David A Fitzpatrick

Summary

Affiliation: University College Dublin
Country: Ireland

Publications

  1. pmc Evidence of recent interkingdom horizontal gene transfer between bacteria and Candida parapsilosis
    David A Fitzpatrick
    School of Biomolecular and Biomedical Science, Conway Institute, University College, Dublin, Belfield, Dublin 4, Ireland
    BMC Evol Biol 8:181. 2008
  2. pmc A fungal phylogeny based on 42 complete genomes derived from supertree and combined gene analysis
    David A Fitzpatrick
    School of Biomolecular and Biomedical Science, Conway Institute, University College Dublin, Belfield, Dublin 4, Ireland
    BMC Evol Biol 6:99. 2006
  3. pmc Multiple lineage specific expansions within the guanylyl cyclase gene family
    David A Fitzpatrick
    Biology Department, National University of Ireland Maynooth, Maynooth, Co Kildare, Ireland
    BMC Evol Biol 6:26. 2006
  4. ncbi Lines of evidence for horizontal gene transfer of a phenazine producing operon into multiple bacterial species
    David A Fitzpatrick
    Department of Biology, National University of Ireland, Maynooth, Co Kildare, Ireland
    J Mol Evol 68:171-85. 2009
  5. pmc Gene and genome trees conflict at many levels
    Leanne S Haggerty
    Department of Biology, The National University of Ireland, Maynooth, County Kildare, Ireland
    Philos Trans R Soc Lond B Biol Sci 364:2209-19. 2009
  6. ncbi Genome phylogenies indicate a meaningful alpha-proteobacterial phylogeny and support a grouping of the mitochondria with the Rickettsiales
    David A Fitzpatrick
    Department of Biology, National University of Ireland, Maynooth, County Kildare, Ireland
    Mol Biol Evol 23:74-85. 2006
  7. ncbi Evidence of positive Darwinian selection in putative meningococcal vaccine antigens
    David A Fitzpatrick
    Department of Biology, National University of Ireland, Maynooth, Co Kildare, Ireland
    J Mol Evol 61:90-8. 2005
  8. pmc Does a tree-like phylogeny only exist at the tips in the prokaryotes?
    Christopher J Creevey
    Bioinformatics and Pharmacogenomics Laboratory, Department of Biology, National University of Ireland Maynooth, Maynooth, Co Kildare, Ireland
    Proc Biol Sci 271:2551-8. 2004
  9. pmc Evolution of pathogenicity and sexual reproduction in eight Candida genomes
    Geraldine Butler
    UCD School of Biomolecular and Biomedical Science, Conway Institute, University College Dublin, Belfield, Dublin 4, Ireland
    Nature 459:657-62. 2009
  10. pmc Genomic and proteomic dissection of the ubiquitous plant pathogen, Armillaria mellea: toward a new infection model system
    CASSANDRA COLLINS
    Department of Biology, National University of Ireland Maynooth, Maynooth, Co Kildare, Ireland
    J Proteome Res 12:2552-70. 2013

Detail Information

Publications25

  1. pmc Evidence of recent interkingdom horizontal gene transfer between bacteria and Candida parapsilosis
    David A Fitzpatrick
    School of Biomolecular and Biomedical Science, Conway Institute, University College, Dublin, Belfield, Dublin 4, Ireland
    BMC Evol Biol 8:181. 2008
    ..We refer to these as CTG species because they translate the CTG codon as serine rather than leucine, and share a recent common ancestor...
  2. pmc A fungal phylogeny based on 42 complete genomes derived from supertree and combined gene analysis
    David A Fitzpatrick
    School of Biomolecular and Biomedical Science, Conway Institute, University College Dublin, Belfield, Dublin 4, Ireland
    BMC Evol Biol 6:99. 2006
    ..As a tool for future comparative, phylogenomic and phylogenetic studies, we used both supertrees and concatenated alignments to infer relationships between 42 species of fungi for which complete genome sequences are available...
  3. pmc Multiple lineage specific expansions within the guanylyl cyclase gene family
    David A Fitzpatrick
    Biology Department, National University of Ireland Maynooth, Maynooth, Co Kildare, Ireland
    BMC Evol Biol 6:26. 2006
    ..The complete genomes of several vertebrate and invertebrate species are now available. These data provide a platform to investigate the evolution of GCs across a diverse range of animal phyla...
  4. ncbi Lines of evidence for horizontal gene transfer of a phenazine producing operon into multiple bacterial species
    David A Fitzpatrick
    Department of Biology, National University of Ireland, Maynooth, Co Kildare, Ireland
    J Mol Evol 68:171-85. 2009
    ..The acquisition of an antibiotic-associated operon is significant, as it may increase the relative fitness of the recipient species...
  5. pmc Gene and genome trees conflict at many levels
    Leanne S Haggerty
    Department of Biology, The National University of Ireland, Maynooth, County Kildare, Ireland
    Philos Trans R Soc Lond B Biol Sci 364:2209-19. 2009
    ..We examine 27 closely related genomes from the YESS group of gamma proteobacteria and a variety of four-taxon datasets from a diverse range of prokaryotes in order to explore the kinds of effects HGT has had on these organisms...
  6. ncbi Genome phylogenies indicate a meaningful alpha-proteobacterial phylogeny and support a grouping of the mitochondria with the Rickettsiales
    David A Fitzpatrick
    Department of Biology, National University of Ireland, Maynooth, County Kildare, Ireland
    Mol Biol Evol 23:74-85. 2006
    ..This alignment infers that the sister group of the mitochondria, for the taxa that have been sampled, is the order Rickettsiales...
  7. ncbi Evidence of positive Darwinian selection in putative meningococcal vaccine antigens
    David A Fitzpatrick
    Department of Biology, National University of Ireland, Maynooth, Co Kildare, Ireland
    J Mol Evol 61:90-8. 2005
    ....
  8. pmc Does a tree-like phylogeny only exist at the tips in the prokaryotes?
    Christopher J Creevey
    Bioinformatics and Pharmacogenomics Laboratory, Department of Biology, National University of Ireland Maynooth, Maynooth, Co Kildare, Ireland
    Proc Biol Sci 271:2551-8. 2004
    ..This approach will help decide the extent to which we can say that there is a prokaryotic phylogeny and where in the phylogeny a cohesive genomic signal exists...
  9. pmc Evolution of pathogenicity and sexual reproduction in eight Candida genomes
    Geraldine Butler
    UCD School of Biomolecular and Biomedical Science, Conway Institute, University College Dublin, Belfield, Dublin 4, Ireland
    Nature 459:657-62. 2009
    ..Analysis of the CUG leucine-to-serine genetic-code change reveals that 99% of ancestral CUG codons were erased and new ones arose elsewhere. Lastly, we revise the Candida albicans gene catalogue, identifying many new genes...
  10. pmc Genomic and proteomic dissection of the ubiquitous plant pathogen, Armillaria mellea: toward a new infection model system
    CASSANDRA COLLINS
    Department of Biology, National University of Ireland Maynooth, Maynooth, Co Kildare, Ireland
    J Proteome Res 12:2552-70. 2013
    ..mellea proteins (n = 30). Overall, our data reveal new insights into the origin of basidiomycete virulence and we present a new model system for further studies aimed at deciphering fungal pathogenic mechanisms...
  11. ncbi The molecular phylogeny of a nematode-specific clade of heterotrimeric G-protein alpha-subunit genes
    Damien M O'Halloran
    Biology Department, National University of Ireland Maynooth, Maynooth, Co Kildare, Ireland
    J Mol Evol 63:87-94. 2006
    ..This neuronal gene expansion most likely occurred in nematodes to enable them to compensate for the small number of chemosensory cells and the limited emphasis on cephalization during nematode evolution...
  12. pmc Analysis of gene evolution and metabolic pathways using the Candida Gene Order Browser
    David A Fitzpatrick
    UCD School of Biomolecular and Biomedical Science, Conway Institute, University College Dublin, Belfield, Dublin 4, Ireland
    BMC Genomics 11:290. 2010
    ..Saccharomyces cerevisiae is also included as a reference genome...
  13. ncbi The anhydrobiotic potential and molecular phylogenetics of species and strains of Panagrolaimus (Nematoda, Panagrolaimidae)
    Adam J Shannon
    Institute of Bioengineering and Agroecology, Department of Biology, National University of Ireland Maynooth, Maynooth, Co Kildare, Ireland
    J Exp Biol 208:2433-45. 2005
    ..Our data indicate that Panagrolaimus has the potential to be an excellent model system for the investigation of molecular aspects of nematode anhydrobiosis...
  14. pmc A pluralistic account of homology: adapting the models to the data
    Leanne S Haggerty
    Bioinformatics and Molecular Evolution Unit, Department of Biology, National University of Ireland Maynooth, Maynooth, Co Kildare, Ireland
    Mol Biol Evol 31:501-16. 2014
    ....
  15. ncbi Evidence of positive Darwinian selection in Omp85, a highly conserved bacterial outer membrane protein essential for cell viability
    David A Fitzpatrick
    Department of Biology, National University of Ireland, Maynooth, Country Kildare, Ireland
    J Mol Evol 60:268-73. 2005
    ..Alternatively amino acids within membrane-spanning regions of the protein are found to be under purifying selection most likely as a result of structural constraints...
  16. ncbi Evaluation of whether accelerated protein evolution in chordates has occurred before, after, or simultaneously with gene duplication
    Catrióna R Johnston
    UCD Conway Institute for Biomolecular and Biomedical Research, University College Dublin, Belfield, Dublin 4, Ireland
    Mol Biol Evol 24:315-23. 2007
    ....
  17. pmc Fatty acid biosynthesis in Mycobacterium tuberculosis: lateral gene transfer, adaptive evolution, and gene duplication
    Rhoda J Kinsella
    Bioinformatics and Pharmacogenomics Laboratory, Biology Department, National University of Ireland, Maynooth, County Kildare, Ireland
    Proc Natl Acad Sci U S A 100:10320-5. 2003
    ..Additionally, adaptive evolution and gene duplication have been an influence in the evolution of the pathway. This study provides a key insight into how M. tuberculosis has developed its unique fatty acid synthetic abilities...
  18. pmc Global transcript and phenotypic analysis of yeast cells expressing Ssa1, Ssa2, Ssa3 or Ssa4 as sole source of cytosolic Hsp70-Ssa chaperone activity
    Naushaba Hasin
    Yeast Genetics Laboratory, Department of Biology, National University of Ireland Maynooth, Maynooth, County Kildare, Ireland
    BMC Genomics 15:194. 2014
    ..Additionally we also analysed the global gene expression patterns in yeast strains expressing individual Ssa proteins, using microarray and RT-qPCR analysis...
  19. ncbi Epidemiological and virological investigations of equine influenza outbreaks in Ireland (2010-2012)
    Sarah Gildea
    Virology Unit, The Irish Equine Centre, Johnstown, Naas, Co Kildare, Ireland
    Influenza Other Respir Viruses 7:61-72. 2013
    ..Outbreaks of equine influenza (EI) in endemic populations cause disruption and economic loss...
  20. pmc Molecular characterization of an adaptive response to alkylating agents in the opportunistic pathogen Aspergillus fumigatus
    Karen A O'Hanlon
    Biotechnology Laboratory, Department of Biology, National University of Ireland, Maynooth, County Kildare, Ireland
    Nucleic Acids Res 40:7806-20. 2012
    ..Our data constitute the first detailed characterization of the molecular mechanism of the adaptive response in a lower eukaryote and has applications for development of novel fungal therapeutics targeting this DNA repair system...
  21. doi Horizontal gene transfer in fungi
    David A Fitzpatrick
    Genome Evolution Laboratory, Department of Biology, The National University of Ireland Maynooth, Maynooth, Ireland
    FEMS Microbiol Lett 329:1-8. 2012
    ..I will highlight a number of fungal HGT events and discuss the impact they have played on fungal evolution and discuss the implications HGT may have on the fungal tree of life...
  22. doi Evolution of flower shape in Plantago lanceolata
    Wesley Reardon
    Department of Biology, National University of Ireland, Maynooth, Co Kildare, Ireland
    Plant Mol Biol 71:241-50. 2009
    ..PlCYC is expressed in the inflorescence stem, in pedicels, and relatively late in stamen development, suggesting a novel role for PlCYC in compacting the inflorescence and retarding stamen elongation in this wind pollinated species...
  23. doi Different outcomes for the MYB floral symmetry genes DIVARICATA and RADIALIS during the evolution of derived actinomorphy in Plantago
    Wesley Reardon
    Department of Biology, National University of Ireland Maynooth, Maynooth, Co Kildare, Ireland
    New Phytol 202:716-25. 2014
    ..These results indicate that evolution of derived actinomorphy in Plantago involved complete loss of dorsal gene function, resulting in expansion of the domain of expression of the ventral class of floral symmetry genes. ..
  24. pmc Investigating the Relationship between Topology and Evolution in a Dynamic Nematode Odor Genetic Network
    David A Fitzpatrick
    Genome Evolution Laboratory, Department of Biology, National University of Ireland Maynooth, Maynooth, Co Kildare, Ireland
    Int J Evol Biol 2012:548081. 2012
    ..Our data helps guide the development of a robust evolutionary description of the nematode odor network that may eventually aid in the prediction of interactive and functional qualities of novel nodes...
  25. pmc Assessment of inactivating stop codon mutations in forty Saccharomyces cerevisiae strains: implications for [PSI] prion- mediated phenotypes
    David A Fitzpatrick
    Genome Evolution Laboratory, Department of Biology, National University of Ireland Maynooth, Maynooth, County Kildare, Ireland
    PLoS ONE 6:e28684. 2011
    ....