Gut microbiota and health

Metabolic modeling and functional genomics reveal taxa and host gene interactions in colorectal cancer

The paper investigates host-microbiome metabolic interactions in colorectal cancer using computational and experimental methods, revealing how tumor metabolic changes support pathogenic microbes.

Longitudinal Changes in Nasal and Oral Microbiome and Antimicrobial Resistance Gene Profiles in Response to Human Fecal Microbiota Transplantation

This study examines how fecal microbiota transplantation affects nasal and oral microbiomes and antimicrobial resistance genes in the upper respiratory tract.

Isolation and metabolomic analysis of the culturable human gut mycobiota during dysbiosis

This study isolates and analyzes fungal communities from dysbiotic gut samples, identifying thermotolerant species and their potential roles in disease through metabolomic profiling.

Enteroscape: An agent-based model for simulating microbial dynamics and host responses in the gut ecosystem

Enteroscape simulates microbial dynamics and host responses in C. elegans to study pathogenic yeast infections and probiotic effects.

Sex Differences in the Effects of Controlled Circadian Dysregulation on Gut Microbiome and Intestinal Barrier Architecture

This study shows that circadian dysregulation caused by shifted light-dark cycles worsens gut microbiome and intestinal barrier issues more in male than female rats, contributing to sex differences in stroke outcomes.

Microbial general model: Leveraging large language model for contextualized microbiome analysis

The paper introduces MGM, a foundation model for microbiome analysis, showing improved classification and detection of dynamic patterns across diverse contexts.

Micro-engineered Konjac Glucomannan-Montmorillonite Hybrids as Multifunctional Biomaterials for Addressing Diet-Induced Obesity in Mice

This paper evaluates a konjac glucomannan-montmorillonite hybrid in mice, showing reduced weight gain and improved metabolic markers.

Longitudinal Long-Read Microbiome Profiling in a Canine Model Reveals How Age, Diet, and Birth Mode Shape Gut Community Dynamics

This study uses longitudinal long-read 16S rRNA sequencing in dogs to show how age, diet, and birth mode shape gut microbiome development, revealing structured transitions and delivery-mode effects.

Niche specialization and cross-feeding interactions shaping gut microbial fiber degradation in a model omnivore

This study investigates how gut microbial communities in cockroaches degrade xylan and cellulose using synthetic diets and identifies niche specialization and cross-feeding interactions.

Beyond Microbial Abundance: Metadata Integration Enhances Disease Prediction in Human Microbiome Studies

This study integrates host and sample metadata with microbiome abundance profiles to improve disease prediction models using machine learning.

Profound taxonomic and functional gut microbiota alterations associated with trichuriasis: cross-country and country-specific patterns

This study identifies consistent taxonomic and functional gut microbiota changes associated with Trichuris trichiura infection across three countries, revealing shared ecological responses and metabolic impacts.

Stool Dynamics and the Developing Gut Microbiome During Infancy

This study examines how stool timing, sleep, and feeding affect the gut microbiome composition in infants, finding associations between longer intervals since last defecation and increased microbial diversity.

Faecalibacterium prausnitzii induces an anti-inflammatory response and a metabolic reprogramming in human monocytes

This study shows that Faecalibacterium prausnitzii induces IL-10 production and metabolic changes in human monocytes, with anti-inflammatory effects and mitochondrial dependence.

Methanogenic archaea bolster mucosal homeostasis and protect from colitis

This study shows that methanogenic archaea enhance intestinal epithelial regeneration, mucus production, and regulatory T cell accumulation, protecting against colitis.

Inflammation is the Driver of Butyrate-Producing Bacteria Change in Interleukin10 Knockout Mice

This study examines changes in butyrate-producing bacteria in interleukin10 knockout mice, finding increased inflammation and shifts in microbial metabolism associated with IBD.

Taxonomic-free metagenome GWAS to identify gut microbiome functions influencing host phenotypes

The paper develops a taxonomy-free GWAS method using k-mers to analyze gut microbiome associations with host phenotypes, identifying significant links to seven traits in a cohort of healthy participants.

MaAsLin 3: Refining and extending generalized multivariable linear models for meta-omic association discovery

MaAsLin 3 fits hurdle models separating microbial prevalence (augmented logistic) and abundance (median-adjusted log-linear) associations, improving precision over existing differential abundance tools and showing 77% of IBD associations are prevalence-driven.

Lactiplantibacillus plantarum PS128 restores microbiota-driven polyamine homeostasis to alleviate autism-like behaviors in Fmr1 knockout mice

This study shows that Lactiplantibacillus plantarum PS128 improves autism-like behaviors in Fmr1 knockout mice by restoring gut microbiota-driven polyamine homeostasis.

Functional Immuno-metagenomics Seizes the Alteration of Microbiota-Immune Interactions at the Early Onset of Multiple Sclerosis

The paper develops IMscore and IMGindex to assess gut microbiota-immune interactions and identify aberrant microbe-immune responses in early Multiple Sclerosis.

My Gut Feels Your Pain - The Social Transfer of Pain Remodels the Gut Microbiome

This study shows that social transfer of pain in mice alters the gut microbiome of bystander animals, resembling changes seen in pain-injected mice.

Microbiota-Based Interventions Differentially Rescue Gut and Social Behavior Phenotypes in a Drosophila Autism-like Model

This study evaluates microbiota-based interventions in a Drosophila ASD model, showing that Lactobacillus plantarum restores gut microbes but not social behavior, while L. helveticus improves social behavior with minimal microbial impact.

Dual Oxygen-Partitioned Co-Culture Uncovers Microbe-Specific Epithelial Stress and Homeostatic Programs

This study uses a dual oxygen-partitioned co-culture system to analyze how different gut microbes affect intestinal epithelial cells, revealing distinct stress and homeostatic responses.

Identification of specific gut bacteria and metabolomic signatures related to Myocardial Insulin Resistance in Type 2 Diabetes

This study identifies gut bacteria and metabolomic signatures associated with myocardial insulin resistance in T2DM patients using microbiome and metabolomic analyses.

EPITHELIAL REMODELING AND MICROBIAL DYSBIOSIS IN THE LOWER RESPIRATORY TRACT OF VITAMIN A-DEFICIENT MOUSE LUNGS

Vitamin A deficiency in mice causes epithelial remodeling, ciliary dysfunction, loss of mucociliary clearance, and increased microbial abundance in the lungs.

Shipped and shifted: modeling collection-induced bias in microbiome multi-omics using a tractable fermentation system

This study models collection-induced bias in microbiome multi-omics using a fermentation system, showing temperature strongly affects microbial and metabolic profiles.

A molecular inventory of the faecal microbiomes of 23 marsupial species

This paper presents a comprehensive analysis of the faecal microbiomes of 23 marsupial species, revealing novel microbial genomes and highlighting the influence of host phylogeny on microbiome composition.

Gut MicrobiotAware: how much do we know about gut microbiota? An international questionnaire.

This study assesses public and healthcare professionals' knowledge of gut microbiota and evaluates their understanding of its health links to improve communication strategies.

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.

Oral Fumarate-based drugs alter gut microbiota species via cysteine succination

This study shows fumarate-based drugs modify gut bacteria via cysteine succination, affecting their functions and interactions in both isolated cultures and microbial communities.

A mediterranean-mimicking diet harnesses gut microbiota-derived 3-IAA to rejuvenate T cell

This study shows a Mediterranean diet enhances antitumor immunity via gut microbiota-derived 3-IAA, which boosts T cell function and synergizes with immunotherapy.