Isotopic and genetic methods reveal the role of the gut microbiome in mammalian host essential amino acid metabolism

My Stable Isotope Journey in Biogeochemistry, Geoecology, and Astrobiology

(2019) Marilyn Fogel   Geochemical Perspectives

High-Glucose or -Fructose Diet Cause Changes of the Gut Microbiota and Metabolic Disorders in Mice without Body Weight Change

(2018) Moon Do et al.   Nutrients

The Composition of Colonic Commensal Bacteria According to Anatomical Localization in Colorectal Cancer

(2017) Liuyang Zhao et al.   Engineering

Microbiome and metabolic disease: revisiting the bacterial phylum Bacteroidetes

(2016) Elizabeth L. Johnson et al.   JOURNAL OF MOLECULAR MEDICINE-JMM

DADA2: High-resolution sample inference from Illumina amplicon data

(2016) Benjamin J Callahan et al.   NATURE METHODS

Essential Amino Acid Supplementation by Gut Microbes of a Wood-Feeding Cerambycid

(2015) Paul A. Ayayee et al.   ENVIRONMENTAL ENTOMOLOGY

Relationships between diet-related changes in the gut microbiome and cognitive flexibility

(2015) K.R. Magnusson et al.   NEUROSCIENCE

KEGG as a reference resource for gene and protein annotation

(2015) Minoru Kanehisa et al.   NUCLEIC ACIDS RESEARCH

Can13C stable isotope analysis uncover essential amino acid provisioning by termite-associated gut microbes?

(2015) Paul A. Ayayee et al.   PeerJ

Biomass Utilization by Gut Microbiomes

(2014) Bryan A. White et al.   Annual Review of Microbiology

Gut microbes of mammalian herbivores facilitate intake of plant toxins

(2014) Kevin D. Kohl et al.   ECOLOGY LETTERS

High-resolution food webs based on nitrogen isotopic composition of amino acids

(2014) Yoshito Chikaraishi et al.   Ecology and Evolution

Amino Acid Nutrition in Animals: Protein Synthesis and Beyond

(2014) Guoyao Wu et al.   Annual Review of Animal Biosciences

Development of a Dual-Index Sequencing Strategy and Curation Pipeline for Analyzing Amplicon Sequence Data on the MiSeq Illumina Sequencing Platform

(2013) James J. Kozich et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Diet rapidly and reproducibly alters the human gut microbiome

(2013) Lawrence A. David et al.   NATURE

Re-print of “Intestinal luminal nitrogen metabolism: Role of the gut microbiota and consequences for the host”

(2013) Anne-Marie Davila et al.   PHARMACOLOGICAL RESEARCH

Host-compound foraging by intestinal microbiota revealed by single-cell stable isotope probing

(2013) D. Berry et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Emerging Perspectives on Essential Amino Acid Metabolism in Obesity and the Insulin-Resistant State

(2012) Sean H. Adams   Advances in Nutrition

Eating For Two: How Metabolism Establishes Interspecies Interactions in the Gut

(2011) Michael A. Fischbach et al.   Cell Host & Microbe

Contributions of direct incorporation from diet and microbial amino acids to protein synthesis in Nile tilapia

(2011) Seth D. Newsome et al.   FUNCTIONAL ECOLOGY

Metabolic adaptation to a high-fat diet is associated with a change in the gut microbiota

(2011) Matteo Serino et al.   GUT

Diet Drives Convergence in Gut Microbiome Functions Across Mammalian Phylogeny and Within Humans

(2011) B. D. Muegge et al.   SCIENCE

Composition and energy harvesting capacity of the gut microbiota: relationship to diet, obesity and time in mouse models

(2010) E F Murphy et al.   GUT

Feeding ecology and evidence for amino acid synthesis in the periodical cicada (Magicicada)

(2010) Hilary Christensen et al.   JOURNAL OF INSECT PHYSIOLOGY

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample

(2010) J. G. Caporaso et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Impact of diet in shaping gut microbiota revealed by a comparative study in children from Europe and rural Africa

(2010) C. De Filippo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Stable isotope fingerprinting: a novel method for identifying plant, fungal, or bacterial origins of amino acids

(2009) Thomas Larsen et al.   ECOLOGY

Micro-eukaryotic diversity of the human distal gut microbiota: qualitative assessment using culture-dependent and -independent analysis of faeces

(2008) Pauline D Scanlan et al.   ISME Journal

A comparison of methods for total community DNA preservation and extraction from various thermal environments

(2008) Kendra R. Mitchell et al.   JOURNAL OF INDUSTRIAL MICROBIOLOGY & BIOTECHNOLOGY

Worlds within worlds: evolution of the vertebrate gut microbiota

(2008) Ruth E. Ley et al.   NATURE REVIEWS MICROBIOLOGY

Evolution of Mammals and Their Gut Microbes

(2008) R. E. Ley et al.   SCIENCE