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The Genome Canada Competition II FPMI Project has concluded. These pages will be maintained for archival purposes. For information on the Competition III Pathogenomics of Innate Immunite (PI2) Project, please visit www.pathogenomics.ca

 

Publications associated with the project (2003 - present)

 

   
 
  • Hodgson PD, Aich P, Manuja A, Hokamp K, Roche FM, Brinkman FSL, Potter A, Babiuk LA, Griebel PJ. (2005). Effect of Stress on Viral-Bacterial Synergy in Bovine Respiratory Disease: Novel Mechanisms to Regulate Inflammation. Comp Funct Genom. In Press
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  •  Bowdish, D.M.E., D.J. Davidson, M.G. Scott, and R.E.W. Hancock. (2005). Immunomodulatory Activities of Small Host Defence Peptides. Antimicrob. Agents Chemother. In press.
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  • Coombes, B.K., M.E. Wickham, N.F. Brown, S. Lemire, L. Bossi, W.W.L. Hsiao, F.S.L. Brinkman, B.B. Finlay (2005). Genetic and molecular analysis of GogB, a phage-encoded type III-secreted substrate in Salmonella enterica serovar Typhimurium with autonomous expression from its associated phage. Journal of Molecular Biology 348:817-830.
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  • Wilson H.L., Aich P., Roche F.M., Jalal S., Hodgson P.D., Brinkman, F.S.L. Potter A.A., Babiuk L.A., and Griebel P. (2005). Molecular Analyses of Disease Pathogenesis: Application of Bovine Microarrays. Vet Immunol Immunopathol. 105(3-4):277-87.
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  • Bowdish DM, Davidson DJ, Lau YE, Lee K, Scott MG, Hancock RE. (2005). Impact of LL-37 on anti-infective immunity J Leukoc Biol. 77(4):451-9. Epub 2004 Nov 29.
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  • Aich P, H Wilson. NA Rawlyk, S Jalal, R Kaushik, A Begg, AA Potter, LA Babiuk, MS Abrahamsen, and P. Griebel. (2005). Microarray analysis of gene expression following preparation of sterile intestinal "loops" in calves. Cdn J Animal Sci. 85(1): 13-22
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  • Bowdish DM, Davidson DJ, Hancock RE. (2005). A re-evaluation of the role of host defence peptides in mammalian immunity. Curr Protein Pept Sci. 6(1):35-51.
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  • Dar A., S. Munir, S. Vishwanathan, A. Manuja, P. Griebel, S. Tikoo, A.A. Potter, V. Kapur, and L.A. Babiuk. (2005). Transcriptional analysis of avian embryonic tissues following infection with avian infectious bronchitis virus. Virus Research. In press (accepted for Publication Jan 4, 2005)
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  • Lewenza S, Falsafi RK, Winsor G, Gooderham WJ, McPhee JB, Brinkman FS, Hancock RE. (2005). Construction of a mini-Tn5-luxCDABE mutant library in Pseudomonas aeruginosa PAO1: a tool for identifying differentially regulated genes. Genome Res. 15(4):583-9.
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  • Lewenza, S., J.L. Gardy, F.S.L. Brinkman and R.E.W. Hancock. (2005). Genome-wide identification of Pseudomonas aeruginosa exported proteins using a consensus computational strategy combined with a laboratory-based PhoA fusion screen. Genome Res. 15:321-329.
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  • Rey, S., M. Acab, J.L. Gardy, M.R. Laird, K. deFays, C. Lambert, and F.S.L. Brinkman. (2005). PSORT-DB: A Database of Subcellular Localizations for Bacteria. Nucleic Acids Research. 33:D164-168.
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  • Winsor GL, Lo R, Sui SJ, Ung KS, Huang S, Cheng D, Ching WK, Hancock RE, Brinkman FS (2005). Pseudomonas aeruginosa Genome Database and PseudoCAP: facilitating community-based, continually updated, genome annotation. Nucleic Acids Res. 33(Database issue):D338-43
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  • Davidson, D.J., A.J. Currie, G. Reid, D.M.E. Bowdish, K. MacDonald, R. Ma, R.E.W. Hancock, and D.P. Speert. (2004). The cationic antimicrobial peptide LL-37 modulates dendritic cell development and DC-induced T cell polarisation. J. Immunol. 172:1146-1156.
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  • Lau, Y. E., A. Rozek, M.G. Scott, D.G. Goosney, D.L. Davidson, and R.E.W. Hancock. (2004). Interaction and cellular localization of the human host defense peptide, LL-37, with lung epithelial cells. Infection and Immunity 73:583-591.
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  • McPhee, J.B. M.G. Scott, and R.E.W. Hancock (2004). Design of host defence peptides for antimicrobial and immunity enhancing activities. Combinat. Chem. High Throughput Screening. 8:257-272.
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  • Roche, F.M. K. Hokamp, M. Acab, L.A. Babiuk, R.E.W. Hancock, and F.S.L. Brinkman (2004). ProbeLynx: A tool for updating the association of microarray probes to genes. Nucleic Acids Research 32:W471-4.
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  • Cherkasov A, Ho Sui SJ, Brunham RC, Jones SJM. (2004). Structural characterization of genomes by large scale sequence-structure threading: application of reliability analysis in structural genomics. BMC Bioinformatics 5:101-111.
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  • Hokamp, K., F.M. Roche, M. Acab, M.-E. Rousseau, B. Kuo, D. Goode, D. Aeschliman, J. Bryan, L.A. Babiuk, R.E.W. Hancock, and F.S.L. Brinkman. (2004). ArrayPipe: a flexible processing pipeline for microarray data. Nucleic Acids Research. 32:W457-9.
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  • Cherkasov A, Jones SJM. (2004). An approach to large scale identification of non-obvious structural similarities between proteins. BMC Bioinformatics 5:61-72.
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  • Cherkasov A, Jones SJM. (2004). Structural characterization of genomes by threading. BMC Bioinformatics 5:37-53.
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  • Warren, R., W.W.L. Hsiao, H. Kudo, M. Myhre, M. Dosanjh, A. Petrescu, H. Kobayashi, S. Shimizu, K. Miyauchi, E. Masai, G. Yang, J.M. Stott, J.E. Schein, H. Shin, J. Khattra, D. Smailus, R. Holt, S. Jones, W.W. Mohn, F.S.L. Brinkman, M. Fukuda, J. Davies, and L.D. Eltis. (2004). Functional Characterization of a Catabolic Plasmid from PCB-Degrading Rhodococcus sp. RHA1. Journal of Bacteriology. 186:7783-7795.
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  • Carrillo, CD, Taboada E, Nash J, Lanthier P, Kelly J, Lau P, Verhulp R, Mykytczuk O, Sy J, Findlay W, Amoako K, Gomis S, Willson P, Austin JW, Potter A, Babiuk LA, Allan B and Szymanski CM. (2004). Genome-wide expression analyses of Campylobacter jejuni NCTC11168 reveals coordinate regulation of motility and virulence by flhA. J. Biol.Chem. 279: 20327-20338.
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  • #Pollard AJ, Currie A, Rosenberger C, Heale J-P, Finlay BB, and Speert DP. (2004). Differential post-transcriptional activation of human phagocytes by different Pseudomonas aeruginosa isolates. Cell Microbiol. 6: 639-651.
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  • Hardwidge PR, Rodriguez-Escudero I, Goode D, Donohoe S, Eng J, Goodlett DR, Aebersold R, and Finlay BB. (2004). Proteomic analysis of the intestinal epithelial cell response to enteropathogenic Escherichia coli. J. Biol. Chem. 279: 20127-20136.
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  • Deng W, Puente JL, Gruenheid S, Li Y, Vallance BA, Vázquez A, Barba J, Ibarra A, O'Donnell, Metalnikov P, Ashman K, Lee S, Goode D, Pawson T, and Finlay BB. (2004). Dissecting virulence: systemic and functional analyses of a pathogenicity island. PNAS, 101(10):3597-602. Epub 2004 Feb 26.
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  • Finlay BB and Hancock REW. (2004). Can innate immunity be enhanced to treat microbial infections? Nature Rev. Microbiol. 2:497-504.
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  • Rosenberger CM, Gallo R, and Finlay BB. (2004). Interplay between antibacterial effectors: a macrophage antimicrobial peptide impairs intracellular Salmonella replication. PNAS, 101(8):2422-7.
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  • Bowdish DME, Davidson DJ, Speert DP and Hancock REW. (2004). The human cationic peptide LL-37 induces activation of the extracellular signal regulated kinase and p38 kinase pathways in primary human monocytes. J. Immunology 172:3758-3765.
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  • Rosenberger, C.M. and B.B. Finlay. (2003). Phagocyte sabotage: disruption of macrophage signalling by bacterial pathogens. Nature Rev. Mol. Cell Biol. 4:385-396.
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  • Hsiao, W., I. Wan, S.J.Jones, and F.S.L. Brinkman. (2003). IslandPath: aiding detection of genomic islands in prokaryotes. Bioinformatics 19(3):418-420.
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  • #Hassett DJ, Limbach PA, Hennigan RF, Klose KE, Hancock REW, Platt MD, Hunt DF. (2003). Bacterial biofilms of importance to medicine and bioterrorism: proteomic techniques to identify novel vaccine components and drug target. Exp. Opin. Biol. Ther. 3: 1201-1207.
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  • #McPhee JB, Lewenza S, Hancock REW. (2003). Cationic antimicrobial peptides activate a two-component regulatory system, PmrA-PmrB, that regulates resistance to polymyxin B and cationic antimicrobial peptides in Pseudomonas aeruginosa. Mol Microbiol. 50:205-17.
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  • #Rosenberger CM and Finlay BB. (2003). Phagocyte sabotage: disruption of macrophage signalling by bacterial pathogens. Nat Rev Mol Cell Biol. 4:385-96.
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       # indicates early work, related to FPMI, which do not acknowledge FPMI support
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    Books
       
     
  • Brinkman, F.S.L. (2005). Phylogenetic analysis of BLAST results In M. Dunn Encyclopedia of Genetics, Genomics, Proteomics and Bioinformatics. John Wiley & Sons. In Press.
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  • Brinkman FSL, Fueyo JL. (2004). Bioinformatics and Microbial Pathogenesis. In C.M. Fraser, K.E. Nelson, and T.M. Read (ed.), Microbial Genomics. Humana Press Inc., USA.
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  • Devine, DA, and Hancock, REW, eds. (2004). Mammalian host defence peptides. pp. 1-4 Cambridge University Press, NY. Includes an editorial Hancock, REW and Devine DA. “Antimicrobial” or “host defence” peptides.
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  • Coombs PA, Hardwidge PR and Finlay BB. (2004). Interpreting the host-pathogen dialogue through microarrays. Adv. Appl. Microbiol. In Press.
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    Please see also Events for public lectures and poster presentations.

    © 2002 Functional Pathogenomics of Mucosal Immunity . . . A Genome Prairie Project