Microbial communities exhibit host species distinguishability and phylosymbiosis along the length of the gastrointestinal tract

Oscillospira and related bacteria - From metagenomic species to metabolic features

(2017) Uri Gophna et al.   ENVIRONMENTAL MICROBIOLOGY

Quantification of cerivastatin toxicity supports organismal performance assays as an effective tool during pharmaceutical safety assessment

(2016) Shannon M. Gaukler et al.   Evolutionary Applications

A place for host–microbe symbiosis in the comparative physiologist's toolbox

(2016) Kevin D. Kohl et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

Physiological and microbial adjustments to diet quality permit facultative herbivory in an omnivorous lizard

(2016) Kevin D. Kohl et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

Gut microbial ecology of lizards: insights into diversity in the wild, effects of captivity, variation across gut regions and transmission

(2016) Kevin D. Kohl et al.   MOLECULAR ECOLOGY

Oscillospira : a Central, Enigmatic Component of the Human Gut Microbiota

(2016) Tom Konikoff et al.   TRENDS IN MICROBIOLOGY

Phylosymbiosis: Relationships and Functional Effects of Microbial Communities across Host Evolutionary History

(2016) Andrew W. Brooks et al.   PLOS BIOLOGY

Getting the Hologenome Concept Right: an Eco-Evolutionary Framework for Hosts and Their Microbiomes

(2016) Kevin R. Theis et al.   mSystems

Spatial Heterogeneity of Gut Microbial Composition along the Gastrointestinal Tract in Natural Populations of House Mice

(2016) Taichi A. Suzuki et al.   PLoS One

Dietary input of microbes and host genetic variation shape among-population differences in stickleback gut microbiota

(2015) Chris CR Smith et al.   ISME Journal

What IsPeromyscus? Evidence from nuclear and mitochondrial DNA sequences suggests the need for a new classification

(2015) Roy N. Platt et al.   JOURNAL OF MAMMALOGY

Gut biogeography of the bacterial microbiota

(2015) Gregory P. Donaldson et al.   NATURE REVIEWS MICROBIOLOGY

Host Biology in Light of the Microbiome: Ten Principles of Holobionts and Hologenomes

(2015) Seth R. Bordenstein et al.   PLOS BIOLOGY

Phylogenetic Analysis of Bacterial Communities in Different Regions of the Gastrointestinal Tract of Agkistrodon piscivorus, the Cottonmouth Snake

(2015) Timothy J. Colston et al.   PLoS One

Intra- and Interindividual Variations Mask Interspecies Variation in the Microbiota of Sympatric Peromyscus Populations

(2014) Nielson T. Baxter et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Reagent and laboratory contamination can critically impact sequence-based microbiome analyses

(2014) Susannah J Salter et al.   BMC BIOLOGY

Individuals' diet diversity influences gut microbial diversity in two freshwater fish (threespine stickleback and Eurasian perch)

(2014) Daniel I. Bolnick et al.   ECOLOGY LETTERS

The effects of nutrition-induced abnormal food metabolism in the Southern Plains woodrat (Neotoma micropus ): comparisons of variations of the Western diet

(2014) D. M. Post et al.   JOURNAL OF ANIMAL PHYSIOLOGY AND ANIMAL NUTRITION

Phylogenetic signal in the community structure of host-specific microbiomes of tropical marine sponges

(2014) Cole G. Easson et al.   Frontiers in Microbiology

The microbes we eat: abundance and taxonomy of microbes consumed in a day’s worth of meals for three diet types

(2014) Jenna M. Lang et al.   PeerJ

Captivity results in disparate loss of gut microbial diversity in closely related hosts

(2014) K. D. Kohl et al.   Conservation Physiology

Effects of Anatomy and Diet on Gastrointestinal pH in Rodents

(2013) Kevin D. Kohl et al.   Journal of Experimental Zoology Part A-Ecological Genetics and Physiology

Diet rapidly and reproducibly alters the human gut microbiome

(2013) Lawrence A. David et al.   NATURE

Distinct antimicrobial peptide expression determines host species-specific bacterial associations

(2013) S. Franzenburg et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Animals in a bacterial world, a new imperative for the life sciences

(2013) Margaret McFall-Ngai et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Hologenomic Basis of Speciation: Gut Bacteria Cause Hybrid Lethality in the Genus Nasonia

(2013) R. M. Brucker et al.   SCIENCE

Investigation of the koala (Phascolarctos cinereus) hindgut microbiome via 16S pyrosequencing

(2013) Christopher J. Barker et al.   VETERINARY MICROBIOLOGY

Wild-caught rodents retain a majority of their natural gut microbiota upon entrance into captivity

(2013) Kevin D. Kohl et al.   Environmental Microbiology Reports

Mom Knows Best: The Universality of Maternal Microbial Transmission

(2013) Lisa J. Funkhouser et al.   PLOS BIOLOGY

Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms

(2012) J Gregory Caporaso et al.   ISME Journal

Microbiome analysis among bats describes influences of host phylogeny, life history, physiology and geography

(2012) CALEB D. PHILLIPS et al.   MOLECULAR ECOLOGY

The Application of Ecological Theory Toward an Understanding of the Human Microbiome

(2012) E. K. Costello et al.   SCIENCE

Speciation by symbiosis

(2012) Robert M. Brucker et al.   TRENDS IN ECOLOGY & EVOLUTION

Metagenomic biomarker discovery and explanation

(2011) Nicola Segata et al.   GENOME BIOLOGY

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Microbial community resemblance methods differ in their ability to detect biologically relevant patterns

(2010) Justin Kuczynski et al.   NATURE METHODS

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

Direct sequencing of the human microbiome readily reveals community differences

(2010) Justin Kuczynski et al.   GENOME BIOLOGY

PyNAST: a flexible tool for aligning sequences to a template alignment

(2009) J. G. Caporaso et al.   BIOINFORMATICS

FastTree: Computing Large Minimum Evolution Trees with Profiles instead of a Distance Matrix

(2009) M. N. Price et al.   MOLECULAR BIOLOGY AND EVOLUTION