R. E. Ley

Longitudinal comparison of the developing gut virome in infants and their mothers

This study compares the gut virome of 53 infants and their mothers over three years, finding distinct viral compositions and ongoing maturation of the infant virome.

Silent recognition of flagellins from human gut commensal bacteria by Toll-like receptor 5

The paper identifies a novel mechanism of TLR5 interaction with flagellins from gut commensal bacteria, termed silent recognition, which explains weak immune responses despite strong binding.

Codiversification of gut microbiota with humans

The paper identifies gut microbes that codiversified with human populations, showing vertical transmission and potential population-specific health benefits.

SynTracker: a synteny based tool for tracking microbial strains

SynTracker identifies microbial strain relationships using synteny analysis, detecting person-specific strains and strain-sharing events with high accuracy.

Inositol lipid synthesis is widespread in host-associated Bacteroidetes

This study identifies two pathways for inositol lipid synthesis in host-associated Bacteroidetes, showing their prevalence and potential role in host interactions.

Strong influence of vertebrate host phylogeny on gut archaeal diversity

This study investigates the influence of vertebrate host phylogeny on gut archaeal diversity using 16S rRNA sequencing, finding that host phylogeny explains diversity more than diet.

Free-living psychrophilic bacteria of the genus Psychrobacter are descendents of pathobionts

This study shows Psychrobacter evolved from warm-adapted pathobionts, with some losing the ability to grow at 37°C and adapting to cold environments.

Reclassification of Catabacter hongkongensis as Christensenella hongkongensis comb.nov. based on whole genome analysis

The paper reclassifies Catabacter hongkongensis into the genus Christensenella based on whole-genome analysis showing it belongs to the Christensenella clade.

Genomic insights into adaptations of TMA-utilizing methanogens to diverse habitats including the human gut

This study analyzes Methanomassiliicoccales genomes and metagenomes to understand their adaptation to diverse habitats, including the human gut, and their association with trimethylamine-producing bacteria.

Large scale metagenome assembly reveals novel animal-associated microbial genomes, biosynthetic gene clusters, and other genetic diversity

The paper performs large-scale metagenome assembly of animal gut microbiomes, revealing novel microbial genomes, biosynthetic gene clusters, and genetic diversity across vertebrates.

Syntrophy via interspecies H2 transfer between Christensenella and Methanobrevibacter underlies their global co-occurrence in the human gut

The paper shows that Christensenella and Methanobrevibacter species co-occur in the human gut due to interspecies H2 transfer, supporting a lean BMI association through metabolic interactions.

Sphingolipid production by gut Bacteroidetes regulates glucose homeostasis

This study shows gut Bacteroidetes produce sphingolipids that affect liver ceramide levels and insulin sensitivity.

Age and sex-dependent patterns of gut microbial diversity in human adults

The paper examines age and sex effects on gut microbial diversity across four adult cohorts, finding age-related diversity increases in young adults and sex differences in some groups.

The virome in adult monozygotic twins with concordant or discordant gut microbiomes

This study examines the relationship between microbiome diversity and virome diversity in adult monozygotic twins, finding that microbiome discordance correlates with virome dissimilarity.

Host diet and evolutionary history explain different aspects of gut microbiome diversity among vertebrate clades

The paper examines how host evolutionary history and diet influence gut microbiome diversity across vertebrate clades using a large dataset of wild animals.

Resilience of small intestinal beneficial bacteria to the toxicity of soybean oil fatty acids

This study shows that small intestinal lactobacilli can resist the toxicity of soybean oil fatty acids through environmental protection and evolutionary adaptation.