selected scholarly activity
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academic article
- Completion of draft bacterial genomes by long-read sequencing of synthetic genomic pools. BMC Genomics. 21:519. 2020
- Assessment of Inter-Laboratory Variation in the Characterization and Analysis of the Mucosal Microbiota in Crohn’s Disease and Ulcerative Colitis. Frontiers in Microbiology. 11. 2020
- Luminal and Mucosal Microbiota of the Cecum and Large Colon of Healthy and Diarrheic Horses. Animals. 10:1403-1403. 2020
- Starving the Gut: A Deficit of Butyrate in the Intestinal Ecosystem of Children With Intestinal Failure. Journal of Parenteral and Enteral Nutrition. 44:1112-1123. 2020
- The Gut Microbiota and Unhealthy Aging: Disentangling Cause from Consequence. Cell Host and Microbe. 28:180-189. 2020
- The gut microbiome and inflammation in obsessive‐compulsive disorder patients compared to age‐ and sex‐matched controls: a pilot study. Acta Psychiatrica Scandinavica. 2020
- Fast I(n)dentification of Pathogens in Neonates (FINDPATH-N): protocol for a prospective pilot cohort study of next-generation sequencing for pathogen identification in neonates with suspected sepsis. BMJ Paediatrics Open. 4:e000651-e000651. 2020
- Gut Microbiome Patterns Associated With Treatment Response in Patients With Major Depressive Disorder. Canadian Journal of Psychiatry. 65:278-280. 2020
- Differences in Gut Microbiota in Patients With vs Without Inflammatory Bowel Diseases: A Systematic Review. Gastroenterology. 158:930-946.e1. 2020
- Type 2 diabetes influences bacterial tissue compartmentalisation in human obesity. Nature Metabolism. 2:233-242. 2020
- Culture-enriched metagenomic sequencing enables in-depth profiling of the cystic fibrosis lung microbiota. Nature Microbiology. 5:379-390. 2020
- Clinical Outcomes Associated With Escherichia coli Infections in Adults With Cystic Fibrosis: A Cohort Study. Open Forum Infectious Diseases. 7:ofz476. 2020
- Cystic Fibrosis Patients Infected With Epidemic Pseudomonas aeruginosa Strains Have Unique Microbial Communities. Frontiers in cellular and infection microbiology. 10:173. 2020
- Epidemiology of E. coli in Cystic Fibrosis Airways Demonstrates the Capacity for Persistent Infection but Not Patient-Patient Transmission. Frontiers in Microbiology. 11:475. 2020
- Vitamin B12 Deficiency Alters the Gut Microbiota in a Murine Model of Colitis. Frontiers in Nutrition. 7:83. 2020
- A longitudinal characterization of the Non-Cystic Fibrosis Bronchiectasis airway microbiome. Scientific Reports. 9:6871. 2019
- Duodenal bacterial proteolytic activity determines sensitivity to dietary antigen through protease-activated receptor-2. Nature Communications. 10:1198. 2019
- Obesity during pregnancy results in maternal intestinal inflammation, placental hypoxia, and alters fetal glucose metabolism at mid-gestation. Scientific Reports. 9:17621. 2019
- Oral selective serotonin reuptake inhibitors activate vagus nerve dependent gut-brain signalling. Scientific Reports. 9:14290. 2019
- The effects of cycled inhaled aztreonam on the cystic fibrosis (CF) lung microbiome. Journal of Cystic Fibrosis. 18:829-837. 2019
- The gut microbiome in psychiatry: A primer for clinicians. Depression and Anxiety. 36:1004-1025. 2019
- Capturing the Resistome: a Targeted Capture Method To Reveal Antibiotic Resistance Determinants in Metagenomes. Antimicrobial Agents and Chemotherapy. 64. 2019
- Medroxyprogesterone acetate alters the vaginal microbiota and microenvironment in women and increases susceptibility to HIV-1 in humanized mice. DMM Disease Models and Mechanisms. 12:dmm039669-dmm039669. 2019
- Loss of Microbial Topography Precedes Infection in Infants. American Journal of Respiratory and Critical Care Medicine. 200:660-662. 2019
- Incidence, impact and natural history of Klebsiella species infections in cystic fibrosis: A longitudinal single center study. Canadian Journal of Respiratory, Critical Care, and Sleep Medicine. 3:148-154. 2019
- Gut Microbiota in Patients With Irritable Bowel Syndrome—A Systematic Review. Gastroenterology. 157:97-108. 2019
- Evaluating probiotics for the prevention of ventilator-associated pneumonia: a randomised placebo-controlled multicentre trial protocol and statistical analysis plan for PROSPECT. BMJ Open. 9:e025228-e025228. 2019
- High‐fat diet intake modulates maternal intestinal adaptations to pregnancy and results in placental hypoxia, as well as altered fetal gut barrier proteins and immune markers. Journal of Physiology. 597:3029-3051. 2019
- Characterizing the gut microbiota in adults with bipolar disorder: a pilot study. Nutritional Neuroscience. 1-8. 2019
- TLR2 Plays a Pivotal Role in Mediating Mucosal Serotonin Production in the Gut. Journal of Immunology. 202:3041-3052. 2019
- Microbe and host interaction in gastrointestinal homeostasis. Psychopharmacology. 236:1623-1640. 2019
- Modulation of Gut Microbiota Composition by Serotonin Signaling Influences Intestinal Immune Response and Susceptibility to Colitis. CMGH Cellular and Molecular Gastroenterology and Hepatology. 7:709-728. 2019
- Bacterial DNA patterns identified using paired-end Illumina sequencing of 16S rRNA genes from whole blood samples of septic patients in the emergency room and intensive care unit. BMC Microbiology. 18:79. 2018
- Commensal microbiota induces colonic barrier structure and functions that contribute to homeostasis. Scientific Reports. 8:14184. 2018
- Impact of CFTR modulation with Ivacaftor on Gut Microbiota and Intestinal Inflammation. Scientific Reports. 8:17834. 2018
- Microbial dysbiosis and mortality during mechanical ventilation: a prospective observational study. Respiratory Research. 19:245. 2018
- Pneumococcal Colonization and the Nasopharyngeal Microbiota of Children in Botswana. Pediatric Infectious Disease Journal. 37:1176-1183. 2018
- Sputum microbiota is predictive of long-term clinical outcomes in young adults with cystic fibrosis. Thorax. 73:1016-1025. 2018
- Molecular Basis for Immunity Protein Recognition of a Type VII Secretion System Exported Antibacterial Toxin. Journal of Molecular Biology. 430:4344-4358. 2018
- Inflammation-related differences in mucosa-associated microbiota and intestinal barrier function in colonic Crohn’s disease. American Journal of Physiology - Gastrointestinal and Liver Physiology. 315:G420-G431. 2018
- The Mla Pathway Plays an Essential Role in the Intrinsic Resistance of Burkholderia cepacia Complex Species to Antimicrobials and Host Innate Components. Journal of Bacteriology. 200. 2018
- Age-Associated Microbial Dysbiosis Promotes Intestinal Permeability, Systemic Inflammation, and Macrophage Dysfunction. Cell Host and Microbe. 23:570-570. 2018
- Transformation of the Anticancer Drug Doxorubicin in the Human Gut Microbiome. ACS Infectious Diseases. 4:68-76. 2018
- Culture and Molecular Profiling of the Respiratory Tract Microbiota. Methods in Molecular Biology. 1849:49-61. 2018
- The murine female intestinal microbiota does not shift throughout the estrous cycle. PLoS ONE. 13:e0200729-e0200729. 2018
- A comprehensive evaluation of the sl1p pipeline for 16S rRNA gene sequencing analysis. Microbiome. 5:100. 2017
- Ethnic and diet-related differences in the healthy infant microbiome. Genome Medicine. 9:32. 2017
- Intrapartum antibiotics for GBS prophylaxis alter colonization patterns in the early infant gut microbiome of low risk infants. Scientific Reports. 7:16527. 2017
- Non-digestible oligosaccharides directly regulate host kinome to modulate host inflammatory responses without alterations in the gut microbiota. Microbiome. 5:135. 2017
- Oral treatment with Lactobacillus rhamnosus attenuates behavioural deficits and immune changes in chronic social stress. BMC Medicine. 15:7. 2017
- The effects of inhaled aztreonam on the cystic fibrosis lung microbiome. Microbiome. 5:51. 2017
- Streptococcus pneumoniae Colonization Is Required To Alter the Nasal Microbiota in Cigarette Smoke-Exposed Mice. Infection and Immunity. 85. 2017
- Lessons from the Environmental Antibiotic Resistome. Annual Review of Microbiology. 71:309-329. 2017
- Functional Enterospheres Derived In Vitro from Human Pluripotent Stem Cells. Stem Cell Reports. 9:897-912. 2017
- The Nasopharyngeal Microbiota of Children With Respiratory Infections in Botswana. Pediatric Infectious Disease Journal. 36:e211-e218. 2017
- How do probiotics and prebiotics function at distant sites?. Beneficial microbes. 8:521-533. 2017
- Probiotic Bifidobacterium longum NCC3001 Reduces Depression Scores and Alters Brain Activity: A Pilot Study in Patients With Irritable Bowel Syndrome. Gastroenterology. 153:448-459.e8. 2017
- The Evolving Cystic Fibrosis Microbiome: A Comparative Cohort Study Spanning 16 Years. Proceedings of the American Thoracic Society. 14:1288-1297. 2017
- A broadly distributed toxin family mediates contact-dependent antagonism between gram-positive bacteria. eLife. 6. 2017
- Kisameet Glacial Clay: an Unexpected Source of Bacterial Diversity. mBio. 8. 2017
- Prevalence and Outcomes of Achromobacter Species Infections in Adults with Cystic Fibrosis: a North American Cohort Study. Journal of Clinical Microbiology. 55:2074-2085. 2017
- Pseudomonas aeruginosa-Derived Rhamnolipids and Other Detergents Modulate Colony Morphotype and Motility in the Burkholderia cepacia Complex. Journal of Bacteriology. 199. 2017
- Effect of freezing sputum on Pseudomonas aeruginosa population heterogeneity. Journal of Cystic Fibrosis. 16:353-357. 2017
- Milk Fat Globule Membrane Supplementation in Formula Modulates the Neonatal Gut Microbiome and Normalizes Intestinal Development. Scientific Reports. 7:45274. 2017
- Age-Associated Microbial Dysbiosis Promotes Intestinal Permeability, Systemic Inflammation, and Macrophage Dysfunction. Cell Host and Microbe. 21:455-466.e4. 2017
- Long-term clinical outcomes of ‘Prairie Epidemic Strain’Pseudomonas aeruginosainfection in adults with cystic fibrosis. Thorax. 72:333-339. 2017
- The gut microbiota and psychiatric illness. Journal of Psychiatry and Neuroscience Psychiatric Journal of the University of Ottawa. 42:75-77. 2017
- Transplantation of fecal microbiota from patients with irritable bowel syndrome alters gut function and behavior in recipient mice. Science Translational Medicine. 9:eaaf6397-eaaf6397. 2017
- Association of high-risk sexual behaviour with diversity of the vaginal microbiota and abundance of Lactobacillus. PLoS ONE. 12:e0187612-e0187612. 2017
- Changes in gut microbiota during development of compulsive checking and locomotor sensitization induced by chronic treatment with the dopamine agonist quinpirole. Behavioural Pharmacology. 29:1-1. 2017
- Longitudinal sampling of the lung microbiota in individuals with cystic fibrosis. PLoS ONE. 12:e0172811-e0172811. 2017
- A comparison of intestinal microbiota in a population of low-risk infants exposed and not exposed to intrapartum antibiotics: The Baby & Microbiota of the Intestine cohort study protocol. BMC Pediatrics. 16:183. 2016
- Brain microbiota disruption within inflammatory demyelinating lesions in multiple sclerosis. Scientific Reports. 6:37344. 2016
- Capturing the diversity of the human gut microbiota through culture-enriched molecular profiling. Genome Medicine. 8:72. 2016
- Probiotics: Prevention of Severe Pneumonia and Endotracheal Colonization Trial—PROSPECT: a pilot trial. Current Controlled Trials in Cardiovascular Medicine Trials. 17:377. 2016
- Reemergence of Lower-Airway Microbiota in Lung Transplant Patients with Cystic Fibrosis. Proceedings of the American Thoracic Society. 13:2132-2142. 2016
- Composition and immunological significance of the upper respiratory tract microbiota. FEBS Letters. 590:3705-3720. 2016
- Harmonization of Food-Frequency Questionnaires and Dietary Pattern Analysis in 4 Ethnically Diverse Birth Cohorts. Journal of Nutrition. 146:2343-2350. 2016
- Duodenal Bacteria From Patients With Celiac Disease and Healthy Subjects Distinctly Affect Gluten Breakdown and Immunogenicity. Gastroenterology. 151:670-683. 2016
- A Modular, Tn7-Based System for Making Bioluminescent or Fluorescent Salmonella and Escherichia coli Strains. Applied and Environmental Microbiology. 82:4931-4943. 2016
- Early life nasal microbiota in infants with cystic fibrosis. The Lancet Respiratory Medicine. 4:595-596. 2016
- Unique microbial-derived volatile organic compounds in portal venous circulation in murine non-alcoholic fatty liver disease. Biochimica et Biophysica Acta - Molecular Basis of Disease. 1862:1337-1344. 2016
- High-intensity exercise training increases the diversity and metabolic capacity of the mouse distal gut microbiota during diet-induced obesity. American Journal of Physiology - Endocrinology and Metabolism. 310:E982-E993. 2016
- Epidemic Pseudomonas aeruginosa infection in patients with cystic fibrosis is not a risk factor for poor clinical Outcomes following lung transplantation. Journal of Cystic Fibrosis. 15:392-399. 2016
- The gut microbiome: Potential innovations for the understanding and treatment of psychopathology.. Canadian Psychology. 57:67-75. 2016
- Understanding the natural history and clinical implications of airways infections in CF — Moving beyond the classics. Journal of Cystic Fibrosis. 15:270-271. 2016
- Histone deacetylase activity and recurrent bacterial bronchitis in severe eosinophilic asthma. Allergy: European Journal of Allergy and Clinical Immunology. 71:571-575. 2016
- Looks Who’s Talking Now. Cell Host and Microbe. 19:429-430. 2016
- Streptococcus pneumoniae Colonization Disrupts the Microbial Community within the Upper Respiratory Tract of Aging Mice. Infection and Immunity. 84:906-916. 2016
- Metabolic and transcriptomic profiling of Streptococcus intermedius during aerobic and anaerobic growth. Metabolomics. 12. 2016
- Development and Validation of a PCR Assay To Detect the Prairie Epidemic Strain of Pseudomonas aeruginosa from Patients with Cystic Fibrosis. Journal of Clinical Microbiology. 54:489-491. 2016
- Assessment of the Microbial Constituents of the Home Environment of Individuals with Cystic Fibrosis (CF) and Their Association with Lower Airways Infections. PLoS ONE. 11:e0148534-e0148534. 2016
- Cyanide Toxicity to Burkholderia cenocepacia Is Modulated by Polymicrobial Communities and Environmental Factors. Frontiers in Microbiology. 7:725. 2016
- Structural & functional consequences of chronic psychosocial stress on the microbiome & host. Psychoneuroendocrinology. 63:217-227. 2016
- The Microbiome. Veterinary Pathology. 53:10-21. 2016
- The sil Locus in Streptococcus Anginosus Group: Interspecies Competition and a Hotspot of Genetic Diversity. Frontiers in Microbiology. 7:2156. 2016
- Clinical implications and characterization of Group A Streptoccoccus infections in adults with cystic fibrosis. BMC Pulmonary Medicine. 15:161. 2015
- Infection control knowledge, beliefs and behaviours amongst cystic fibrosis patients with epidemic Pseudomonas aeruginosa. BMC Pulmonary Medicine. 15:138. 2015
- Probiotics: Prevention of Severe Pneumonia and Endotracheal Colonization Trial—PROSPECT: protocol for a feasibility randomized pilot trial. Pilot and Feasibility Studies. 1:19. 2015
- Reduction in Pseudomonas aeruginosa sputum density during a cystic fibrosis pulmonary exacerbation does not predict clinical response. BMC Infectious Diseases. 15:145. 2015
- The development and application of a molecular community profiling strategy to identify polymicrobial bacterial DNA in the whole blood of septic patients. BMC Microbiology. 15:215. 2015
- Antibiotic susceptibility and molecular mechanisms of macrolide resistance in streptococci isolated from adult cystic fibrosis patients. Journal of Medical Microbiology. 64:1375-1386. 2015
- Clinical Insights into Pulmonary Exacerbations in Cystic Fibrosis from the Microbiome. What Are We Missing?. Proceedings of the American Thoracic Society. 12 Suppl 2:S207-S211. 2015
- Microbiota and host determinants of behavioural phenotype in maternally separated mice. Nature Communications. 6:7735. 2015
- Lost in Translation: The Gut Microbiota in Psychiatric Illness. Canadian Journal of Psychiatry. 60:460-463. 2015
- Pregnancy-related changes in the maternal gut microbiota are dependent upon the mother's periconceptional diet. Gut Microbes. 6:310-320. 2015
- Ecobiotherapy Rich in Firmicutes Decreases Susceptibility to Colitis in a Humanized Gnotobiotic Mouse Model. Inflammatory Bowel Diseases. 21:1883-1893. 2015
- Fecal Microbiota Transplantation Induces Remission in Patients With Active Ulcerative Colitis in a Randomized Controlled Trial. Gastroenterology. 149:102-109.e6. 2015
- GLP-1R Agonists Modulate Enteric Immune Responses Through the Intestinal Intraepithelial Lymphocyte GLP-1R. Diabetes. 64:2537-2549. 2015
- Deciphering the pathogenesis of NSAID enteropathy using proton pump inhibitors and a hydrogen sulfide-releasing NSAID. American Journal of Physiology - Gastrointestinal and Liver Physiology. 308:G994-G1003. 2015
- Culture and molecular-based profiles show shifts in bacterial communities of the upper respiratory tract that occur with age. ISME Journal. 9:1246-1259. 2015
- Erratum: Culture and molecular-based profiles show shifts in bacterial communities of the upper respiratory tract that occur with age. ISME Journal. 9:1268-1268. 2015
- NSAID enteropathy and bacteria: a complicated relationship. Journal of Gastroenterology. 50:387-393. 2015
- Uncoupling of Pro- and Anti-Inflammatory Properties of Staphylococcus aureus. Infection and Immunity. 83:1587-1597. 2015
- Defective NOD 2 peptidoglycan sensing promotes diet‐induced inflammation, dysbiosis, and insulin resistance. EMBO Molecular Medicine. 7:259-274. 2015
- Hydrogen sulphide protects against NSAID-enteropathy through modulation of bile and the microbiota. British Journal of Pharmacology British journal of pharmacology and chemotherapy. 172:992-1004. 2015
- A Multidimensional Approach to the Management of Severe Asthma: Inflammometry, Molecular Microbiology and Bronchial Thermoplasty. Canadian Respiratory Journal. 22:221-224. 2015
- Host cytokine responses distinguish invasive from airway isolates of the Streptococcusmilleri/anginosis group. BMC Infectious Diseases. 14:498. 2014
- MicroRNA-155 Is Required for Clearance of Streptococcus pneumoniae from the Nasopharynx. Infection and Immunity. 82:4824-4833. 2014
- The attenuated virulence of aBurkholderia cenocepacia paaABCDEmutant is due to inhibition of quorum sensing by release of phenylacetic acid. Molecular Microbiology Microbiological Sciences. 94:522-536. 2014
- The Loss of Topography in the Microbial Communities of the Upper Respiratory Tract in the Elderly. Proceedings of the American Thoracic Society. 11:513-521. 2014
- Twenty-Five-Year Outbreak of Pseudomonas aeruginosa Infecting Individuals with Cystic Fibrosis: Identification of the Prairie Epidemic Strain. Journal of Clinical Microbiology. 52:1127-1135. 2014
- Draft Genome Sequence of Burkholderia dolosa PC543 Isolated from Cystic Fibrosis Airways. Genome Announcements. 2. 2014
- Draft genome sequence of Burkholderia dolosa PC543 isolated from cystic fibrosis airways. Genome Announcements. 2. 2014
- Genetic signature of bacterial pathogen adaptation during chronic pulmonary infections. Nature Genetics. 46:5-6. 2014
- The Cystic Fibrosis Lung Microbiome. Proceedings of the American Thoracic Society. 11:S61-S65. 2014
- A Guide to Bioinformatics for Immunologists. Frontiers in Immunology. 4:416. 2013
- What to Expect When You’re Expectorating: Cystic Fibrosis Exacerbations and Microbiota. Proceedings of the American Thoracic Society. 10:249-250. 2013
- Hybrid sensor kinase PA1611 inPseudomonas aeruginosaregulates transitions between acute and chronic infection through direct interaction with RetS. Molecular Microbiology Microbiological Sciences. 88:784-797. 2013
- Brain Microbial Populations in HIV/AIDS: α-Proteobacteria Predominate Independent of Host Immune Status. PLoS ONE. 8:e54673-e54673. 2013
- Concentration-dependent activity in natural environments. Frontiers in Microbiology. 4:20. 2013
- Extracellular DNA-induced antimicrobial peptide resistance in Salmonella enterica serovar Typhimurium. BMC Microbiology. 13:115-115. 2013
- Phenotypic Heterogeneity of Pseudomonas aeruginosa Populations in a Cystic Fibrosis Patient. PLoS ONE. 8:e60225-e60225. 2013
- Phylogenetic relationship and virulence inference of Streptococcus Anginosus Group: curated annotation and whole-genome comparative analysis support distinct species designation. BMC Genomics. 14:895-895. 2013
- The cystic fibrosis airway microbiome. Current Opinion in Pulmonary Medicine. 18:622-627. 2012
- The interplay between the intestinal microbiota and the brain. Nature Reviews Microbiology. 10:735-742. 2012
- Pyrosequencing reveals the complex polymicrobial nature of invasive pyogenic infections: microbial constituents of empyema, liver abscess, and intracerebral abscess. European Journal of Clinical Microbiology and Infectious Diseases. 31:2679-2691. 2012
- Assessment of virulence diversity of methicillin-resistant Staphylococcus aureus strains with a Drosophila melanogaster infection model. BMC Microbiology. 12:274-274. 2012
- Comprehensive Analysis of Gene-Environmental Interactions with Temporal Gene Expression Profiles in Pseudomonas aeruginosa. PLoS ONE. 7:e35993-e35993. 2012
- Transcriptional regulation of sdiA by cAMP-receptor protein, LeuO, and environmental signals in Salmonella enterica serovar Typhimurium. Canadian Journal of Microbiology. 58:10-22. 2012
- Intergenic Sequence Comparison of Escherichia coli Isolates Reveals Lifestyle Adaptations but Not Host Specificity. Applied and Environmental Microbiology. 77:7620-7632. 2011
- Drosophila melanogaster as an Animal Model for the Study of Pseudomonas aeruginosa Biofilm Infections In Vivo. PLoS Pathogens. 7:e1002299-e1002299. 2011
- Mesalazine (5-aminosalicylic acid) alters faecal bacterial profiles, but not mucosal proteolytic activity in diarrhoea-predominant irritable bowel syndrome. Alimentary Pharmacology and Therapeutics. 34:374-383. 2011
- ComplexPseudomonasPopulation Structure in Cystic Fibrosis Airway Infections. American Journal of Respiratory and Critical Care Medicine. 183:1581-1583. 2011
- Inactivation of MuxABC-OpmB transporter system in Pseudomonas aeruginosa leads to increased ampicillin and carbenicillin resistance and decreased virulence. Journal of Microbiology. 49:107-114. 2011
- The polymicrobial nature of airway infections in cystic fibrosis: Cangene Gold Medal LectureThis article is based on a presentation by Dr. Christopher Sibley at the 60th Annual Meeting of the Canadian Society of Microbiologists in Hamilton, Ontario, on 15 June 2010. Dr. Sibley was the recipient of the 2010 Cangene Gold Medal as the Canadian Graduate Student Microbiologist of the Year, an annual award sponsored by Cangene Corporation intended to recognize excellence in graduate research.. Canadian Journal of Microbiology. 57:69-77. 2011
- Culture Enriched Molecular Profiling of the Cystic Fibrosis Airway Microbiome. PLoS ONE. 6:e22702-e22702. 2011
- Identification of mutants with altered phenazine production in Pseudomonas aeruginosa. Journal of Medical Microbiology. 60:22-34. 2011
- Modulation of Salmonella gene expression by subinhibitory concentrations of quinolones. Japanese Journal of Antibiotics Journal of Antibiotics. 64:73-78. 2011
- A Novel Mechanism of Rapid Nuclear Neutrophil Extracellular Trap Formation in Response toStaphylococcus aureus. Journal of Immunology. 185:7413-7425. 2010
- Integration of transcriptional inputs at promoters of the arabinose catabolic pathway. BMC Systems Biology. 4:75. 2010
- Cysteine biosynthesis, oxidative stress and antibiotic resistance in Salmonella typhimurium. Research in Microbiology. 161:643-650. 2010
- Azithromycin paradox in the treatment of cystic fibrosis airway disease. Future Microbiology. 5:1315-1319. 2010
- Characterization of a cryptic plasmid from Pseudomonas sp. and utilization of its temperature-sensitive derivatives for genetic manipulation. Plasmid. 64:110-117. 2010
- The genus Prevotella in cystic fibrosis airways. Anaerobe. 16:337-344. 2010
- A Global Metabolic Shift Is Linked to Salmonella Multicellular Development. PLoS ONE. 5:e11814-e11814. 2010
- Macrolide and Clindamycin Resistance in Streptococcus milleri Group Isolates from the Airways of Cystic Fibrosis Patients. Antimicrobial Agents and Chemotherapy. 54:2823-2829. 2010
- The Streptococcus milleri Population of a Cystic Fibrosis Clinic Reveals Patient Specificity and Intraspecies Diversity. Journal of Clinical Microbiology. 48:2592-2594. 2010
- N-acetyllactosamine-induced retraction of bundle-forming pili regulates virulence-associated gene expression in enteropathogenic Escherichia coli. Molecular Microbiology Microbiological Sciences. 76:1111-1126. 2010
- A Catalog of Reference Genomes from the Human Microbiome. Science The Scientific monthly. 328:994-999. 2010
- McKay agar enables routine quantification of the ‘Streptococcus milleri’ group in cystic fibrosis patients. Journal of Medical Microbiology. 59:534-540. 2010
- Development of Real-Time PCR Assays for Detection of the Streptococcus milleri Group from Cystic Fibrosis Clinical Specimens by Targeting the cpn60 and 16S rRNA Genes. Journal of Clinical Microbiology. 48:1150-1160. 2010
- Characterization of Streptococcus milleri Group Isolates from Expectorated Sputum of Adult Patients with Cystic Fibrosis. Journal of Clinical Microbiology. 48:395-401. 2010
- The relevance of the polymicrobial nature of airway infection in the acute and chronic management of patients with cystic fibrosis.. Current Opinion in Investigational Drugs. 10:787-794. 2009
- Long-Term Survival of Salmonella enterica Serovar Typhimurium Reveals an Infectious State That Is Underrepresented on Laboratory Media Containing Bile Salts. Applied and Environmental Microbiology. 75:4923-4925. 2009
- Effects of mesalamine (5-aminosalicylic acid) on bacterial gene expression. Inflammatory Bowel Diseases. 15:985-996. 2009
- Genomic Instability in Regions Adjacent to a Highly Conserved pch Prophage in Escherichia coli O157:H7 Generates Diversity in Expression Patterns of the LEE Pathogenicity Island. Journal of Bacteriology. 191:3553-3568. 2009
- Chemical Interactions between Organisms in Microbial Communities. Contributions to microbiology. 16:1-17. 2009
- Sleeping beauty mutase (sbm) is expressed and interacts with ygfd in Escherichia coli. Microbiological Research Zentralblatt f�r Mikrobiologie. 164:1-8. 2009
- Individuality in Bacteria. Annual Review of Genetics. 42:253-268. 2008
- l-Cysteine is required for induced antibiotic resistance in actively swarming Salmonella enterica serovar Typhimurium. Microbiology. 154:3410-3419. 2008
- Discerning the Complexity of Community Interactions Using a Drosophila Model of Polymicrobial Infections. PLoS Pathogens. 4:e1000184-e1000184. 2008
- A polymicrobial perspective of pulmonary infections exposes an enigmatic pathogen in cystic fibrosis patients. Proceedings of the National Academy of Sciences of the United States of America. 105:15070-15075. 2008
- The YebC Family Protein PA0964 Negatively Regulates the Pseudomonas aeruginosa Quinolone Signal System and Pyocyanin Production. Journal of Bacteriology. 190:6217-6227. 2008
- Bringing order to a complex molecular machine: The assembly of the bacterial flagella. Biochimica et Biophysica Acta - Biomembranes Biochimica et Biophysica Acta - Reviews on Biomembranes. 1778:1851-1858. 2008
- Modulation of secreted virulence factor genes by subinhibitory concentrations of antibiotics in Pseudomonas aeruginosa. Journal of Microbiology. 46:441-447. 2008
- TheStreptococcus milleri group—An unrecognized cause of disease in cystic fibrosis: A case series and literature review. Pediatric Pulmonology. 43:490-497. 2008
- Aggregation via the Red, Dry, and Rough Morphotype Is Not a Virulence Adaptation in Salmonella enterica Serovar Typhimurium. Infection and Immunity. 76:1048-1058. 2008
- Evolutionary loss of the rdar morphotype in Salmonella as a result of high mutation rates during laboratory passage. ISME Journal. 2:293-307. 2008
- OMLeT—An Alternative Approach to Learning Metabolism: Glycolysis and the TCA Cycle as an Example. Journal of Chemical Education. 84:2024-2024. 2007
- Persistence of Salmonella on Egg Conveyor Belts Is Dependent on the Belt Type but Not on the rdar Morphotype. Poultry Science. 86:2375-2383. 2007
- Environmental Regulation of Pseudomonas aeruginosa PAO1 Las and Rhl Quorum-Sensing Systems. Journal of Bacteriology. 189:4827-4836. 2007
- The identification of functional motifs in temporal gene expression analysis.. Evolutionary Bioinformatics. 1:84-96. 2007
- An efficient system for markerless gene replacement applicable in a wide variety of enterobacterial species. Canadian Journal of Microbiology. 53:56-62. 2007
- Programming gene expression with combinatorial promoters. Molecular Systems Biology. 3:145-145. 2007
- The Wavelet-Based Cluster Analysis for Temporal Gene Expression Data. Eurasip Journal on Bioinformatics and Systems Biology. 2007:1-7. 2007
- Comparative Genetics of the rdar Morphotype in Salmonella. Journal of Bacteriology. 188:8395-8406. 2006
- Salmonella Produces an O-Antigen Capsule Regulated by AgfD and Important for Environmental Persistence. Journal of Bacteriology. 188:7722-7730. 2006
- ThemviNhomolog inBurkholderia pseudomalleiis essential for viability and virulence. Canadian Journal of Microbiology. 52:831-842. 2006
- A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. PLoS Medicine Nature Methods. 3:623-628. 2006
- Cost of cell–cell signalling in Pseudomonas aeruginosa: why it can pay to be signal-blind. Nature Reviews Microbiology. 4:562-562. 2006
- Cystic fibrosis: a polymicrobial infectious disease. Future Microbiology. 1:53-61. 2006
- Thin Aggregative Fimbriae and Cellulose Enhance Long-Term Survival and Persistence of Salmonella. Journal of Bacteriology. 188:3219-3227. 2006
- Thin aggregative fimbriae and cellulose enhance long-term survival and persistence of Salmonella. Journal of Bacteriology. 188:3219-3227. 2006
- Communication in bacteria: an ecological and evolutionary perspective. Nature Reviews Microbiology. 4:249-258. 2006
- Coordinated Regulation of Two Independent Cell-Cell Signaling Systems and Swarmer Differentiation in Salmonella enterica Serovar Typhimurium. Journal of Bacteriology. 188:431-440. 2006
- Ecological Behavior of Lactobacillus reuteri 100-23 Is Affected by Mutation of the luxS Gene. Applied and Environmental Microbiology. 71:8419-8425. 2005
- Prevalence of Surface Swarming Behavior in Salmonella. Journal of Bacteriology. 187:6580-6583. 2005
- Prevalence of surface swarming behavior in Salmonella. Journal of Bacteriology. 187:6580-6583. 2005
- Comparative Genomics via Wavelet Analysis for Closely Related Bacteria. Eurasip Journal on Applied Signal Processing Applied Signal Processing Eurasip Journal on Advances in Signal Processing. 2004:5-12. 2004
- Metabolic differentiation in actively swarming Salmonella. Molecular Microbiology Microbiological Sciences. 54:702-714. 2004
- Dual Effects of MLS Antibiotics. Chemistry and Biology. 11:1307-1316. 2004
- Just-in-time transcription program in metabolic pathways. Nature Genetics. 36:486-491. 2004
- Modulation of Pseudomonas aeruginosa gene expression by host microflora through interspecies communication. Molecular Microbiology Microbiological Sciences. 50:1477-1491. 2003
- Genomic Profiling of Iron-Responsive Genes in Salmonella enterica Serovar Typhimurium by High-Throughput Screening of a Random Promoter Library. Journal of Bacteriology. 185:4973-4982. 2003
- Detailed map of a cis-regulatory input function. Proceedings of the National Academy of Sciences of the United States of America. 100:7702-7707. 2003
- Swarm-Cell Differentiation in Salmonellaenterica Serovar Typhimurium Results in Elevated Resistance to Multiple Antibiotics. Journal of Bacteriology. 185:3111-3117. 2003
- Swarming populations ofSalmonella represent a unique physiological state coupled to multiple mechanisms of antibiotic resistance. Biological Procedures Online. 5:189-196. 2003
- Trait-to-Gene. Current Biology. 13:129-133. 2003
- Transcriptional modulation of bacterial gene expression by subinhibitory concentrations of antibiotics. Proceedings of the National Academy of Sciences of the United States of America. 99:17025-17030. 2002
- The dynamic microbe: green fluorescent protein brings bacteria to light. Molecular Microbiology Microbiological Sciences. 45:1191-1196. 2002
- pfs-Dependent Regulation of Autoinducer 2 Production in Salmonella enterica Serovar Typhimurium. Journal of Bacteriology. 184:3450-3456. 2002
- The LuxS family of bacterial autoinducers: biosynthesis of a novel quorum-sensing signal molecule. Molecular Microbiology Microbiological Sciences. 41:463-476. 2001
- Ordering Genes in a Flagella Pathway by Analysis of Expression Kinetics from Living Bacteria. Science The Scientific monthly. 292:2080-2083. 2001
- An Ultrasensitive Bacterial Motor Revealed by Monitoring Signaling Proteins in Single Cells. Science The Scientific monthly. 287:1652-1655. 2000
- Quorum sensing in Escherichia coli, Salmonella typhimurium, and Vibrio harveyi: A new family of genes responsible for autoinducer production. Proceedings of the National Academy of Sciences of the United States of America. 96:1639-1644. 1999
- Protein Mobility in the Cytoplasm ofEscherichia coli. Journal of Bacteriology. 181:197-203. 1999
- Regulation of autoinducer production in Salmonella typhimurium. Molecular Microbiology Microbiological Sciences. 31:585-595. 1999
- Robustness in bacterial chemotaxis. Nature Nature: New biology. 397:168-171. 1999
- Response regulator output in bacterial chemotaxis. EMBO Journal. 17:4238-4248. 1998
- Quorum sensing in Escherichia coli and Salmonella typhimurium. Proceedings of the National Academy of Sciences of the United States of America. 95:7046-7050. 1998
- Receptor-mediated protein kinase activation and the mechanism of transmembrane signaling in bacterial chemotaxis. EMBO Journal. 16:7231-7240. 1997
- Photoactivation turns green fluorescent protein red. Current Biology. 7:809-812. 1997
- Active Site Interference and Asymmetric Activation in the Chemotaxis Protein Histidine Kinase CheA. Journal of Biological Chemistry. 271:32057-32063. 1996
- Role of α-Helical Coiled-coil Interactions in Receptor Dimerization, Signaling, and Adaptation during Bacterial Chemotaxis. Journal of Biological Chemistry. 271:17966-17973. 1996
- Dimerization Is Required for the Activity of the Protein Histidine Kinase CheA That Mediates Signal Transduction in Bacterial Chemotaxis. Journal of Biological Chemistry. 271:939-945. 1996
- Chemosensing and signal transduction in bacteria. Current Opinion in Neurobiology. 4:474-480. 1994
- Bacterial Chemotaxis: The motor connection. Current Biology. 4:143-144. 1994
- Chapter 22 Transmembrane signal transducing proteins. New Comprehensive Biochemistry. 27:465-483. 1994
- Signal transduction in bacterial chemotaxis.. Journal of Biological Chemistry. 267:19753-19756. 1992
- The Mu transpositional enhancer can function in trans: Requirement of the enhancer for synapsis but not strand cleavage. Cell. 68:1101-1108. 1992
- Stimulation of the Mu DNA strand cleavage and intramolecular strand transfer reactions by the Mu B protein is independent of stable binding of the Mu B protein to DNA.. Journal of Biological Chemistry. 266:17306-17313. 1991
- Stimulation of the Mu A protein-mediated strand cleavage reaction by the Mu B protein, and the requirement of DNA nicking for stable type 1 transpososome formation. In vitro transposition characteristics of mini-Mu plasmids carrying terminal base pair mutations.. Journal of Biological Chemistry. 266:3118-3124. 1991
- Action at a distance in Mu DNA transposition: an enhancer-like element is the site of action of supercoiling relief activity by integration host factor (IHF).. EMBO Journal. 8:3483-3489. 1989
- A protein factor which reduces the negative supercoiling requirement in the Mu DNA strand transfer reaction is Escherichia coli integration host factor.. Journal of Biological Chemistry. 264:3028-3034. 1989
- Mechanism of Mu DNA transposition. BioEssays. 9:205-208. 1988
- Transpososomes: Stable protein-DNA complexes involved in the in vitro transposition of bacteriophage Mu DNA. Cell. 49:253-262. 1987
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conference paper
- EPIDEMIOLOGY OF STENOTROPHOMONAS MALTOPHILIA INFECTIONS IN ADULTS WITH CYSTIC FIBROSIS (CF): A 30-YEAR SINGLE-CENTRE STUDY. Pediatric Pulmonology. S374-S374. 2017
- PATTERNS OF PSEUDOMONAS AERUGINOSA LOWER AIRWAYS INFECTIONS AND CLINICAL OUTCOMES IN NON-CYSTIC FIBROSIS BRONCHIECTASIS. Pediatric Pulmonology. S363-S363. 2017
- SPUTUM MICROBIOTA PREDICTS FUTURE CLINICAL OUTCOMES IN CYSTIC FIBROSIS: A COHORT STUDY. Pediatric Pulmonology. S362-S363. 2017
- Activation of Innate Immune Pathways by Bacterial Proteases: Implications for Celiac Disease. Gastroenterology. S71-S71. 2017
- The Microbiome of the Respiratory Tract After Heart Transplantation. Journal of Heart and Lung Transplantation Journal of Heart Transplantation. S50-S50. 2017
- DOES INHALED AZTREONAM LYSINE (AZLI) IMPACT THE CYSTIC FIBROSIS LUNG MICROBIOME?. Pediatric Pulmonology. 306-306. 2016
- EFFECT OF FREEZING SPUTUM ON PSEUDOMONAS AERUGINOSA (PA) POPULATION HETEROGENEITY. Pediatric Pulmonology. 306-307. 2016
- EPIDEMIC PSEUDOMONAS AERUGINOSA: A DRIVING FORCE IN THE CYSTIC FIBROSIS (CF) MICROBIOME?. Pediatric Pulmonology. 330-330. 2016
- Sex Work Alters the Vaginal Microbiome: A Comparison Between Sex Workers and Lower Risk Women from the Same Community in Nairobi, Kenya. AIDS Research and Human Retroviruses. 126-126. 2016
- THE EVOLVING CYSTIC FIBROSIS (CF) MICROBIOME: A LONGITUDINAL COHORT STUDY. Pediatric Pulmonology. 329-330. 2016
- T-cells induced by oral gluten challenge in patients with coeliac disease confirm the in vivo effects of gluten hydrolysed by intestinal bacteria from gnotobiotic mice. European Journal of Immunology. 453-453. 2016
- Multiple Sclerosis Lesions Show Perturbations in Cerebral Microbiota. Neurology. 2016
- Multiple Sclerosis Lesions Show Perturbations in Cerebral Microbiota. Neurology. 2016
- Multiple Sclerosis Lesions Show Perturbations in Cerebral Microbiota. Neurology. 2016
- Multiple Sclerosis Lesions Show Perturbations in Cerebral Microbiota. Neurology. 2016
- Multiple Sclerosis Lesions Show Perturbations in Cerebral Microbiota. Neurology. 2016
- Multiple Sclerosis Lesions Show Perturbations in Cerebral Microbiota. Neurology. 2016
- Multiple Sclerosis Lesions Show Perturbations in Cerebral Microbiota. Neurology. 2016
- 545 Microbiota From an Active Celiac Donor Modulates Intraepithelial Lymphocyte Numbers and Phenotype in the Mouse Small Intestine. Gastroenterology. S114-S114. 2016
- Sa1398 Immunogenic Gluten Is Modulated by Small Intestinal Bacterial Hydrolysis. Gastroenterology. S304-S304. 2016
- Su1891 Colonization of Germ-Free Mice With Human Derived Microbiota Induces Progressive Ultrastructural, Innate, and Functional Changes in the Intestinal Barrier. Gastroenterology. S581-S581. 2016
- Su1897 Inflammation-Related Differences in Mucosa-Associated Microbiota and Paracellular Permeability in Crohn's Colitis. Gastroenterology. S582-S582. 2016
- Su1905 Fecal Microbiome Profiles of Ulcerative Colitis Patients With and Without Anxiety and/or Depression. Gastroenterology. S584-S585. 2016
- Enhanced Culturing Techniques Identify Unexpected Pathogens In Patients With Suspected Ventilator-Associated Infections: The Fast Identification Of Pathogens (findpath) Pilot Study. American Journal of Respiratory and Critical Care Medicine. 2016
- Purpose of the Conference: 2015 Transatlantic Airway Conference.. Proceedings of the American Thoracic Society. S111. 2015
- CHANGES IN THE STRUCTURE OF THE CYSTIC FIBROSIS MICROBIOME THROUGH TIME: A COHORT STUDY. Pediatric Pulmonology. 339-340. 2015
- CULTURE-ENRICHED METAGENOMIC SEQUENCING OF THE CYSTIC FIBROSIS LUNG MICROBIOTA PROVIDES A MORE THOROUGH UNDERSTANDING OF MICROBIAL PROCESSES DURING PULMONARY EXACERBATION. Pediatric Pulmonology. 305-305. 2015
- DEVELOPMENT AND VALIDATION OF A PCR ASSAY TO DETECT THE PRAIRIE EPIDEMIC STRAIN (PES) OF PSEUDOMONAS AERUGINOSA. Pediatric Pulmonology. 337-337. 2015
- DO INHALED ANTIBIOTICS IMPROVE LUNG FUNCTION THROUGH AN EFFECT ON THE CYSTIC FIBROSIS (CF) MICROBIOME?. Pediatric Pulmonology. 330-331. 2015
- LONGITUDINAL SAMPLING OF PATIENTS WITH CYSTIC FIBROSIS INDICATES CHANGES IN THE MICROBIAL COMMUNITY IN THE DAYS PRIOR TO ONSET OF PULMONARY EXACERBATION. Pediatric Pulmonology. 305-305. 2015
- Distinct Roles of the Mucus Layer and Microbiota in Conferring Innate Host Defense and Susceptibility to Disease. FASEB Journal. 2015
- Fetal and Neonatal Exposure To Nicotine Results in Increased Adiposity: Role of the Gut Microbiome.. Journal of the Society for Gynecologic Investigation Reproductive Sciences. 360A-360A. 2015
- Microbiome Effects on Hematopoietic Eosinophil/Basophil Progenitor Phenotype: Implications for the Pathogenesis of Allergic Inflammation. Journal of Allergy and Clinical Immunology. AB65-AB65. 2015
- The Gut Microbiome in Patients with Anxiety, Depression and Inflammatory Bowel Disease. Neuropsychopharmacology. S289-S289. 2014
- REDUCTION IN P. AERUGINOSA SPUTUM DENSITY DURING A PULMONARY EXACERBATION IN CYSTIC FIBROSIS DOES NOT PREDICT CLINICAL RESPONSE. Pediatric Pulmonology. 250-250. 2014
- A randomized, placebo controlled trial of fecal microbiota therapy in active ulcerative colitis.. Gastroenterology. S159-S159. 2014
- Investigating the microbiome pre and post fecal microbiota therapy from active ulcerative colitis patients in a randomized placebo controlled trial. Gastroenterology. S902-S902. 2014
- The Adoptive Transfer of Anxiety and Gut Dysfunction From IBS Patients to Axenic Mice Through Microbiota Transplantation. Gastroenterology. S845-S845. 2014
- P378 BENEFICIAL EFFECT OF THE PROBIOTIC VSL-3 ON LIVER INJURY-ASSOCIATED SICKNESS BEHAVIOR DEVELOPMENT BY ALTERING SYSTEMIC IMMUNITY AND INHIBITING ACTIVATED MONOCYTES FROM ENTERING THE BRAIN. Journal of Hepatology. S194-S194. 2014
- Specific Crohn's Disease (CD) Associated Risk Alleles Are Associated With the Composition of the Intestinal Microbiota in Healthy First Degree Relatives (FDR) of CD Subjects. Gastroenterology. S57-S57. 2013
- The Relationship Between Common IBD-Associated Risk Alleles and Intestinal Permeability in a Cohort of Healthy First Degree Relatives of Individuals With Crohn's Disease. Gastroenterology. S835-S835. 2013
- alpha-Proteobacteria predominate in the human brain microbiome independent of host immune status. Journal of Neuroimmunology. 137-137. 2012
- Microbial colonization of germ-free mice induces marked change in behaviour that is independent of bacterial diversity. Neurogastroenterology and Motility. 77-77. 2012
- Transfer of IBS phenotype to GERM-free mice through microbiota transplantation. Neurogastroenterology and Motility. 33-33. 2012
- EXPLORING THE STREPTOCOCCUS ANTIBIOTIC RESISTOME IN ADULT CYSTIC FIBROSIS PATIENTS. Pediatric Pulmonology. 323-323. 2011
- MECHANISMS OF ANTIMICROBIAL RESISTANCE IN CYSTIC FIBROSIS AIRWAY ISOLATES OF THE STREPTOCOCCUS MILLERI GROUP. Pediatric Pulmonology. 329-329. 2011
- THE CYSTIC FIBROSIS LUNG MICROBIOME EXPOSES NOVEL MEMBERS OF THE GENUS STREPTOCOCCUS. Pediatric Pulmonology. 325-325. 2010
- CHARACTERIZATION OF STREPTOCOCCUS MILLERI ISOLATES FROM ADULT CYSTIC FIBROSIS PATIENTS. Pediatric Pulmonology. 340-341. 2009
- ESCHERICHEA COLI BIOFILM FORMATION AND SUSCEPTIBILITY IN RESPONSE TO INCREASED SHEAR STRESSES. PROCEEDINGS OF THE ASME SUMMER BIOENGINEERING CONFERENCE 2008, PTS A AND B. 979-980. 2009
- REAL-TIME PCR ASSAYS FOR DETECTION OF THE STREPTOCOCCUS MILLERI GROUP FROM CF CLINICAL SPECIMENS USING TARGETS FOR CPN60 AND 16S RRNA GENES. Pediatric Pulmonology. 335-335. 2009
- THE CULTURED MICROBIOME OF CYSTIC FIBROSIS AIRWAYS. Pediatric Pulmonology. 313-313. 2009
- WHOLE GENOME SEQUENCING AND COMPARATIVE GENOMIC ANALYSIS OF THE STREPTOCOCCUS MILLERI GROUP. Pediatric Pulmonology. 335-335. 2009
- Development of a solid media for the selective isolation of Streptococcus milleri from cystic fibrosis (CF) sputum. Pediatric Pulmonology. 323-324. 2007
- Polymicrobial interactions in CF: Synergies and antagonisms in host response. Pediatric Pulmonology. 150-151. 2007
- Identification of replication sites via a nonparametric method in bacteria. METMBS'03: PROCEEDINGS OF THE INTERNATIONAL CONFERENCE ON MATHEMATICS AND ENGINEERING TECHNIQUES IN MEDICINE AND BIOLOGICAL SCIENCES. 17-21. 2003
- GeneVis: Visualization tools for genetic regulatory network dynamics. VIS 2002: IEEE VISUALIZATION 2002, PROCEEDINGS. 243-250. 2002