The hologenome concept of evolution after 10 years

Lateral gene transfer between prokaryotes and eukaryotes

(2017) Karsten B. Sieber et al.   EXPERIMENTAL CELL RESEARCH

Dietary Fiber Gap and Host Gut Microbiota

(2017) Meng Han et al.   PROTEIN AND PEPTIDE LETTERS

Spontaneous body contractions are modulated by the microbiome of Hydra

(2017) Andrea P. Murillo-Rincon et al.   Scientific Reports

Complete Tetrasaccharide Repeat Unit Biosynthesis of the Immunomodulatory Bacteroides fragilis Capsular Polysaccharide A

(2016) Sunita Sharma et al.   ACS Chemical Biology

It’s the song, not the singer: an exploration of holobiosis and evolutionary theory

(2016) W. Ford Doolittle et al.   BIOLOGY & PHILOSOPHY

The native microbiome of the nematode Caenorhabditis elegans: gateway to a new host-microbiome model

(2016) Philipp Dirksen et al.   BMC BIOLOGY

The Human Microbiome before Birth

(2016) Martin J. Blaser et al.   Cell Host & Microbe

Prebiotics: why definitions matter

(2016) Robert W Hutkins et al.   CURRENT OPINION IN BIOTECHNOLOGY

Metabolic and physiological interdependencies in the Bathymodiolus azoricus symbiosis

(2016) Ruby Ponnudurai et al.   ISME Journal

The bovine milk microbiota: insights and perspectives from -omics studies

(2016) M. F. Addis et al.   Molecular BioSystems

The microbiome and innate immunity

(2016) Christoph A. Thaiss et al.   NATURE

Gut microbial communities of social bees

(2016) Waldan K. Kwong et al.   NATURE REVIEWS MICROBIOLOGY

Midgut Transcriptome of the Cockroach Periplaneta americana and Its Microbiota: Digestion, Detoxification and Oxidative Stress Response

(2016) Jianhua Zhang et al.   PLoS One

Population-based metagenomics analysis reveals markers for gut microbiome composition and diversity

(2016) Alexandra Zhernakova et al.   SCIENCE

Cospeciation of gut microbiota with hominids

(2016) A. H. Moeller et al.   SCIENCE

Natural history of the infant gut microbiome and impact of antibiotic treatment on bacterial strain diversity and stability

(2016) Moran Yassour et al.   Science Translational Medicine

Gut Microbiotas and Host Evolution: Scaling Up Symbiosis

(2016) Michael Shapira   TRENDS IN ECOLOGY & EVOLUTION

Microbes Drive Evolution of Animals and Plants: the Hologenome Concept

(2016) Eugene Rosenberg et al.   mBio

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

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

Revised Estimates for the Number of Human and Bacteria Cells in the Body

(2016) Ron Sender et al.   PLOS BIOLOGY

Staphylococcus aureus Shifts toward Commensalism in Response to Corynebacterium Species

(2016) Matthew M. Ramsey et al.   Frontiers in Microbiology

Symbiotic essential amino acids provisioning in the American cockroach,Periplaneta americana(Linnaeus) under various dietary conditions

(2016) Paul A. Ayayee et al.   PeerJ

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

(2016) Abigail P. Lauder et al.   Microbiome

Microbiota in Breast Milk of Chinese Lactating Mothers

(2016) Olga Sakwinska et al.   PLoS One

Human gut colonisation may be initiated in utero by distinct microbial communities in the placenta and amniotic fluid

(2016) Maria Carmen Collado et al.   Scientific Reports

A novel gene cluster allows preferential utilization of fucosylated milk oligosaccharides in Bifidobacterium longum subsp. longum SC596

(2016) Daniel Garrido et al.   Scientific Reports

Fecal Microbiota Transplantation forClostridium difficileInfection

(2015) Dimitri Drekonja et al.   ANNALS OF INTERNAL MEDICINE

The Gut Microbiota of Termites: Digesting the Diversity in the Light of Ecology and Evolution

(2015) Andreas Brune et al.   Annual Review of Microbiology

Lipochitooligosaccharides Modulate Plant Host Immunity to Enable Endosymbioses

(2015) Erik Limpens et al.   Annual Review of Phytopathology

Exploring Vertical Transmission of Bifidobacteria from Mother to Child

(2015) Christian Milani et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Serotonin, tryptophan metabolism and the brain-gut-microbiome axis

(2015) S.M. O’Mahony et al.   BEHAVIOURAL BRAIN RESEARCH

Dynamics and Stabilization of the Human Gut Microbiome during the First Year of Life

(2015) Fredrik Bäckhed et al.   Cell Host & Microbe

Similar sponge-associated bacteria can be acquired via both vertical and horizontal transmission

(2015) Detmer Sipkema et al.   ENVIRONMENTAL MICROBIOLOGY

The coral core microbiome identifies rare bacterial taxa as ubiquitous endosymbionts

(2015) Tracy D Ainsworth et al.   ISME Journal

Functional overlap of the Arabidopsis leaf and root microbiota

(2015) Yang Bai et al.   NATURE

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

(2015) Benoit Chassaing et al.   NATURE

Gut Microbiota Dynamics during Dietary Shift in Eastern African Cichlid Fishes

(2015) Laura Baldo et al.   PLoS One

Structure, variation, and assembly of the root-associated microbiomes of rice

(2015) Joseph Edwards et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A unified initiative to harness Earth's microbiomes

(2015) A. P. Alivisatos et al.   SCIENCE

The infant microbiome development: mom matters

(2015) Noel T. Mueller et al.   TRENDS IN MOLECULAR MEDICINE

The Bamboo-Eating Giant Panda Harbors a Carnivore-Like Gut Microbiota, with Excessive Seasonal Variations

(2015) Zhengsheng Xue et al.   mBio

Analysis of intestinal microbiota in hybrid house mice reveals evolutionary divergence in a vertebrate hologenome

(2015) Jun Wang et al.   Nature Communications

The Hologenome Concept: Helpful or Hollow?

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

The human gut virome: a multifaceted majority

(2015) Lesley A. Ogilvie et al.   Frontiers in Microbiology

Expression of multiple horizontally acquired genes is a hallmark of both vertebrate and invertebrate genomes

(2015) Alastair Crisp et al.   GENOME 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

The Influence of Age and Gender on Skin-Associated Microbial Communities in Urban and Rural Human Populations

(2015) Shi Ying et al.   PLoS One

The Cockroach Origin of the Termite Gut Microbiota: Patterns in Bacterial Community Structure Reflect Major Evolutionary Events

(2014) Carsten Dietrich et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Insect Gut Bacterial Diversity Determined by Environmental Habitat, Diet, Developmental Stage, and Phylogeny of Host

(2014) Ji-Hyun Yun et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Microbes and animal olfactory communication: Where do we go from here?

(2014) Vanessa O. Ezenwa et al.   BIOESSAYS

A Systematic Analysis of Biosynthetic Gene Clusters in the Human Microbiome Reveals a Common Family of Antibiotics

(2014) Mohamed S. Donia et al.   CELL

Manipulation of the Microbiota for Treatment of IBS and IBD—Challenges and Controversies

(2014) Fergus Shanahan et al.   GASTROENTEROLOGY

Evolution of mammalian pregnancy and the origin of the decidual stromal cell

(2014) Günter P. Wagner et al.   INTERNATIONAL JOURNAL OF DEVELOPMENTAL BIOLOGY

Water fleas require microbiota for survival, growth and reproduction

(2014) Marilou P Sison-Mangus et al.   ISME Journal

Epichloë spp. associated with grasses: new insights on life cycles, dissemination and evolution

(2014) Mariusz Tadych et al.   MYCOLOGIA

Artificial sweeteners induce glucose intolerance by altering the gut microbiota

(2014) Jotham Suez et al.   NATURE

The gut microbiota, bacterial metabolites and colorectal cancer

(2014) Petra Louis et al.   NATURE REVIEWS MICROBIOLOGY

Symbiotic digestion of lignocellulose in termite guts

(2014) Andreas Brune   NATURE REVIEWS MICROBIOLOGY

Short-Term Effect of Antibiotics on Human Gut Microbiota

(2014) Suchita Panda et al.   PLoS One

Low-Dose Aspartame Consumption Differentially Affects Gut Microbiota-Host Metabolic Interactions in the Diet-Induced Obese Rat

(2014) Marie S. A. Palmnäs et al.   PLoS One

The Placenta Harbors a Unique Microbiome

(2014) K. Aagaard et al.   Science Translational Medicine

Vertical transmission of fungal endophytes is widespread in forbs

(2014) Susan Hodgson et al.   Ecology and Evolution

Complex host genetics influence the microbiome in inflammatory bowel disease

(2014) Dan Knights et al.   Genome Medicine

Structure and Functions of the Bacterial Microbiota of Plants

(2013) Davide Bulgarelli et al.   Annual Review of Plant Biology

How delivery mode and feeding can shape the bacterial community in the infant gut

(2013) S. J. Song et al.   CANADIAN MEDICAL ASSOCIATION JOURNAL

Horizontal gene transfer in plants

(2013) Caihua Gao et al.   FUNCTIONAL & INTEGRATIVE GENOMICS

Intestinal microbiota in patients with nonalcoholic fatty liver disease

(2013) Marialena Mouzaki et al.   HEPATOLOGY

Exploring the bovine rumen bacterial community from birth to adulthood

(2013) Elie Jami et al.   ISME Journal

Bacteria appear to play important roles in both causing and preventing the bleaching of the coral Oculina patagonica

(2013) E Mills et al.   MARINE ECOLOGY PROGRESS SERIES

Stability and phylogenetic correlation in gut microbiota: lessons from ants and apes

(2013) Jon G. Sanders et al.   MOLECULAR ECOLOGY

Diet rapidly and reproducibly alters the human gut microbiome

(2013) Lawrence A. David et al.   NATURE

The gut microbiota — masters of host development and physiology

(2013) Felix Sommer et al.   NATURE REVIEWS MICROBIOLOGY

Paleovirology of 'syncytins', retroviral env genes exapted for a role in placentation

(2013) C. Lavialle et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Comparative Metagenomic and Metatranscriptomic Analysis of Hindgut Paunch Microbiota in Wood- and Dung-Feeding Higher Termites

(2013) Shaomei He et al.   PLoS One

Cockroaches Probably Cleaned Up after Dinosaurs

(2013) Peter Vršanský et al.   PLoS One

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

(2013) R. M. Brucker et al.   SCIENCE

Gene Transfer from Bacteria and Archaea Facilitated Evolution of an Extremophilic Eukaryote

(2013) G. Schonknecht et al.   SCIENCE

The Long-Term Stability of the Human Gut Microbiota

(2013) J. J. Faith et al.   SCIENCE

Gut Microbiota from Twins Discordant for Obesity Modulate Metabolism in Mice

(2013) V. K. Ridaura et al.   SCIENCE

Gut–brain axis: how the microbiome influences anxiety and depression

(2013) Jane A. Foster et al.   TRENDS IN NEUROSCIENCES

Influence of red wine polyphenols and ethanol on the gut microbiota ecology and biochemical biomarkers

(2012) María Isabel Queipo-Ortuño et al.   AMERICAN JOURNAL OF CLINICAL NUTRITION

Defining bacterial species in the genomic era: insights from the genus Acinetobacter

(2012) Jacqueline Z-M Chan et al.   BMC MICROBIOLOGY

Host Remodeling of the Gut Microbiome and Metabolic Changes during Pregnancy

(2012) Omry Koren et al.   CELL

Bacteria as vitamin suppliers to their host: a gut microbiota perspective

(2012) Jean Guy LeBlanc et al.   CURRENT OPINION IN BIOTECHNOLOGY

Actinobacteria as essential symbionts in firebugs and cotton stainers (Hemiptera, Pyrrhocoridae)

(2012) Hassan Salem et al.   ENVIRONMENTAL MICROBIOLOGY

Pro-Angiogenic Activity of TLRs and NLRs: A Novel Link Between Gut Microbiota and Intestinal Angiogenesis

(2012) Anja Schirbel et al.   GASTROENTEROLOGY

The human microbiome: A hot spot of microbial horizontal gene transfer

(2012) Li Liu et al.   GENOMICS

The gut microbiota regulates bone mass in mice

(2012) Klara Sjögren et al.   JOURNAL OF BONE AND MINERAL RESEARCH

Insect immune system maintains long-term resident bacteria through a local response

(2012) Frédéric H. Login et al.   JOURNAL OF INSECT PHYSIOLOGY

The gut microbiota, obesity and insulin resistance

(2012) Jian Shen et al.   MOLECULAR ASPECTS OF MEDICINE

Gut microbiota composition correlates with diet and health in the elderly

(2012) Marcus J. Claesson et al.   NATURE

A metagenome-wide association study of gut microbiota in type 2 diabetes

(2012) Junjie Qin et al.   NATURE

Diversity, stability and resilience of the human gut microbiota

(2012) Catherine A. Lozupone et al.   NATURE

The human milk microbiota: Origin and potential roles in health and disease

(2012) Leónides Fernández et al.   PHARMACOLOGICAL RESEARCH

The influence of diet on the gut microbiota

(2012) Karen P. Scott et al.   PHARMACOLOGICAL RESEARCH

From ancestral infectious retroviruses to bona fide cellular genes: Role of the captured syncytins in placentation

(2012) A. Dupressoir et al.   PLACENTA

Composition and Similarity of Bovine Rumen Microbiota across Individual Animals

(2012) Elie Jami et al.   PLoS One

Distinctive Gut Microbiota of Honey Bees Assessed Using Deep Sampling from Individual Worker Bees

(2012) Nancy A. Moran et al.   PLoS One

A Drought Resistance-Promoting Microbiome Is Selected by Root System under Desert Farming

(2012) Ramona Marasco et al.   PLoS One

Bacteria of the human gut microbiome catabolize red seaweed glycans with carbohydrate-active enzyme updates from extrinsic microbes

(2012) J.-H. Hehemann et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

We are what we eat: how the diet of infants affects their gut microbiome

(2012) Mihai Pop   GENOME BIOLOGY

The Rules of Engagement in the Legume-Rhizobial Symbiosis

(2011) Giles E.D. Oldroyd et al.   Annual Review of Genetics

Immunoglobulin Responses at the Mucosal Interface

(2011) Andrea Cerutti et al.   Annual Review of Immunology

Disruption of the Termite Gut Microbiota and Its Prolonged Consequences for Fitness

(2011) Rebeca B. Rosengaus et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Assessing the complex sponge microbiota: core, variable and species-specific bacterial communities in marine sponges

(2011) Susanne Schmitt et al.   ISME Journal

Phylogenetic analysis of the fecal microbial community in herbivorous land and marine iguanas of the Galápagos Islands using 16S rRNA-based pyrosequencing

(2011) Pei-Ying Hong et al.   ISME Journal

Structural segregation of gut microbiota between colorectal cancer patients and healthy volunteers

(2011) Tingting Wang et al.   ISME Journal

An Infant-associated Bacterial Commensal Utilizes Breast Milk Sialyloligosaccharides

(2011) David A. Sela et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

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

(2011) Aymé Spor et al.   NATURE REVIEWS MICROBIOLOGY

Comparative Analysis of Korean Human Gut Microbiota by Barcoded Pyrosequencing

(2011) Young-Do Nam et al.   PLoS One

Normal gut microbiota modulates brain development and behavior

(2011) R. D. Heijtz et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Linking Long-Term Dietary Patterns with Gut Microbial Enterotypes

(2011) G. D. Wu et al.   SCIENCE

Prebiotic evaluation of cocoa-derived flavanols in healthy humans by using a randomized, controlled, double-blind, crossover intervention study

(2010) Xenofon Tzounis et al.   AMERICAN JOURNAL OF CLINICAL NUTRITION

The effects of iron fortification on the gut microbiota in African children: a randomized controlled trial in Côte d'Ivoire

(2010) Michael B Zimmermann et al.   AMERICAN JOURNAL OF CLINICAL NUTRITION

The Carnivorous Pale Pitcher Plant Harbors Diverse, Distinct, and Time-Dependent Bacterial Communities

(2010) M. M. Koopman et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Composition, uniqueness and variability of the epiphytic bacterial community of the green alga Ulva australis

(2010) Catherine Burke et al.   ISME Journal

The making of a photosynthetic animal

(2010) M. E. Rumpho et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

Species diversity and relative abundance of lactic acid bacteria in the milk of rhesus monkeys (Macaca mulatta)

(2010) L. Jin et al.   JOURNAL OF MEDICAL PRIMATOLOGY

Why run and hide when you can divide? Evidence for larval cloning and reduced larval size as an adaptive inducible defense

(2010) Dawn Vaughn   MARINE BIOLOGY

Long-term impacts of antibiotic exposure on the human intestinal microbiota

(2010) C. Jernberg et al.   MICROBIOLOGY-SGM

Transfer of carbohydrate-active enzymes from marine bacteria to Japanese gut microbiota

(2010) Jan-Hendrik Hehemann et al.   NATURE

Composition, variability, and temporal stability of the intestinal microbiota of the elderly

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

Individuality in gut microbiota composition is a complex polygenic trait shaped by multiple environmental and host genetic factors

(2010) A. K. Benson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

Incomplete recovery and individualized responses of the human distal gut microbiota to repeated antibiotic perturbation

(2010) L. Dethlefsen 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

Succession of microbial consortia in the developing infant gut microbiome

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

Nectar yeasts warm the flowers of a winter-blooming plant

(2010) C. M. Herrera et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Lateral Transfer of Genes from Fungi Underlies Carotenoid Production in Aphids

(2010) N. A. Moran et al.   SCIENCE

Evolutionary Relationships of Wild Hominids Recapitulated by Gut Microbial Communities

(2010) Howard Ochman et al.   PLOS BIOLOGY

The hologenome theory of evolution contains Lamarckian aspects within a Darwinian framework

(2009) Eugene Rosenberg et al.   ENVIRONMENTAL MICROBIOLOGY

The NIH Human Microbiome Project

(2009) et al.   GENOME RESEARCH

Interplay Between Weight Loss and Gut Microbiota Composition in Overweight Adolescents

(2009) Arlette Santacruz et al.   Obesity

More than 9,000,000 Unique Genes in Human Gut Bacterial Community: Estimating Gene Numbers Inside a Human Body

(2009) Xing Yang et al.   PLoS One

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

The Effect of Diet on the Human Gut Microbiome: A Metagenomic Analysis in Humanized Gnotobiotic Mice

(2009) P. J. Turnbaugh et al.   Science Translational Medicine

Bacterial Community in the Crop of the Hoatzin, a Neotropical Folivorous Flying Bird

(2008) F. Godoy-Vitorino et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Recognition between symbioticVibrio fischeriand the haemocytes ofEuprymna scolopes

(2008) Spencer V. Nyholm et al.   ENVIRONMENTAL MICROBIOLOGY

Bacteria in the Intestine, Helpful Residents or Enemies from Within?

(2008) G. O. Canny et al.   INFECTION AND IMMUNITY

A core gut microbiome in obese and lean twins

(2008) Peter J. Turnbaugh et al.   NATURE

Symbiotic diversity in marine animals: the art of harnessing chemosynthesis

(2008) Nicole Dubilier et al.   NATURE REVIEWS MICROBIOLOGY

Worlds within worlds: evolution of the vertebrate gut microbiota

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

Massive Horizontal Gene Transfer in Bdelloid Rotifers

(2008) E. A. Gladyshev et al.   SCIENCE

Intestinal bile acid physiology and pathophysiology

(2008) Olga Martínez-Augustin et al.   WORLD JOURNAL OF GASTROENTEROLOGY

Wolbachia genome integrated in an insect chromosome: Evolution and fate of laterally transferred endosymbiont genes

(2007) N. Nikoh et al.   GENOME RESEARCH