Publications

Metabolomics-guided hypothesis generation for mechanisms of intestinal protection by live biotherapeutic products

J Ye, LAE Erland, SK Gill, SL Bishop, A Verdugo-Meza, SJ Murch, ...

Biomolecules 11 (5), 738

Bio-engineering a common probiotic to exploit colonic inflammation promotes reliable efficacy in translational models of colitis

A Verdugo-Meza, SK Gill, A Godovannyi, MK Adur, JA Barnett, M Estaki, ...

bioRxiv, 2024.10. 08.617317

Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2

E Bolyen, JR Rideout, MR Dillon, NA Bokulich, CC Abnet, GA Al-Ghalith, ...

Nature biotechnology 37 (8), 852-857

Diet-induced dysbiosis of the intestinal microbiota and the effects on immunity and disease

K Brown, D DeCoffe, E Molcan, DL Gibson

Nutrients 4 (8), 1095-1119

Cardiorespiratory fitness as a predictor of intestinal microbial diversity and distinct metagenomic functions

M Estaki, J Pither, P Baumeister, JP Little, SK Gill, S Ghosh, ...

Microbiome 4, 1-13

Methods for improving human gut microbiome data by reducing variability through sample processing and storage of stool

MA Gorzelak, SK Gill, N Tasnim, Z Ahmadi-Vand, M Jay, DL Gibson

PloS one 10 (8), e0134802

Linking the gut microbial ecosystem with the environment: does gut health depend on where we live?

N Tasnim, N Abulizi, J Pither, MM Hart, DL Gibson

Frontiers in microbiology 8, 1935

Nonalcoholic fatty liver disease, the gut microbiome, and diet

Z Mokhtari, DL Gibson, A Hekmatdoost

Advances in Nutrition 8 (2), 240-252

Colonic microbiota alters host susceptibility to infectious colitis by modulating inflammation, redox status, and ion transporter gene expression

S Ghosh, C Dai, K Brown, E Rajendiran, S Makarenko, J Baker, C Ma, ...

American Journal of Physiology-Gastrointestinal and Liver Physiology 301 (1 …

Influence of sulfonated and diet-derived human milk oligosaccharides on the infant microbiome and immune markers

C Quin, SD Vicaretti, NA Mohtarudin, AM Garner, DM Vollman, DL Gibson, ...

Journal of Biological Chemistry 295 (12), 4035-4048

Gut mucosal proteins and bacteriome are shaped by the saturation index of dietary lipids

N Abulizi, C Quin, K Brown, YK Chan, SK Gill, DL Gibson

Nutrients 11 (2), 418

Maternal exposure to fish oil primes offspring to harbor intestinal pathobionts associated with altered immune cell balance

DL Gibson, SK Gill, K Brown, N Tasnim, S Ghosh, S Innis, K Jacobson

Gut microbes 6 (1), 24-32

Human behavior, not race or geography, is the strongest predictor of microbial succession in the gut bacteriome of infants

C Quin, DL Gibson

Gut microbes 11 (5), 1143-1171

A critical analysis of eating disorders and the gut microbiome

SM Terry, JA Barnett, DL Gibson

Journal of eating disorders 10 (1), 154

Fish oil supplementation reduces maternal defensive inflammation and predicts a gut bacteriome with reduced immune priming capacity in infants

C Quin, DM Vollman, S Ghosh, N Haskey, M Estaki, J Pither, JA Barnett, ...

The ISME Journal 14 (8), 2090-2104

H₂Oh No! The importance of reporting your water source in your in vivo microbiome studies

JA Barnett, DL Gibson

Gut Microbes 10 (3), 261-269

Dietary fatty acids and host–microbial crosstalk in neonatal enteric infection

C Quin, DL Gibson

Nutrients 11 (9), 2064

Early life environmental exposures have a minor impact on the gut ecosystem following a natural birth

N Tasnim, C Quin, S Gill, C Dai, M Hart, DL Gibson

Gut Microbes 13 (1), 1875797

The transition from a non-westernized to westernized gut microbiome in Indian-Immigrants and Indo-Canadians is associated with dietary acculturation

LD D’Aloisio, M Ballal, S Ghosh, N Haskey, N Abulizi, R Karimianghadim, ...

bioRxiv, 2024.03. 04.582285

Muc2 protects against lethal infectious colitis by disassociating pathogenic and commensal bacteria from the colonic mucosa 

KSB Bergstrom, V Kissoon-Singh, DL Gibson, C Ma, M Montero, ...

PLoS pathogens 6 (5), e1000902

Fish oil attenuates omega-6 polyunsaturated fatty acid-induced dysbiosis and infectious colitis but impairs LPS dephosphorylation activity causing sepsis

S Ghosh, D DeCoffe, K Brown, E Rajendiran, M Estaki, C Dai, A Yip, ...

PloS one 8 (2), e55468

Toll‐like receptor 2 plays a critical role in maintaining mucosal integrity during Citrobacter rodentium‐induced colitis

DL Gibson, C Ma, CM Rosenberger, KSB Bergstrom, Y Valdez, JT Huang, ...

Cellular microbiology 10 (2), 388-403

MyD88 signalling plays a critical role in host defence by controlling pathogen burden and promoting epithelial cell homeostasis during Citrobacter rodentium‐induced colitis

DL Gibson, C Ma, KSB Bergstrom, JT Huang, C Man, BA Vallance

Cellular microbiology 10 (3), 618-631

Interplay between intestinal alkaline phosphatase, diet, gut microbes and immunity

M Estaki, D DeCoffe, DL Gibson

World Journal of Gastroenterology: WJG 20 (42), 15650

An examination of diet for the maintenance of remission in inflammatory bowel disease

N Haskey, DL Gibson

Nutrients 9 (3), 259

The goblet cell-derived mediator RELM-β drives spontaneous colitis in Muc2-deficient mice by promoting commensal microbial dysbiosis

V Morampudi, U Dalwadi, G Bhinder, HP Sham, SK Gill, J Chan, ...

Mucosal immunology 9 (5), 1218-1233

SIGIRR, a negative regulator of TLR/IL-1R signalling promotes Microbiota dependent resistance to colonization by enteric bacterial pathogens

HP Sham, EYS Yu, MF Gulen, G Bhinder, M Stahl, JM Chan, L Brewster, ...

PLoS pathogens 9 (8), e1003539

Interleukin-11 reduces TLR4-induced colitis in TLR2-deficient mice and restores intestinal STAT3 signaling

DL Gibson, M Montero, MJ Ropeleski, KSB Bergstrom, C Ma, S Ghosh, ...

Gastroenterology 139 (4), 1277-1288

A Mediterranean diet pattern improves intestinal inflammation concomitant with reshaping of the bacteriome in ulcerative colitis: a randomised controlled trial

N Haskey, M Estaki, J Ye, RK Shim, S Singh, LA Dieleman, K Jacobson, ...

Journal of Crohn's and Colitis 17 (10), 1569-1578

Connecting the dots between inflammatory bowel disease and metabolic syndrome: A focus on gut-derived metabolites

A Verdugo-Meza, J Ye, H Dadlani, S Ghosh, DL Gibson

Nutrients 12 (5), 1434

Dietary lipid type, rather than total number of calories, alters outcomes of enteric infection in mice

D DeCoffe, C Quin, SK Gill, N Tasnim, K Brown, A Godovannyi, C Dai, ...

The Journal of infectious diseases 213 (11), 1846-1856

Deletion of mucin 2 induces colitis with concomitant metabolic abnormalities in mice

J Ye, N Haskey, H Dadlani, H Zubaidi, JA Barnett, S Ghosh, DL Gibson

American Journal of Physiology-Gastrointestinal and Liver Physiology 320 (5 …

Physical Activity Shapes the Intestinal Microbiome and Immunity of Healthy Mice but Has No Protective Effects against Colitis in MUC2−/− Mice

M Estaki, DW Morck, S Ghosh, C Quin, J Pither, JA Barnett, SK Gill, ...

Msystems 5 (5), 10.1128/msystems. 00515-20

A Mediterranean-like fat blend protects against the development of severe colitis in the mucin-2 deficient murine model

N Haskey, J Ye, M Estaki, AA Verdugo Meza, JA Barnett, M Yousefi, ...

Gut Microbes 14 (1), 2055441

Crohn’s and Colitis Canada’s 2021 Impact of COVID-19 and Inflammatory Bowel Disease in Canada: COVID-19 Vaccines—Biology, Current Evidence and Recommendations

SK Murthy, ME Kuenzig, JW Windsor, JE Ghia, AM Griffiths, R Panaccione, ...

Journal of the Canadian Association of Gastroenterology 4 (Supplement_2 …

TLR9 limits enteric antimicrobial responses and promotes microbiota‐based colonisation resistance during Citrobacter rodentium infection

H Yang, HB Yu, G Bhinder, NR Ryz, J Lee, H Yang, A Fotovati, DL Gibson, ...

Cellular Microbiology 21 (7), e13026

Dietary adherence to the Mediterranean diet pattern in a randomized clinical trial of patients with quiescent ulcerative colitis

N Haskey, RCK Shim, A Davidson-Hunt, J Ye, S Singh, LA Dieleman, ...

Frontiers in Nutrition 9, 1080156

Metabolomic Signatures Highlight Fiber-Degrading Bacteroides Species in Mediterranean Diet Response Among Ulcerative Colitis

N Haskey, J Ye, J Josephson, M Raman, S Ghosh, DL Gibson

Gastro Hep Advances, 100606

Following the Indian Immigrant: adoption of westernization results in a western gut microbiome and an increased risk of inflammatory bowel diseases

LD D'Aloisio, V Shetty, M Ballal, DL Gibson

FEMS Microbiology Ecology 98 (12), fiac133

Prenatal glyphosate exposure disrupts the gut-brain axis across several generations in mice.

JA Barnett, JK Josephson, NA Haskey, MM Hart, KK Soma, ML Bandy, ...

bioRxiv, 2024.08. 27.609990

Nanomaterial-based encapsulation for controlled gastrointestinal delivery of viable probiotic bacteria

S Razavi, S Janfaza, N Tasnim, DL Gibson, M Hoorfar

Nanoscale Advances 3 (10), 2699-2709

Prolonged antibiotic treatment induces a diabetogenic intestinal microbiome that accelerates diabetes in NOD mice

K Brown, A Godovannyi, C Ma, YQ Zhang, Z Ahmadi-Vand, C Dai, ...

The ISME journal 10 (2), 321-332

Probiotic supplementation and associated infant gut microbiome and health: a cautionary retrospective clinical comparison

C Quin, M Estaki, DM Vollman, JA Barnett, SK Gill, DL Gibson

Scientific reports 8 (1), 8283

Thin Aggregative Fimbriae and Cellulose Enhance Long-Term Survival and Persistence of Salmonella

AP White, DL Gibson, W Kim, WW Kay, MG Surette

Journal of bacteriology 188 (9), 3219-3227

Salmonella Produces an O-Antigen Capsule Regulated by AgfD and Important for Environmental Persistence

DL Gibson, AP White, SD Snyder, S Martin, C Heiss, P Azadi, M Surette, ...

Journal of bacteriology 188 (22), 7722-7730

The role of cellulose and O-antigen capsule in the colonization of plants by Salmonella enterica

JD Barak, CE Jahn, DL Gibson, AO Charkowski

Molecular Plant-Microbe Interactions 20 (9), 1083-1091

Identification of a Bile-Induced Exopolysaccharide Required for Salmonella Biofilm Formation on Gallstone Surfaces

RW Crawford, DL Gibson, WW Kay, JS Gunn

Infection and immunity 76 (11), 5341-5349

Extracellular Polysaccharides Associated with Thin Aggregative Fimbriae of Salmonella enterica Serovar Enteritidis

AP White, DL Gibson, SK Collinson, PA Banser, WW Kay

Journal of bacteriology 185 (18), 5398-5407

Modulation of intestinal goblet cell function during infection by an attaching and effacing bacterial pathogen

KSB Bergstrom, JA Guttman, M Rumi, C Ma, S Bouzari, MA Khan, ...

Infection and immunity 76 (2), 796-811

Gut barrier disruption by an enteric bacterial pathogen accelerates insulitis in NOD mice

AS Lee, DL Gibson, Y Zhang, HP Sham, BA Vallance, JP Dutz

Diabetologia 53, 741-748

Fasting increases microbiome-based colonization resistance and        reduces host inflammatory responses during an enteric bacterial infection

FA Graef, LS Celiberto, JM Allaire, MTY Kuan, ES Bosman, SM Crowley, ...

PLoS Pathogens 17 (8), e1009719