome sequence alterations detected upon passage of Burkholderia mallei ATCC 23344 in culture and in mammalian hostsClaudia 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...- Burkholderia Hep_Hag autotransporter (BuHA) proteins elicit a strong antibody response during experimental glanders but not human melioidosisRachaneeporn 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... - Genomic patterns of pathogen evolution revealed by comparison of Burkholderia pseudomallei, the causative agent of melioidosis, to avirulent Burkholderia thailandensisYiting 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... - Comparative analysis of programmed cell death pathways in filamentous fungiNatalie D Fedorova
The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
BMC Genomics 6:177. 2005.... 
Genomic islands from five strains of Burkholderia pseudomalleiApichai 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...
Genomic sequence of the pathogenic and allergenic filamentous fungus Aspergillus fumigatusWilliam 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...- What the Aspergillus genomes have told usW 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... - Structural flexibility in the Burkholderia mallei genomeWilliam 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... - 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... - Complete genome sequence of Caulobacter crescentusW 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.... - Phylogenomics of the reproductive parasite Wolbachia pipientis wMel: a streamlined genome overrun by mobile genetic elementsMartin 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... - Genomics of Aspergillus fumigatusCatherine 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... - The complete genome sequence of Chlorobium tepidum TLS, a photosynthetic, anaerobic, green-sulfur bacteriumJonathan 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... - Bacterial genome adaptation to niches: divergence of the potential virulence genes in three Burkholderia species of different survival strategiesH 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... - Genome sequence of Theileria parva, a bovine pathogen that transforms lymphocytesMalcolm 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... - Transcriptional divergence of the duplicated oxidative stress-responsive genes in the Arabidopsis genomeH Stanley Kim
The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
Plant J 41:212-20. 2005.... - Human, mouse, and rat genome large-scale rearrangements: stability versus speciationShaying Zhao
Institute for Genomic Research, Rockville, Maryland 20850, USA
Genome Res 14:1851-60. 2004.... - The genome sequence of Bacillus anthracis Ames and comparison to closely related bacteriaTimothy 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... - Genetic and phenotypic diversity in Burkholderia: contributions by prophage and phage-like elementsCatherine 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... - The power in comparisonWilliam C Nierman
The Institute for Genomic Research, Rockville, MD 20850, USA
Trends Microbiol 12:62-3. 2004 - Genomics for applied microbiologyWilliam C Nierman
Institute for Genomic Research, 9712 Medical Center Drive, Rockville, Maryland 20850, USA
Adv Appl Microbiol 51:201-45. 2002 
Using aCGH to study intraspecific genetic variability in two pathogenic molds, Aspergillus fumigatus and Aspergillus flavusNatalie 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...- Effect of competition on the production and activity of secondary metabolites in Aspergillus speciesLiliana 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... - Type VI secretion is a major virulence determinant in Burkholderia malleiMark 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... - Gene profiling for studying the mechanism of aflatoxin biosynthesis in Aspergillus flavus and A. parasiticusJiujiang 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... - Origin and distribution of epipolythiodioxopiperazine (ETP) gene clusters in filamentous ascomycetesNicola 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... - Sub-telomere directed gene expression during initiation of invasive aspergillosisAndrew McDonagh
Department of Microbiology, Imperial College London, London, United Kingdom
PLoS Pathog 4:e1000154. 2008.... - Impaired ribosome biogenesis disrupts the integration between morphogenesis and nuclear duplication during the germination of Aspergillus fumigatusRuchi 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... - Genomic islands in the pathogenic filamentous fungus Aspergillus fumigatusNatalie D Fedorova
The J Craig Venter Institute, Rockville, Maryland, United States of America
PLoS Genet 4:e1000046. 2008.... - Characterization of clinically-attenuated Burkholderia mallei by whole genome sequencing: candidate strain for exclusion from Select Agent listsSteven 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... - SreA-mediated iron regulation in Aspergillus fumigatusMarkus 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... - Elucidation of the functional genomics of antioxidant-based inhibition of aflatoxin biosynthesisJong 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... - Transcriptional regulation of chemical diversity in Aspergillus fumigatus by LaeARobyn 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... - Sequence and annotation of the 369-kb NY-2A and the 345-kb AR158 viruses that infect Chlorella NC64ALisa 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... - Cloning and characterization of a gene cluster for geldanamycin production in Streptomyces hygroscopicus NRRL 3602Andreas Rascher
Kosan Biosciences, 3832 Bay Center Place, 94545, Hayward, CA, USA
FEMS Microbiol Lett 218:223-30. 2003..geldanus NRRL 3602... - Genome sequence of the Brown Norway rat yields insights into mammalian evolutionRichard 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 <http://www.hgsc.bcm.tmc.edu
Nature 428:493-521. 2004.... - The Aspergillus fumigatus StuA protein governs the up-regulation of a discrete transcriptional program during the acquisition of developmental competenceDonald 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... - Sequencing of Aspergillus nidulans and comparative analysis with A. fumigatus and A. oryzaeJames 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... - Genome sequencing and analysis of Aspergillus oryzaeMasayuki 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... - The aflatoxin pathway regulator AflR induces gene transcription inside and outside of the aflatoxin biosynthetic clusterMichael 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... - Aspergillus flavus genomics: gateway to human and animal health, food safety, and crop resistance to diseasesJiujiang 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... - Transcriptome analysis of Aspergillus fumigatus exposed to voriconazoleMárcia 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.... - Genome-wide expression analysis of iron regulation in Burkholderia pseudomallei and Burkholderia mallei using DNA microarraysApichai 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... - A physical map of the mouse genomeSimon 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... - Burkholderia pseudomallei genome plasticity associated with genomic island variationSarinna 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... - Aspergillus flavus expressed sequence tags for identification of genes with putative roles in aflatoxin contamination of cropsJiujiang 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... - Complete genome sequence of the broad-host-range vibriophage KVP40: comparative genomics of a T4-related bacteriophageEric 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 Grants
- The Transcriptome of Pathogenic Aspergillus FumigatusWilliam Nierman; Fiscal Year: 2003..abstract_text> ..
- Microarray Expression Analysis of Burkholderia MalleiWilliam 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. ..
- Regulation of Burkholderia mallei virulence genesWilliam 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. ..
- Host-Pathogen Interactions in Invasive AspergillosisWilliam 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- ..
- Host-Pathogen Interactions in Invasive AspergillosisWILLIAM 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- ..