Gut microbiota and health

This study compares D- and L-lactate consumption by gut microbes, finding distinct microbial communities and metabolic pathways for each isomer.

The paper uses whole-body metabolic models to link gut microbiota to metabolic changes in Alzheimer's disease, identifying key microbial drivers and metabolites involved.

This study uses metatranscriptomic data to analyze how dietary composition affects gut microbiota function, finding that a fiber-rich diet promotes beneficial metabolic pathways while a low-fiber diet increases harmful protein and mucin degradation.

The paper compares gut microbiota and short-chain fatty acid (SCFA) patterns in Polish and Japanese children, finding similar SCFA trajectories despite divergent microbial communities.

The paper investigates how microbial communities adapt metabolically in different environments, showing changes in carbon usage, biosynthesis, and interactions across monocultures, in vitro communities, and the mouse gut.

This study examines how gut bacteria genomes adapt to industrialization, finding convergent genomic responses in stress response, cell envelope remodeling, and central metabolism across different populations.

The paper characterizes the diversity and prevalence of sulfate- and sulfite-reducing microorganisms in the human gut using metagenomic data from over 70,000 samples.

This study investigates long-term intestinal epithelial changes after acute protein-energy malnutrition using multi-omics approaches and identifies microbial lipid metabolites and epigenetic factors as key drivers of persistent Paneth cell dysfunction.

The paper investigates how industrialization affects microbial and physiological traits in the human gut across diverse populations, finding homogenized microbiomes, reduced diversity, and impaired disease prediction accuracy in less industrialized groups.

This paper develops self-supervised learning models for gut microbiome metagenomic data, showing improved prediction performance in data-limited and cross-cohort settings.

The paper identifies mucinolysomes as multi-enzyme complexes in gut microbiomes, showing their presence across 65 genomes and higher prevalence in farm animals than humans.

This study investigates the developmental emergence of phylosymbiosis in Peromyscus mice, finding that microbiome phylosymbiosis appears at pre-weaning while host transcriptome phylosymbiosis is only present at birth.

The paper investigates the association between gut microbiome composition and poliovirus vaccine seroconversion in children in the Democratic Republic of the Congo, finding that early presence of Campylobacter and Veillonella is linked to lower seroconversion rates.

This study transfers exuberant toddler gut microbiota to rats, increasing their exploratory behavior without affecting locomotion or social behavior.

This study uses multi-omics analysis to identify key biological changes in ASD children after microbiota transplant therapy, showing shifts in microbiome, metabolites, and symptoms.

This study identifies Escherichia coli as a key driver of B cell accumulation in Peyer's patches via CXCR2-dependent mechanisms involving curli amyloid fibers and TLR2 signaling.

The paper shows that mammalian cells produce certain indole and phenol metabolites, while bacterial metabolism is required for others, highlighting host contributions to circulating pools.

The paper identifies age-related microbiome metabolites that alter RNA splicing and chromatin accessibility in the mouse brain using metabolomics, transcriptomic, and multi-omic approaches.

This study shows that pre-treatment gut microbiome diversity in HIV patients correlates with immune activation and reduced HIV RNA+ cells after N-803 treatment.

The paper introduces AIRRWAS, a framework to identify T cell receptor convergence with bacterial genera, revealing reproducible associations across cohorts and functional T cell responses.

This study shows that Bacteroides thetaiotaomicron modulates gene expression in intestinal epithelial cells to promote mucosal repair and barrier function during gut inflammation resolution.

This paper introduces MSSM, a method for high-resolution spatial metagenomics that enables strain-level analysis of gut microbiomes at the microscale.

This study develops a method to analyze microbiome DNA syntax using SIG-mers to distinguish healthy from diseased states across diverse populations.

This study shows that gut insulin receptor loss increases intestinal permeability and susceptibility to infections by impairing Paneth cell function and intestinal stem cell homeostasis.

The paper shows that gut bacteria like Klebsiella oxytoca, under anoxic conditions, suppress Acinetobacter baumannii through metabolites from specific carbohydrates like maltose.

The paper develops MetaGEAR, a gene-centric metagenomic analysis framework, to investigate microbiome functionality in diseases and identify disease signature genes and mobile genetic elements.

The paper reports shotgun gut metagenomes and assembled microbial genomes from an urban Colombian cohort, complementing existing 16S rRNA gene and host data.

The paper uses a colon simulator to study microbial lipid shifts in the gut and validates findings using human samples.

The paper identifies oral-gut microbial translocation in ACLD patients linked to intestinal barrier dysfunction and hepatic fibrosis, with prtC encoding bacteria as a biomarker.