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

Lessons from Digestive-Tract Symbioses Between Bacteria and Invertebrates

(2016) Joerg Graf   Annual Review of Microbiology

Regulation of Vascular and Renal Function by Metabolite Receptors

(2016) János Peti-Peterdi et al.   Annual Review of Physiology

Microbial Reconstitution Reverses Maternal Diet-Induced Social and Synaptic Deficits in Offspring

(2016) Shelly A. Buffington et al.   CELL

From Dietary Fiber to Host Physiology: Short-Chain Fatty Acids as Key Bacterial Metabolites

(2016) Ara Koh et al.   CELL

Host Selection of Microbiota via Differential Adhesion

(2016) Kirstie McLoughlin et al.   Cell Host & Microbe

Intestinal Crosstalk between Bile Acids and Microbiota and Its Impact on Host Metabolism

(2016) Annika Wahlström et al.   Cell Metabolism

Altered Microbiota Contributes to Reduced Diet-Induced Obesity upon Cold Exposure

(2016) Marika Ziętak et al.   Cell Metabolism

Effects of environmental temperature on the gut microbial communities of tadpoles

(2016) Kevin D. Kohl et al.   ENVIRONMENTAL MICROBIOLOGY

Early-life exercise may promote lasting brain and metabolic health through gut bacterial metabolites

(2016) Agnieszka Mika et al.   IMMUNOLOGY AND CELL BIOLOGY

Microbial Community Transplant Results in Increased and Long-Term Oxalate Degradation

(2016) Aaron W. Miller et al.   MICROBIAL ECOLOGY

Accounting for reciprocal host–microbiome interactions in experimental science

(2016) Thaddeus S. Stappenbeck et al.   NATURE

Normalizing the environment recapitulates adult human immune traits in laboratory mice

(2016) Lalit K. Beura et al.   NATURE

Acetate mediates a microbiome–brain–β-cell axis to promote metabolic syndrome

(2016) Rachel J. Perry et al.   NATURE

The maternal microbiota drives early postnatal innate immune development

(2016) M. Gomez de Aguero et al.   SCIENCE

Do Vertebrate Gut Metagenomes Confer Rapid Ecological Adaptation?

(2016) Antton Alberdi et al.   TRENDS IN ECOLOGY & EVOLUTION

Gut Microbiotas and Host Evolution: Scaling Up Symbiosis

(2016) Michael Shapira   TRENDS IN ECOLOGY & EVOLUTION

Holes in the Hologenome: Why Host-Microbe Symbioses Are Not Holobionts

(2016) Angela E. Douglas et al.   mBio

Marked variation between winter and spring gut microbiota in free-ranging Tibetan Macaques (Macaca thibetana)

(2016) Binghua Sun et al.   Scientific Reports

The Gut Microbiota Modulates Energy Metabolism in the Hibernating Brown Bear Ursus arctos

(2016) Felix Sommer et al.   Cell Reports

Metabarcoding of fungal communities associated with bark beetles

(2016) Kirsten E. Miller et al.   Ecology and Evolution

Microbiota-driven transcriptional changes in prefrontal cortex override genetic differences in social behavior

(2016) Mar Gacias et al.   eLife

Pika Population Density Is Associated with the Composition and Diversity of Gut Microbiota

(2016) Huan Li et al.   Frontiers in Microbiology

The Woodrat Gut Microbiota as an Experimental System for Understanding Microbial Metabolism of Dietary Toxins

(2016) Kevin D. Kohl et al.   Frontiers in Microbiology

The Microbiome of Animals: Implications for Conservation Biology

(2016) Simon Bahrndorff et al.   International Journal of Genomics

Comparison of placenta samples with contamination controls does not provide evidence for a distinct placenta microbiota

(2016) Abigail P. Lauder et al.   Microbiome

Social behavior shapes the chimpanzee pan-microbiome

(2016) A. H. Moeller et al.   Science Advances

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

(2016) Kevin R. Theis et al.   mSystems

Bacterial and Archaeal Diversity in the Gastrointestinal Tract of the North American Beaver (Castor canadensis)

(2016) Robert J. Gruninger et al.   PLoS One

Akkermansia muciniphila Adheres to Enterocytes and Strengthens the Integrity of the Epithelial Cell Layer

(2015) Justus Reunanen et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

On the origin of species: Factors shaping the establishment of infant's gut microbiota

(2015) Niels van Best et al.   BIRTH DEFECTS RESEARCH PART C-EMBRYO TODAY-REVIEWS

Indigenous Bacteria from the Gut Microbiota Regulate Host Serotonin Biosynthesis

(2015) Jessica M. Yano et al.   CELL

Gut Microbiota Orchestrates Energy Homeostasis during Cold

(2015) Claire Chevalier et al.   CELL

Biogeography of the Intestinal Mucosal and Lumenal Microbiome in the Rhesus Macaque

(2015) Koji Yasuda et al.   Cell Host & Microbe

Diet Dominates Host Genotype in Shaping the Murine Gut Microbiota

(2015) Rachel N. Carmody et al.   Cell Host & Microbe

Effects of Diurnal Variation of Gut Microbes and High-Fat Feeding on Host Circadian Clock Function and Metabolism

(2015) Vanessa Leone et al.   Cell Host & Microbe

Regulation of energy balance by a gut–brain axis and involvement of the gut microbiota

(2015) Paige V. Bauer et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

The intestinal microbiome and skeletal fitness: Connecting bugs and bones

(2015) Julia F. Charles et al.   CLINICAL IMMUNOLOGY

Innate immune responses to gut microbiota differ between oceanic and freshwater threespine stickleback populations

(2015) Kathryn Milligan-Myhre et al.   Disease Models & Mechanisms

Inoculation of tannin-degrading bacteria into novel hosts increases performance on tannin-rich diets

(2015) Kevin D. Kohl et al.   ENVIRONMENTAL MICROBIOLOGY

Neonatal environment exerts a sustained influence on the development of the intestinal microbiota and metabolic phenotype

(2015) Claire A Merrifield et al.   ISME Journal

Voluntary and forced exercise differentially alters the gut microbiome in C57BL/6J mice

(2015) Jacob M. Allen et al.   JOURNAL OF APPLIED PHYSIOLOGY

Giving microbes their due - animal life in a microbially dominant world

(2015) M. J. McFall-Ngai   JOURNAL OF EXPERIMENTAL BIOLOGY

Diet strongly influences the gut microbiota of surgeonfishes

(2015) Sou Miyake et al.   MOLECULAR ECOLOGY

Gut biogeography of the bacterial microbiota

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

Gut microbes may facilitate insect herbivory of chemically defended plants

(2015) Tobin J. Hammer et al.   OECOLOGIA

Animal–microbe interactions and the evolution of nervous systems

(2015) Heather L. Eisthen et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Feeding the brain and nurturing the mind: Linking nutrition and the gut microbiota to brain development

(2015) Manu S. Goyal et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Rhythmicity of the intestinal microbiota is regulated by gender and the host circadian clock

(2015) Xue Liang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Gut microbiota mediate caffeine detoxification in the primary insect pest of coffee

(2015) Javier A. Ceja-Navarro et al.   Nature Communications

Habitat fragmentation is associated to gut microbiota diversity of an endangered primate: implications for conservation

(2015) Claudia Barelli et al.   Scientific Reports

The Hologenome Concept: Helpful or Hollow?

(2015) Nancy A. Moran et al.   PLOS BIOLOGY

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

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

Social networks predict gut microbiome composition in wild baboons

(2015) Jenny Tung et al.   eLife

Exercise Is More Effective at Altering Gut Microbial Composition and Producing Stable Changes in Lean Mass in Juvenile versus Adult Male F344 Rats

(2015) Agnieszka Mika et al.   PLoS One

Seasonal Shifts in Diet and Gut Microbiota of the American Bison (Bison bison)

(2015) Gaddy T. Bergmann et al.   PLoS One

From microbe to man: the role of microbial short chain fatty acid metabolites in host cell biology

(2014) Niranjana Natarajan et al.   AMERICAN JOURNAL OF PHYSIOLOGY-CELL PHYSIOLOGY

Effects of Season and Host Physiological State on the Diversity, Density, and Activity of the Arctic Ground Squirrel Cecal Microbiota

(2014) Timothy J. Stevenson 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

Transkingdom Control of Microbiota Diurnal Oscillations Promotes Metabolic Homeostasis

(2014) Christoph A. Thaiss et al.   CELL

Diet and Feeding Pattern Affect the Diurnal Dynamics of the Gut Microbiome

(2014) Amir Zarrinpar et al.   Cell Metabolism

Gut microbes of mammalian herbivores facilitate intake of plant toxins

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

Unique and shared responses of the gut microbiota to prolonged fasting: a comparative study across five classes of vertebrate hosts

(2014) Kevin D. Kohl et al.   FEMS MICROBIOLOGY ECOLOGY

Gut microbiota dictates the metabolic response of Drosophila to diet

(2014) A. C.- N. Wong et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

Animal-microbial symbioses in changing environments

(2014) Hannah V. Carey et al.   JOURNAL OF THERMAL BIOLOGY

The Gut Microbiota Appears to Compensate for Seasonal Diet Variation in the Wild Black Howler Monkey (Alouatta pigra)

(2014) Katherine R. Amato et al.   MICROBIAL ECOLOGY

Hibernation alters the diversity and composition of mucosa-associated bacteria while enhancing antimicrobial defence in the gut of 13-lined ground squirrels

(2014) Kimberly A. Dill-McFarland et al.   MOLECULAR ECOLOGY

The gut microbiota influences blood-brain barrier permeability in mice

(2014) V. Braniste et al.   Science Translational Medicine

Individual diet has sex-dependent effects on vertebrate gut microbiota

(2014) Daniel I. Bolnick et al.   Nature Communications

Divining the Essence of Symbiosis: Insights from the Squid-Vibrio Model

(2014) Margaret McFall-Ngai   PLOS BIOLOGY

Communities of microbial eukaryotes in the mammalian gut within the context of environmental eukaryotic diversity

(2014) Laura Wegener Parfrey et al.   Frontiers in Microbiology

Nutrient cross-feeding in the microbial world

(2014) Erica C. Seth et al.   Frontiers in Microbiology

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

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

Herbivorous rodents (Neotoma spp.) harbour abundant and active foregut microbiota

(2013) Kevin D. Kohl et al.   ENVIRONMENTAL MICROBIOLOGY

Biphasic assembly of the murine intestinal microbiota during early development

(2013) Ida Gisela Pantoja-Feliciano et al.   ISME Journal

Habitat degradation impacts black howler monkey (Alouatta pigra) gastrointestinal microbiomes

(2013) Katherine R Amato et al.   ISME Journal

Into the wild: digging at immunology's evolutionary roots

(2013) Rick M Maizels et al.   NATURE IMMUNOLOGY

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

Symbiotic bacteria appear to mediate hyena social odors

(2013) K. R. Theis 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

Restructuring of the amphibian gut microbiota through metamorphosis

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

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

Seasonal restructuring of the ground squirrel gut microbiota over the annual hibernation cycle

(2012) Hannah V. Carey et al.   AMERICAN JOURNAL OF PHYSIOLOGY-REGULATORY INTEGRATIVE AND COMPARATIVE PHYSIOLOGY

Diet and phylogeny shape the gut microbiota of Antarctic seals: a comparison of wild and captive animals

(2012) Tiffanie M. Nelson et al.   ENVIRONMENTAL MICROBIOLOGY

Short chain fatty acids and their receptors: new metabolic targets

(2012) Brian T. Layden et al.   Translational Research

The Evolution of Mutualism in Gut Microbiota Via Host Epithelial Selection

(2012) Jonas Schluter et al.   PLOS BIOLOGY

The Microbiome and Butyrate Regulate Energy Metabolism and Autophagy in the Mammalian Colon

(2011) Dallas R. Donohoe et al.   Cell Metabolism

The human gut virome: Inter-individual variation and dynamic response to diet

(2011) S. Minot et al.   GENOME RESEARCH

Wild immunology

(2011) AMY B. PEDERSEN et al.   MOLECULAR ECOLOGY

Socially transmitted gut microbiota protect bumble bees against an intestinal parasite

(2011) H. Koch et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

(2011) B. D. Muegge et al.   SCIENCE

Postprandial remodeling of the gut microbiota in Burmese pythons

(2010) Elizabeth K Costello et al.   ISME Journal

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

Commensal bacteria play a role in mating preference of Drosophila melanogaster

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

Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities

(2009) P. D. Schloss et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

The gut microbiota modulates host energy and lipid metabolism in mice

(2009) Vidya R. Velagapudi et al.   JOURNAL OF LIPID RESEARCH

Bacterial gut symbionts are tightly linked with the evolution of herbivory in ants

(2009) Jacob A. Russell et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Regulation of myocardial ketone body metabolism by the gut microbiota during nutrient deprivation

(2009) P. A. Crawford et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Evolution of Mammals and Their Gut Microbes

(2008) R. E. Ley et al.   SCIENCE