A5081955687- Gut microbiota and health
- Clostridium difficile and Clostridium perfringens research
- Antibiotic Resistance in Bacteria
- Neutropenia and Cancer Infections
- Probiotics and Fermented Foods
- Plant Pathogenic Bacteria Studies
- Plant-Microbe Interactions and Immunity
- Bacteriophages and microbial interactions
- Pharmacological Effects of Natural Compounds
- Inflammatory Bowel Disease
- Microscopic Colitis
- Gastrointestinal motility and disorders
- Immune Cell Function and Interaction
- COVID-19 Impact on Reproduction
- Pancreatitis Pathology and Treatment
- Nosocomial Infections in ICU
- Plant Virus Research Studies
- Pancreatic function and diabetes
- Diet and metabolism studies
- Metabolomics and Mass Spectrometry Studies
- Antibiotics Pharmacokinetics and Efficacy
- Maternal Mental Health During Pregnancy and Postpartum
- Gene expression and cancer classification
- Hematopoietic Stem Cell Transplantation
- Escherichia coli research studies
University of Massachusetts Chan Medical School
2020-2025
UMass Memorial Medical Center
2023-2025
University of Massachusetts Dartmouth
2018-2020
Studies of the intestinal microbiome and AD have demonstrated associations with composition at genus level among matched cohorts. We move this body literature forward by more deeply investigating via metagenomics comparing patients against those without dementia other types. also exploit machine learning approaches that combine both metagenomic clinical data. Finally, our functional studies using stool samples from elders demonstrate how c can affect health dysregulation P-glycoprotein...
Persistent colonization and outgrowth of potentially pathogenic organisms in the intestine can result from long-term antibiotic use or inflammatory conditions, may perpetuate dysregulated immunity tissue damage
Diet is a modifiable, noninvasive, inexpensive behavior that crucial in shaping the intestinal microbiome. A microbiome "imbalance" or dysbiosis inflammatory bowel disease (IBD) linked to inflammation. Here, we aim define impact of specific foods on bacterial species commonly depleted patients with IBD better inform dietary treatment. We performed single-arm, pre-post intervention trial. After baseline period, IBD-Anti-Inflammatory (IBD-AID) was initiated. collected stool and blood samples...
Despite their therapeutic benefits, antibiotics exert collateral damage on the microbiome and promote antimicrobial resistance. However, mechanisms governing recovery from are poorly understood. Treatment of Mycobacterium tuberculosis , world’s most common infection, represents longest exposure in humans. Here, we investigate gut dynamics over 20 months multidrug-resistant (TB) 6 drug-sensitive TB treatment We find that clearance shared predictive cofactors resolution TB-driven inflammation....
Manipulation of the gut microbiota holds great promise for treatment diseases. However, a major challenge is identification therapeutically potent microbial consortia that colonize host effectively while maximizing immunologic outcome. Here, we propose novel workflow to select optimal immune-inducing from microbiome compositicon and immune effectors measurements. Using published newly generated regulatory T-cell (Treg) data germ-free mice, estimate contributions twelve Clostridia strains...
Innate immune responses that control early Mtb infection are poorly understood, but understanding these may inform vaccination and immunotherapy strategies. T cells respond to conserved bacterial ligands such as mucosal-associated invariant (MAIT) γδ prime candidates mediate innate have not been examined in subjects who recently exposed Mtb. We recruited a cohort living the same household with an active tuberculosis (TB) case abundance functional phenotypes of 3 cell populations reactive M....
The composition of the gastrointestinal microbiota influences systemic immune responses, but how this affects infectious disease pathogenesis and antibiotic therapy outcome is poorly understood. This question rarely examined in humans due to difficulty dissociating immunologic effects antibiotic-induced pathogen clearance microbiome alteration. Here, we analyze data from two longitudinal studies tuberculosis (TB) (35 20 individuals) a cross sectional study 55 healthy controls, which...
Abstract Background Faecal microbiota transplantation [FMT] shows some efficacy in treating patients with ulcerative colitis [UC], although variability has been observed among donors and treatment regimens. We investigated the effect of FMT using rationally selected after pretreatment budesonide or placebo active UC. Methods Patients ≥18 years old mild to moderate UC were randomly assigned 3 weeks [9 mg] followed by 4-weekly infusions a donor faeces suspension. Two based on composition,...
Certain anaerobic bacteria are important for maintenance of gut barrier integrity and immune tolerance may influence the risk graft-versus-host disease (GVHD) after allogeneic hematopoietic stem cell transplantation (HSCT). We conducted a single-center retrospective cohort study HSCT recipients to evaluate associations between receipt antibiotics with an spectrum activity GVHD outcomes. identified 1214 children adults who developed febrile neutropenia 7 days before 28 compared mortality...
Highlights•Gut colonization precedes most mucosal barrier injury BSIs in HSCT recipients.•Antibiotics are associated with rising abundances of resistant strains the gut.•Detection vanA and ESBL genes predicts phenotypic resistance BSI strains.ABSTRACTThe gastrointestinal tract is predicted reservoir for bloodstream infections (BSIs) after hematopoietic stem cell transplantation (HSCT). Whole-genome sequencing comparative genomics have potential to improve our understanding dynamics gut that...
The gastrointestinal (GI) tract is the reservoir for multidrug resistant (MDR) pathogens, specifically carbapenem-resistant (CR) Klebsiella pneumoniae and other Enterobacteriaceae, which often lead to spread of antimicrobial resistance genes, severe extraintestinal infections, lethal outcomes. Selective GI decolonization has been proposed as a new strategy preventing transmission body sites minimizing spreading susceptible individuals. Here, we purify to-date uncharacterized class IIb...
ABSTRACT The reason for the striking differences in clinical outcomes of SARS-CoV-2 infected patients is still poorly understood. While most recover, a subset people become critically ill and succumb to disease. Thus, identification biomarkers that can predict COVID-19 disease key help prioritize needing urgent treatment. Given an unbalanced gut microbiome reflection poor health, we aim identify indicator species could outcomes. Here, first time with largest patient cohort reported studies,...
Antibiotic resistance is a global threat driven primarily by antibiotic use. We evaluated the effects of exposures on gut microbiomes and resistomes children at high risk colonization antibiotic-resistant bacteria. performed shotgun metagenomic sequencing 691 serially collected fecal samples from 80 (<18 years) undergoing hematopoietic cell transplantation. aerobic (cefepime, vancomycin, fluoroquinolones, aminoglycosides, macrolides, trimethoprim-sulfamethoxazole) anaerobic...
Abstract Background Repeated antibiotic treatment for recurrent CDI (rCDI) may promote the colonization of antimicrobial resistant (AR) microbes, which can worsen outcomes and increase risk drug-resistant infections. Fecal microbiota products a gut environment to CDI, but these treatments have inherently variable quality attributes, are difficult scale, transfer emerging pathogens. VE303 is defined consortium 8 purified, clonal bacterial strains, overcoming limitations. In CONSORTIUM Study...
ABSTRACT Disturbances in the gut microbiome is increasing correlated with neurodegenerative disorders, including Alzheimer’s Disease. The may fact influence disease pathology AD by triggering or potentiating systemic and neuroinflammation, thereby driving along “microbiota-gut-brain-axis”. Currently, drivers of cognitive decline symptomatic progression remain unknown understudied. Changes composition offer clues to potential physiologic neuropathologic changes that contribute decline. Here,...
The role of microbes and their metabolites in modulating tuft cell (TC) dynamics the large intestine relevance this pathway to infections is unknown. Here, we uncover that microbiome-driven colonic TC hyperplasia protects against Clostridioides difficile infection. Using selective antibiotics, demonstrate increased type 2 cytokines colon but not ileum. We causal microbiome phenotype using fecal matter transplantation administration consortia succinate-producing bacteria. Administration...
Clostridioides difficile disproportionally affects the elderly living in nursing homes (NHs). Our objective was to explore prevalence of C. NH elders, over time and determine whether microbiome or other clinical factors are associated with colonization.We collected serial stool samples from residents. determined by quantitative polymerase-chain reaction detection Toxin genes tcdA tcdB; composition shotgun metagenomic sequencing. We used mixed-effect random forest modeling machine bacterial...
Cranberry consumption has numerous health benefits, with experimental reports showing its anti-inflammatory and anti-tumor properties. Importantly, microbiome research demonstrated that the gastrointestinal bacterial community modulates host immunity, raising question of whether cranberry-derived effect may be related to ability modulate microbiome. Only a few studies have investigated cranberry products on date. Especially because cranberries are rich in dietary fibers, extent modulation by...
Abstract Background Infants receive their first bacteria from birthing parent. This newly acquired microbiome plays a pivotal role in developing robust immune system, the cornerstone of long-term health. Results We demonstrated that gut, vaginal, and oral microbial diversity pregnant women with SARS-CoV-2 infection is reduced, early infections exhibit different vaginal microbiota composition at time delivery compared to healthy control counterparts. Accordingly, low relative abundance two...
SARS-CoV-2-positive patients exhibit gut and oral microbiome dysbiosis, which is associated with various aspects of COVID-19 disease (1-4). Here, we aim to identify markers that predict severity in hospitalized patients, specifically severely ill compared moderately ones. Moreover, investigate whether hospital feeding (solid versus enteral), an important cofounder, influences the microbial composition patients. We used random forest classification machine learning models interpretable...