Ashley M. Sidebottom

SpiE is a distinct gut microbial 4-cholesten-3-one 5β-reductase that acts with SpiR to convert cholesterol to coprostanol

The paper identifies SpiE as a gut microbial enzyme that, along with SpiR, converts cholesterol to coprostanol, and shows its correlation with stool coprostanol levels and antibiotic impact.

Eubacterium rectale detoxification mechanism increases resilience of the gut environment

This study identifies Eubacterium rectale's detoxification mechanism, showing its ability to reduce ROS and inflammation in gut cells through glutathione production.

Epithelial-Intrinsic Alterations and Maladaptation to Luminal Metabolites Underlie Persistent Crohn's Disease Pathogenesis

The paper investigates whether persistent inflammation in Crohn's disease is due to environmental triggers or intrinsic epithelial changes by comparing organoid and tissue data from patients in remission.

Home is Where the Heterogeneity Is: Housing Facility-level Differences in the Gut Microbiome and Metabolic Phenotype Confound Arsenic Effects on Glucose Homeostasis in Male Mice

This study shows that housing facility differences in gut microbiome and metabolism confound arsenic effects on glucose homeostasis in mice, with facility explaining more variance than arsenic exposure.

Distribution of luxS and production of autoinducer-2 among gut Bacteroidales

This study investigates the distribution of luxS and AI-2 production in gut Bacteroidales, showing that many species produce AI-2 but do not respond to it.

Microbiome histidine competition mediates dietary control of systemic imidazole propionate

This study shows dietary glutamate influences ImP production via microbial competition, affecting glucose tolerance and systemic ImP levels.

Gut Microbiota-derived Acetate Safeguards the Colonic Epithelial Acetyl-CoA Reserve to Avert Colonic Senescence

The paper shows that acetate from gut microbiota maintains acetyl-CoA levels in colonic epithelial cells, preventing age-independent senescence and inflammation.

Gut microbes mediate the synergistic effects of dietary cholesterol and saturated fat in driving fibrosing MASH

This study shows that dietary cholesterol and saturated fat together drive fibrosing MASH via gut microbiota changes, specifically increasing Parasutterella spp. and activating hepatic stellate cells.

Fecal Metabolite Quantitation for Rapid Assessment of the Gut Microbiome

This paper presents a rapid diagnostic test to measure fecal butyrate and deoxycholic acid concentrations as markers of microbiome function, enabling quick identification of patients with microbiome deficiencies.

Lantibiotic-producing bacteria impact microbiome resilience and colonization resistance

This study shows lantibiotic-producing bacteria reduce microbiome resilience and increase susceptibility to infections after antibiotic treatment.

Gut Bacteria Metabolize Natural and Synthetic Steroid Hormones via the Reductive OsrABC Pathway

The paper identifies a novel gut bacterial pathway for steroid hormone metabolism and shows its impact on drug efficacy in Crohn's disease.

DNA-utilization loci enable exogenous DNA metabolism in gut Bacteroidales

This study identifies DNA-utilization loci in gut Bacteroidales that metabolize exogenous DNA into deaminated nucleobases, revealing a conserved pathway with implications for host-microbe interactions.

Intracellular acidification by bacteria-derived valeric acid is a mechanism of trans-kingdom ecology against Candida parapsilosis colonization

The paper uses machine learning to identify valeric acid as a bacterial metabolite that inhibits Candida parapsilosis growth through intracellular acidification, reducing fungal colonization in mice.

Protection against Clostridioides difficile disease by a naturally avirulent C. difficile strain

This paper shows that an avirulent C. difficile strain, ST1-75, protects mice from virulent strain-induced colitis by outcompeting it through rapid amino acid depletion, suggesting potential as a biotherapeutic for CDI prevention.

Comprehensive analyses of a large human gut Bacteroidales culture collection reveal species and strain level diversity and evolution

The paper characterizes a large collection of Bacteroidales isolates from the human gut, revealing genomic and metabolomic diversity and horizontal gene transfer across species.

MICROBIOME-MODIFIED METABOLITES PREDICT ACUTE BRAIN INJURY OUTCOME

The paper identifies microbiome-modified metabolites associated with functional outcomes in acute brain injury patients.

An evolution-based framework for describing human gut bacteria

The paper describes bacterial strains in the human gut using a statistical model based on their evolutionary history to predict metabolic phenotypes and engineer consortia.

Peptide YY: a novel Paneth cell antimicrobial peptide that maintains fungal commensalism

This paper identifies peptide YY (PYY) as a novel antimicrobial peptide produced by Paneth cells with selective antifungal activity against Candida albicans hyphae, maintaining gut fungal commensalism.