List of works - Ruth Ley

A core gut microbiome in obese and lean twins

scientific article

A framework for human microbiome research

scientific article

A guide to enterotypes across the human body: meta-analysis of microbial community structures in human microbiome datasets

scientific article

AIEC pathobiont instigates chronic colitis in susceptible hosts by altering microbiota composition

scientific article

Advancing the microbiome research community

scientific article

Alteration of Ecosystem Nitrogen Dynamics by Exotic Plants: A Case Study of C 4 Grasses in Hawaii

article

Alterations to the Gut Microbiome Impair Bone Strength and Tissue Material Properties

scientific article

An obesity-associated gut microbiome with increased capacity for energy harvest

scientific article (publication date: 21 December 2006)

Analysis of gut microbial regulation of host gene expression along the length of the gut and regulation of gut microbial ecology through MyD88.

scientific article

Author Correction: Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2

scientific article published on 01 September 2019

Bacterial community in the crop of the hoatzin, a neotropical folivorous flying bird

scientific article (publication date: October 2008)

Blowing Hot and Cold: Body Temperature and the Microbiome

scientific article published in 2021

Branched chain fatty acids reduce the incidence of necrotizing enterocolitis and alter gastrointestinal microbial ecology in a neonatal rat model

scientific article

Complexity in natural microbial ecosystems: the Guerrero Negro experience

scientific article

Conducting a microbiome study

scientific article

Corralling Colonic Flagellated Microbiota

scientific article

Cross-species comparisons of host genetic associations with the microbiome

scientific article

Crossover Control Study of the Effect of Personal Care Products Containing Triclosan on the Microbiome

scientific article published on 18 May 2016

Defining the core Arabidopsis thaliana root microbiome

scientific article

Development of the human gastrointestinal microbiota and insights from high-throughput sequencing

scientific article published on May 2011

Diet-induced alterations in gut microflora contribute to lethal pulmonary damage in TLR2/TLR4-deficient mice

scientific article

Dietary emulsifiers impact the mouse gut microbiota promoting colitis and metabolic syndrome

scientific article published on 25 February 2015

Direct sequencing of the human microbiome readily reveals community differences

scientific article

Discordance between changes in the gut microbiota and pathogenicity in a mouse model of spontaneous colitis.

scientific article

Diversity and heritability of the maize rhizosphere microbiome under field conditions

scientific article published on April 2013

Enterotypes in the landscape of gut microbial community composition.

scientific article published on 18 December 2017

Epithelial Sel1L is required for the maintenance of intestinal homeostasis

scientific article published on 2 December 2015

Erratum to: signatures of early frailty in the gut microbiota

scientific article published on 17 February 2016

Eucaryotic diversity in a hypersaline microbial mat.

scientific article

Evolution of mammals and their gut microbes

scientific article (publication date: 20 June 2008)

Evolution of symbiotic bacteria in the distal human intestine

scientific article

Exotic grass invasion alters potential rates of N fixation in Hawaiian woodlands

scientific article published on January 1998

Expanding the scope and scale of microbiome research

scientific article published on 05 September 2019

Exploring the maize rhizosphere microbiome in the field: A glimpse into a highly complex system

scientific article

Fungal and bacterial responses to phenolic compounds and amino acids in high altitude barren soils

article

Genetic Determinants of the Gut Microbiome in UK Twins

scientific article published on May 2016

Genomic features of bacterial adaptation to plants.

scientific article published on 18 December 2017

Gut microbiota as an epigenetic regulator: pilot study based on whole-genome methylation analysis

scientific article

Gut microbiota in 2015: Prevotella in the gut: choose carefully

scientific article published in February 2016

Gut-Microbiota-Metabolite Axis in Early Renal Function Decline

scientific article published on 4 August 2015

Heritable components of the human fecal microbiome are associated with visceral fat.

scientific article published on 26 September 2016

Host genetic variation impacts microbiome composition across human body sites

scientific article

Host remodeling of the gut microbiome and metabolic changes during pregnancy

scientific article

Host-bacterial coevolution and the search for new drug targets

scientific article published on February 2008

Host-bacterial mutualism in the human intestine

scientific article (publication date: 25 March 2005)

Human genetics shape the gut microbiome.

scientific article

Human microbiome science: vision for the future, Bethesda, MD, July 24 to 26, 2013

scientific article

Human oral, gut, and plaque microbiota in patients with atherosclerosis

scientific article

Impact of training sets on classification of high-throughput bacterial 16s rRNA gene surveys

scientific article

Innate and adaptive immunity interact to quench microbiome flagellar motility in the gut

scientific article

Innate immunity and intestinal microbiota in the development of Type 1 diabetes

scientific article

Interactions between the Gut Microbiome and Mucosal Immunoglobulins A, M, and G in the Developing Infant Gut

scientific article published on 26 November 2019

Interleukin-1β (IL-1β) promotes susceptibility of Toll-like receptor 5 (TLR5) deficient mice to colitis

scientific article published on 5 June 2011

Intestinal epithelial cell toll-like receptor 5 regulates the intestinal microbiota to prevent low-grade inflammation and metabolic syndrome in mice

scientific article

Large-scale replicated field study of maize rhizosphere identifies heritable microbes.

scientific article published on 25 June 2018

Linking genetic variation in human Toll-like receptor 5 genes to the gut microbiome's potential to cause inflammation

scientific article

Metabolic syndrome and altered gut microbiota in mice lacking Toll-like receptor 5

scientific article (publication date: 9 April 2010)

Methane Emission in a Specific Riparian-Zone Sediment Decreased with Bioelectrochemical Manipulation and Corresponded to the Microbial Community Dynamics

scientific article

Microbial ecology: human gut microbes associated with obesity

scientific article (publication date: 21 December 2006)

Microbiome and metabolic disease: revisiting the bacterial phylum Bacteroidetes

scientific article published on 29 November 2016

Microbiota and Host Nutrition across Plant and Animal Kingdoms

scientific article

Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications

scientific article

Novel Rhizosphere Soil Alleles for the Enzyme 1-Aminocyclopropane-1-Carboxylate Deaminase Queried for Function with an In Vivo Competition Assay

scientific article published on 4 December 2015

Obesity alters gut microbial ecology

scientific article

Obesity and the human microbiome

scientific article (publication date: 2010)

Potential applications of next generation DNA sequencing of 16S rRNA gene amplicons in microbial water quality monitoring.

scientific article published on November 2015

Probiotics, prebiotics, and the host microbiome: the science of translation ⬇️

scientific article (publication date: December 2013)

Proton pump inhibitors alter the composition of the gut microbiota

scientific article

Publisher Correction: Enterotypes in the landscape of gut microbial community composition

scientific article published on 13 February 2018

QIIME allows analysis of high-throughput community sequencing data

scientific article

Questioning the fetal microbiome illustrates pitfalls of low-biomass microbial studies

scientific article published in 2023

Reciprocal gut microbiota transplants from zebrafish and mice to germ-free recipients reveal host habitat selection

scientific article published on October 2006

Reduced diversity and altered composition of the gut microbiome in individuals with myalgic encephalomyelitis/chronic fatigue syndrome

scientific article

Reply to "Triclocarban and Health: the Jury Is Still Out".

scientific article published on 2 November 2016

Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2

scientific article published on 01 August 2019

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

scientific article published on 27 March 2018

Responses of gut microbiota to diet composition and weight loss in lean and obese mice

scientific article published on 19 May 2011

Selection on soil microbiomes reveals reproducible impacts on plant function

scientific article

Signatures of early frailty in the gut microbiota

scientific article published on 29 January 2016

Soil ecological interactions: comparisons between tropical and subalpine forests.

scientific article published on August 2001

Sphingolipids in host-microbial interactions

scientific article published on 9 January 2018

Sphingolipids produced by gut bacteria enter host metabolic pathways impacting ceramide levels

scientific article published on 18 May 2020

Strain-Level Analysis of Bifidobacterium spp. from Gut Microbiomes of Adults with Differing Lactase Persistence Genotypes

scientific article published on 29 September 2020

Structure, function and diversity of the healthy human microbiome

scientific article

Subfreezing activity of microorganisms and the potential habitability of Mars' polar regions

scientific article published on January 2003

Succession of microbial consortia in the developing infant gut microbiome

scientific article

Supervised classification of microbiota mitigates mislabeling errors

scientific article

Syntrophy via Interspecies H2 Transfer between Christensenella and Methanobrevibacter Underlies Their Global Cooccurrence in the Human Gut

scientific article published on 04 February 2020

TGR5 contributes to glucoregulatory improvements after vertical sleeve gastrectomy in mice

scientific article

The Earth Microbiome Project: Meeting report of the "1 EMP meeting on sample selection and acquisition" at Argonne National Laboratory October 6 2010.

scientific article

The Relationship Between the Human Genome and Microbiome Comes into View

scientific article published on 20 September 2017

The antibacterial lectin RegIIIgamma promotes the spatial segregation of microbiota and host in the intestine

scientific article

The gene-microbe link

scientific article published on February 2015

The human gut and groundwater harbor non-photosynthetic bacteria belonging to a new candidate phylum sibling to Cyanobacteria

scientific article

The human gut microbiome: ecology and recent evolutionary changes

scientific article

The human intestinal microbiota and its relationship to energy balance

The human microbiome project

scientific article (publication date: 18 October 2007)

The human microbiome: eliminating the biomedical/environmental dichotomy in microbial ecology

scientific article

The role of the microbiota in human genetic adaptation

scientific article

The “Minimum Information about an ENvironmental Sequence” (MIENS) specification

Transient inability to manage proteobacteria promotes chronic gut inflammation in TLR5-deficient mice

scientific article

Unexpected diversity and complexity of the Guerrero Negro hypersaline microbial mat

scientific article (publication date: May 2006)

Unravelling the effects of the environment and host genotype on the gut microbiome ⬇️

scientific article published on April 1, 2011

Vertical sleeve gastrectomy reduces blood pressure and hypothalamic endoplasmic reticulum stress in mice.

scientific article published on 12 January 2017

Worlds within worlds: evolution of the vertebrate gut microbiota

scientific article (publication date: October 2008)

List of works by Ruth Ley

A core gut microbiome in obese and lean twins

A framework for human microbiome research

A guide to enterotypes across the human body: meta-analysis of microbial community structures in human microbiome datasets

AIEC pathobiont instigates chronic colitis in susceptible hosts by altering microbiota composition

Advancing the microbiome research community

Alteration of Ecosystem Nitrogen Dynamics by Exotic Plants: A Case Study of C 4 Grasses in Hawaii

Alterations to the Gut Microbiome Impair Bone Strength and Tissue Material Properties

An obesity-associated gut microbiome with increased capacity for energy harvest

Analysis of gut microbial regulation of host gene expression along the length of the gut and regulation of gut microbial ecology through MyD88.

Author Correction: Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2

Bacterial community in the crop of the hoatzin, a neotropical folivorous flying bird

Blowing Hot and Cold: Body Temperature and the Microbiome

Branched chain fatty acids reduce the incidence of necrotizing enterocolitis and alter gastrointestinal microbial ecology in a neonatal rat model

Complexity in natural microbial ecosystems: the Guerrero Negro experience

Conducting a microbiome study

Corralling Colonic Flagellated Microbiota

Cross-species comparisons of host genetic associations with the microbiome

Crossover Control Study of the Effect of Personal Care Products Containing Triclosan on the Microbiome

Defining the core Arabidopsis thaliana root microbiome

Development of the human gastrointestinal microbiota and insights from high-throughput sequencing

Diet-induced alterations in gut microflora contribute to lethal pulmonary damage in TLR2/TLR4-deficient mice

Dietary emulsifiers impact the mouse gut microbiota promoting colitis and metabolic syndrome

Direct sequencing of the human microbiome readily reveals community differences

Discordance between changes in the gut microbiota and pathogenicity in a mouse model of spontaneous colitis.

Diversity and heritability of the maize rhizosphere microbiome under field conditions

Enterotypes in the landscape of gut microbial community composition.

Epithelial Sel1L is required for the maintenance of intestinal homeostasis

Erratum to: signatures of early frailty in the gut microbiota

Eucaryotic diversity in a hypersaline microbial mat.

Evolution of mammals and their gut microbes

Evolution of symbiotic bacteria in the distal human intestine

Exotic grass invasion alters potential rates of N fixation in Hawaiian woodlands

Expanding the scope and scale of microbiome research

Exploring the maize rhizosphere microbiome in the field: A glimpse into a highly complex system

Fungal and bacterial responses to phenolic compounds and amino acids in high altitude barren soils

Genetic Determinants of the Gut Microbiome in UK Twins

Genomic features of bacterial adaptation to plants.

Gut microbiota as an epigenetic regulator: pilot study based on whole-genome methylation analysis

Gut microbiota in 2015: Prevotella in the gut: choose carefully

Gut-Microbiota-Metabolite Axis in Early Renal Function Decline

Heritable components of the human fecal microbiome are associated with visceral fat.

Host genetic variation impacts microbiome composition across human body sites

Host remodeling of the gut microbiome and metabolic changes during pregnancy

Host-bacterial coevolution and the search for new drug targets

Host-bacterial mutualism in the human intestine

Human genetics shape the gut microbiome.

Human microbiome science: vision for the future, Bethesda, MD, July 24 to 26, 2013

Human oral, gut, and plaque microbiota in patients with atherosclerosis

Impact of training sets on classification of high-throughput bacterial 16s rRNA gene surveys

Innate and adaptive immunity interact to quench microbiome flagellar motility in the gut

Innate immunity and intestinal microbiota in the development of Type 1 diabetes

Interactions between the Gut Microbiome and Mucosal Immunoglobulins A, M, and G in the Developing Infant Gut

Interleukin-1β (IL-1β) promotes susceptibility of Toll-like receptor 5 (TLR5) deficient mice to colitis

Intestinal epithelial cell toll-like receptor 5 regulates the intestinal microbiota to prevent low-grade inflammation and metabolic syndrome in mice

Large-scale replicated field study of maize rhizosphere identifies heritable microbes.

Linking genetic variation in human Toll-like receptor 5 genes to the gut microbiome's potential to cause inflammation

Metabolic syndrome and altered gut microbiota in mice lacking Toll-like receptor 5

Methane Emission in a Specific Riparian-Zone Sediment Decreased with Bioelectrochemical Manipulation and Corresponded to the Microbial Community Dynamics

Microbial ecology: human gut microbes associated with obesity

Microbiome and metabolic disease: revisiting the bacterial phylum Bacteroidetes

Microbiota and Host Nutrition across Plant and Animal Kingdoms

Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications

Novel Rhizosphere Soil Alleles for the Enzyme 1-Aminocyclopropane-1-Carboxylate Deaminase Queried for Function with an In Vivo Competition Assay

Obesity alters gut microbial ecology

Obesity and the human microbiome

Potential applications of next generation DNA sequencing of 16S rRNA gene amplicons in microbial water quality monitoring.

Probiotics, prebiotics, and the host microbiome: the science of translation ⬇️

Proton pump inhibitors alter the composition of the gut microbiota

Publisher Correction: Enterotypes in the landscape of gut microbial community composition

QIIME allows analysis of high-throughput community sequencing data

Questioning the fetal microbiome illustrates pitfalls of low-biomass microbial studies

Reciprocal gut microbiota transplants from zebrafish and mice to germ-free recipients reveal host habitat selection

Reduced diversity and altered composition of the gut microbiome in individuals with myalgic encephalomyelitis/chronic fatigue syndrome

Reply to "Triclocarban and Health: the Jury Is Still Out".

Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2

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

Responses of gut microbiota to diet composition and weight loss in lean and obese mice

Selection on soil microbiomes reveals reproducible impacts on plant function

Signatures of early frailty in the gut microbiota