Julie C Dunning Hotopp

Summary

Affiliation: University of Maryland
Country: USA

Publications

  1. ncbi request reprint Biology wars: the eukaryotes strike back
    Julie C Dunning Hotopp
    Institute for Genome Sciences, School of Medicine, University of Maryland, Baltimore, Baltimore, MD 21201, USA Department of Microbiology and Immunology, School of Medicine, University of Maryland, Baltimore, Baltimore, MD 21201, USA Electronic address
    Cell Host Microbe 16:701-3. 2014
  2. ncbi request reprint Extensive duplication of the Wolbachia DNA in chromosome four of Drosophila ananassae
    Lisa Klasson
    Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD 21201, USA
    BMC Genomics 15:1097. 2014
  3. ncbi request reprint Single molecule sequencing and genome assembly of a clinical specimen of Loa loa, the causative agent of loiasis
    Luke J Tallon
    Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD, USA
    BMC Genomics 15:788. 2014
  4. ncbi request reprint Rapid transcriptome sequencing of an invasive pest, the brown marmorated stink bug Halyomorpha halys
    Panagiotis Ioannidis
    Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD, USA
    BMC Genomics 15:738. 2014
  5. pmc Extensively duplicated and transcriptionally active recent lateral gene transfer from a bacterial Wolbachia endosymbiont to its host filarial nematode Brugia malayi
    Panagiotis Ioannidis
    Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD, USA
    BMC Genomics 14:639. 2013
  6. pmc Phenotypic, genomic, and transcriptional characterization of Streptococcus pneumoniae interacting with human pharyngeal cells
    Sheila Z Kimaro Mlacha
    Kenya Medical Research Institute, Wellcome Trust Research Programme, Kilifi, Kenya
    BMC Genomics 14:383. 2013
  7. pmc Transcriptional adaptation of pneumococci and human pharyngeal cells in the presence of a virus infection
    Sheila Z Kimaro Mlacha
    Kenya Medical Research Institute, Wellcome Trust Research Programme, Kilifi, Kenya
    BMC Genomics 14:378. 2013
  8. pmc Structure and dynamics of the pan-genome of Streptococcus pneumoniae and closely related species
    Claudio Donati
    Novartis Vaccines and Diagnostics, Via Fiorentina 1, 53100 Siena, Italy
    Genome Biol 11:R107. 2010
  9. pmc Improving pan-genome annotation using whole genome multiple alignment
    Samuel V Angiuoli
    Center for Bioinformatics and Computational Biology, University of Maryland, College Park, MD 20742, USA
    BMC Bioinformatics 12:272. 2011
  10. pmc Horizontal gene transfer between bacteria and animals
    Julie C Dunning Hotopp
    Institute for Genome Science, Department of Microbiology and Immunology, University of Maryland School of Medicine, Baltimore, MD 21201, USA
    Trends Genet 27:157-63. 2011

Collaborators

Detail Information

Publications20

  1. ncbi request reprint Biology wars: the eukaryotes strike back
    Julie C Dunning Hotopp
    Institute for Genome Sciences, School of Medicine, University of Maryland, Baltimore, Baltimore, MD 21201, USA Department of Microbiology and Immunology, School of Medicine, University of Maryland, Baltimore, Baltimore, MD 21201, USA Electronic address
    Cell Host Microbe 16:701-3. 2014
    ..2014) and Metcalf et al. (2014) report multiple HGTs of bacterial tae and lysozyme genes, respectively, to diverse eukaryotic and archaeal hosts that may complement their response to bacteria. ..
  2. ncbi request reprint Extensive duplication of the Wolbachia DNA in chromosome four of Drosophila ananassae
    Lisa Klasson
    Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD 21201, USA
    BMC Genomics 15:1097. 2014
    ..Lateral gene transfer (LGT) from bacterial Wolbachia endosymbionts has been detected in ~20% of arthropod and nematode genome sequencing projects. Many of these transfers are large and contain a substantial part of the Wolbachia genome...
  3. ncbi request reprint Single molecule sequencing and genome assembly of a clinical specimen of Loa loa, the causative agent of loiasis
    Luke J Tallon
    Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD, USA
    BMC Genomics 15:788. 2014
    ..However, the Pacific Biosciences single molecule, real-time sequencing platform holds great promise in reducing input amounts and generating sufficiently long sequences that bypass the need for large insert paired libraries...
  4. ncbi request reprint Rapid transcriptome sequencing of an invasive pest, the brown marmorated stink bug Halyomorpha halys
    Panagiotis Ioannidis
    Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD, USA
    BMC Genomics 15:738. 2014
    ..Despite its significance as an agricultural pest with limited control options, only 100 bp of BMSB sequence data was available in public databases when this project began...
  5. pmc Extensively duplicated and transcriptionally active recent lateral gene transfer from a bacterial Wolbachia endosymbiont to its host filarial nematode Brugia malayi
    Panagiotis Ioannidis
    Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD, USA
    BMC Genomics 14:639. 2013
    ..Since extensive lateral gene transfer occurs frequently between Wolbachia and its hosts, we sought to measure the extent of such LGT in B. malayi by whole genome sequencing of Wolbachia-depleted worms...
  6. pmc Phenotypic, genomic, and transcriptional characterization of Streptococcus pneumoniae interacting with human pharyngeal cells
    Sheila Z Kimaro Mlacha
    Kenya Medical Research Institute, Wellcome Trust Research Programme, Kilifi, Kenya
    BMC Genomics 14:383. 2013
    ..Understanding the molecular interactions between the bacterium and the host will contribute to the control and prevention of pneumococcal disease...
  7. pmc Transcriptional adaptation of pneumococci and human pharyngeal cells in the presence of a virus infection
    Sheila Z Kimaro Mlacha
    Kenya Medical Research Institute, Wellcome Trust Research Programme, Kilifi, Kenya
    BMC Genomics 14:378. 2013
    ..The objective of this study is to describe a comprehensive picture of the cellular interaction between the adhering bacteria and host cells in the presence or absence of a viral co-infection...
  8. pmc Structure and dynamics of the pan-genome of Streptococcus pneumoniae and closely related species
    Claudio Donati
    Novartis Vaccines and Diagnostics, Via Fiorentina 1, 53100 Siena, Italy
    Genome Biol 11:R107. 2010
    ..Streptococcus pneumoniae is one of the most important causes of microbial diseases in humans. The genomes of 44 diverse strains of S. pneumoniae were analyzed and compared with strains of non-pathogenic streptococci of the Mitis group...
  9. pmc Improving pan-genome annotation using whole genome multiple alignment
    Samuel V Angiuoli
    Center for Bioinformatics and Computational Biology, University of Maryland, College Park, MD 20742, USA
    BMC Bioinformatics 12:272. 2011
    ..Genome annotations can contain inconsistencies and errors that hinder comparative analysis even within a single species. Tools are needed to compare and improve annotation quality across sets of closely related genomes...
  10. pmc Horizontal gene transfer between bacteria and animals
    Julie C Dunning Hotopp
    Institute for Genome Science, Department of Microbiology and Immunology, University of Maryland School of Medicine, Baltimore, MD 21201, USA
    Trends Genet 27:157-63. 2011
    ....
  11. pmc A review of bacteria-animal lateral gene transfer may inform our understanding of diseases like cancer
    Kelly M Robinson
    Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, Maryland, United States of America
    PLoS Genet 9:e1003877. 2013
    ....
  12. pmc Efficient subtraction of insect rRNA prior to transcriptome analysis of Wolbachia-Drosophila lateral gene transfer
    Nikhil Kumar
    Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD 21201, USA
    BMC Res Notes 5:230. 2012
    ..Therefore, genomics has greatly increased our understanding of these bacteria. Efficient subtraction methods are needed for removing both bacteria and insect rRNA in these systems to enable transcriptome-based studies...
  13. ncbi request reprint Widespread lateral gene transfer from intracellular bacteria to multicellular eukaryotes
    Julie C Dunning Hotopp
    Institute for Genomic Research, J Craig Venter Institute, 9712 Medical Center Drive, Rockville, MD 20850, USA
    Science 317:1753-6. 2007
    ..Therefore, heritable lateral gene transfer occurs into eukaryotic hosts from their prokaryote symbionts, potentially providing a mechanism for acquisition of new genes and functions...
  14. pmc Using Sybil for interactive comparative genomics of microbes on the web
    David R Riley
    Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD, USA
    Bioinformatics 28:160-6. 2012
    ..In addition to scalability, comparative genomics tools must also provide user-friendly interfaces such that the research scientist can explore complex data with minimal technical expertise...
  15. pmc Bacteria-human somatic cell lateral gene transfer is enriched in cancer samples
    David R Riley
    Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, Maryland, United States of America
    PLoS Comput Biol 9:e1003107. 2013
    ..We anticipate that the application of our approach to additional cancer genome projects will lead to the more frequent detection of bacterial DNA integrations in tumors that are in close proximity to the human microbiome. ..
  16. pmc Streptococcus pneumoniae in biofilms are unable to cause invasive disease due to altered virulence determinant production
    Carlos J Sanchez
    Department of Microbiology and Immunology, The University of Texas Health Science Center at San Antonio, Texas, United States of America
    PLoS ONE 6:e28738. 2011
    ..These studies suggest that biofilms do not directly contribute to development of IPD and may instead confer a quiescent mode of growth during colonization...
  17. pmc Brood ball-mediated transmission of microbiome members in the dung beetle, Onthophagus taurus (Coleoptera: Scarabaeidae)
    Anne M Estes
    Towson University, Department of Biological Sciences, Baltimore, Maryland, United States of America Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, Maryland, United States of America
    PLoS ONE 8:e79061. 2013
    ..The transmission of the dung beetle microbiome highlights the maintenance and likely importance of this newly-characterized bacterial community. ..
  18. pmc Mobile elements and viral integrations prompt considerations for bacterial DNA integration as a novel carcinogen
    Kelly M Robinson
    Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD, USA
    Cancer Lett 352:137-44. 2014
    ..Promising new sequencing technologies may reduce the risk of artifactual chimeric sequences, thus diminishing some of the challenges of identifying novel insertions in the somatic human genome...
  19. pmc Whole-genome association study on tissue tropism phenotypes in group A Streptococcus
    Debra E Bessen
    New York Medical College, Department of Microbiology and Immunology, Valhalla, NY 10595, USA
    J Bacteriol 193:6651-63. 2011
    ..This study employs a novel synthesis of tools to help delineate the major genetic changes associated with key adaptive shifts in an extensively recombined bacterial species...
  20. pmc Comparative genomics of emerging human ehrlichiosis agents
    Julie C Dunning Hotopp
    The Institute for Genomic Research, Rockville, Maryland, USA
    PLoS Genet 2:e21. 2006
    ..These discoveries provide significant insights into the biology of these obligate intracellular pathogens...