Holobionts and ecological speciation: the intestinal microbiota of lake whitefish species pairs

Convergence of gut microbiotas in the adaptive radiations of African cichlid fishes

(2017) Laura Baldo et al.   ISME Journal

Metagenomics approach to the study of the gut microbiome structure and function in zebrafish Danio rerio fed with gluten formulated diet

(2017) Hyunmin Koo et al.   JOURNAL OF MICROBIOLOGICAL METHODS

Life history and eco-evolutionary dynamics in light of the gut microbiota

(2017) Emilie Macke et al.   OIKOS

Effects of solid-phase denitrification on the nitrate removal and bacterial community structure in recirculating aquaculture system

(2016) Tianlei Qiu et al.   BIODEGRADATION

Adaptation and acclimation of traits associated with swimming capacity in Lake Whitefish (coregonus clupeaformis) ecotypes

(2016) Martin Laporte et al.   BMC EVOLUTIONARY BIOLOGY

Erratum: Fish gut microbiota analysis differentiates physiology and behavior of invasive Asian carp and indigenous American fish

(2016) Lin Ye et al.   ISME Journal

Commensal Bacteria Aid Mate-selection in the Fruit Fly, Bactrocera dorsalis

(2016) Kamala Jayanthi Pagadala Damodaram et al.   MICROBIAL ECOLOGY

Convergence in organ size but not energy metabolism enzyme activities among wild Lake Whitefish (Coregonus clupeaformis) species pairs

(2016) Anne C. Dalziel et al.   MOLECULAR ECOLOGY

Do Vertebrate Gut Metagenomes Confer Rapid Ecological Adaptation?

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

Speciation by Symbiosis: the Microbiome and Behavior

(2016) J. Dylan Shropshire et al.   mBio

pH drop impacts differentially skin and gut microbiota of the Amazonian fish tambaqui (Colossoma macropomum)

(2016) François-Étienne Sylvain et al.   Scientific Reports

Environment shapes the fecal microbiome of invasive carp species

(2016) Jessica J. Eichmiller et al.   Microbiome

Declining diversity of egg-associated bacteria during development of naturally spawned whitefish embryos (Coregonus spp.)

(2015) Laetitia G. E. Wilkins et al.   AQUATIC SCIENCES

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

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

Adaptation and acclimation of aerobic exercise physiology in Lake Whitefish ecotypes (Coregonus clupeaformis)

(2015) Anne C. Dalziel et al.   EVOLUTION

Development of a candidate method for forensic microbial genotyping using multiplex pyrosequencing combined with a universal biotinylated primer

(2015) Yan Gu et al.   FORENSIC SCIENCE INTERNATIONAL

Divergence across diet, time and populations rules out parallel evolution in the gut microbiomes of Trinidadian guppies

(2015) Karen E Sullam et al.   ISME Journal

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

(2015) Chris CR Smith et al.   ISME Journal

The composition of the zebrafish intestinal microbial community varies across development

(2015) W Zac Stephens et al.   ISME Journal

The biogeography of the atlantic salmon (Salmo salar) gut microbiome

(2015) Martin S Llewellyn et al.   ISME Journal

Diet strongly influences the gut microbiota of surgeonfishes

(2015) Sou Miyake et al.   MOLECULAR ECOLOGY

Gut Microbiota Dynamics during Dietary Shift in Eastern African Cichlid Fishes

(2015) Laura Baldo et al.   PLoS One

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

(2015) Jun Wang et al.   Nature Communications

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

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

Persistent microbial dysbiosis in preterm premature rupture of membranes from onset until delivery

(2015) Elizabeth A. Baldwin et al.   PeerJ

Insect behaviour and the microbiome

(2015) Zenobia Lewis et al.   Current Opinion in Insect Science

Diet disparity among sympatric herbivorous cichlids in the same ecomorphs in Lake Tanganyika: amplicon pyrosequences on algal farms and stomach contents

(2014) Hiroki Hata et al.   BMC BIOLOGY

Gut microbes of mammalian herbivores facilitate intake of plant toxins

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

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

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

Microbiome investigation in the ecological speciation context of lake whitefish (Coregonus clupeaformis) using next-generation sequencing

(2014) M. Sevellec et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

RNA-seq Reveals Transcriptomic Shock Involving Transposable Elements Reactivation in Hybrids of Young Lake Whitefish Species

(2014) Anne-Marie Dion-Côté et al.   MOLECULAR BIOLOGY AND EVOLUTION

Microbiota-Induced Changes in Drosophila melanogaster Host Gene Expression and Gut Morphology

(2014) N. A. Broderick et al.   mBio

Teleost microbiomes: the state of the art in their characterization, manipulation and importance in aquaculture and fisheries

(2014) Martin S. Llewellyn et al.   Frontiers in Microbiology

Experimental Approaches for Defining Functional Roles of Microbes in the Human Gut

(2013) Gautam Dantas et al.   Annual Review of Microbiology

Aquacultured Rainbow Trout (Oncorhynchus mykiss) Possess a Large Core Intestinal Microbiota That Is Resistant to Variation in Diet and Rearing Density

(2013) S. Wong et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

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

THE GENETIC ARCHITECTURE OF REPRODUCTIVE ISOLATION DURING SPECIATION-WITH-GENE-FLOW IN LAKE WHITEFISH SPECIES PAIRS ASSESSED BY RAD SEQUENCING

(2013) Pierre-Alexandre Gagnaire et al.   EVOLUTION

Flavobacterium spartansii sp. nov., a pathogen of fishes, and emended descriptions of Flavobacterium aquidurense and Flavobacterium araucananum

(2013) T. P. Loch et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Nonparallelism in MHCIIβ diversity accompanies nonparallelism in pathogen infection of lake whitefish (Coregonus clupeaformis) species pairs as revealed by next-generation sequencing

(2013) Scott A. Pavey et al.   MOLECULAR ECOLOGY

Diet rapidly and reproducibly alters the human gut microbiome

(2013) Lawrence A. David et al.   NATURE

Predictive functional profiling of microbial communities using 16S rRNA marker gene sequences

(2013) Morgan G I Langille et al.   NATURE BIOTECHNOLOGY

Gut Microbiota Contributes to the Growth of Fast-Growing Transgenic Common Carp (Cyprinus carpio L.)

(2013) Xuemei Li et al.   PLoS One

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

The capacious hologenome

(2013) Robert M. Brucker et al.   ZOOLOGY

Environmental and ecological factors that shape the gut bacterial communities of fish: a meta-analysis

(2012) KAREN E. SULLAM et al.   MOLECULAR ECOLOGY

Mind-altering microorganisms: the impact of the gut microbiota on brain and behaviour

(2012) John F. Cryan et al.   NATURE REVIEWS NEUROSCIENCE

Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies

(2012) Anna Klindworth et al.   NUCLEIC ACIDS RESEARCH

Microbial Diversity and Potential Pathogens in Ornamental Fish Aquarium Water

(2012) Katherine F. Smith et al.   PLoS One

A Symbiotic View of Life: We Have Never Been Individuals

(2012) Scott F. Gilbert et al.   QUARTERLY REVIEW OF BIOLOGY

Animal Behavior and the Microbiome

(2012) V. O. Ezenwa et al.   SCIENCE

Host-Gut Microbiota Metabolic Interactions

(2012) J. K. Nicholson et al.   SCIENCE

Speciation by symbiosis

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

Animal behaviour meets microbial ecology

(2011) Elizabeth A. Archie et al.   ANIMAL BEHAVIOUR

UCHIME improves sensitivity and speed of chimera detection

(2011) Robert C. Edgar et al.   BIOINFORMATICS

Symbiosis and development: The hologenome concept

(2011) Eugene Rosenberg et al.   BIRTH DEFECTS RESEARCH PART C-EMBRYO TODAY-REVIEWS

An Interdependent Metabolic Patchwork in the Nested Symbiosis of Mealybugs

(2011) John P. McCutcheon et al.   CURRENT BIOLOGY

Evidence for a core gut microbiota in the zebrafish

(2011) Guus Roeselers et al.   ISME Journal

The secret languages of coevolved symbioses: Insights from the Euprymna scolopes–Vibrio fischeri symbiosis

(2011) Margaret McFall-Ngai et al.   SEMINARS IN IMMUNOLOGY

Role of gastrointestinal microbiota in fish

(2010) Sukanta K Nayak   AQUACULTURE RESEARCH

Role of epibenthic resource opportunities in the parallel evolution of lake whitefish species pairs (Coregonus sp.)

(2010) L. LANDRY et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

SNP signatures of selection on standing genetic variation and their association with adaptive phenotypes along gradients of ecological speciation in lake whitefish species pairs (Coregonus spp.)

(2010) SÉBASTIEN RENAUT et al.   MOLECULAR ECOLOGY

The transcriptomics of sympatric dwarf and normal lake whitefish (Coregonus clupeaformis spp., Salmonidae) divergence as revealed by next-generation sequencing

(2010) JULIE JEUKENS et al.   MOLECULAR ECOLOGY

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

(2010) Jan-Hendrik Hehemann et al.   NATURE

On the origin of species: insights from the ecological genomics of lake whitefish

(2010) L. Bernatchez et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Has the Microbiota Played a Critical Role in the Evolution of the Adaptive Immune System?

(2010) Y. K. Lee et al.   SCIENCE

Phenotypic plasticity's impacts on diversification and speciation

(2010) David W. Pfennig et al.   TRENDS IN ECOLOGY & EVOLUTION

Evolutionary Relationships of Wild Hominids Recapitulated by Gut Microbial Communities

(2010) Howard Ochman et al.   PLOS BIOLOGY

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

Why do species vary in their rate of molecular evolution?

(2009) L. Bromham   Biology Letters

Towards the human intestinal microbiota phylogenetic core

(2009) Julien Tap et al.   ENVIRONMENTAL MICROBIOLOGY

Harmonic Convergence in the Love Songs of the Dengue Vector Mosquito

(2009) L. J. Cator et al.   SCIENCE

Statistical Methods for Detecting Differentially Abundant Features in Clinical Metagenomic Samples

(2009) James Robert White et al.   PLoS Computational Biology

Candidate Genes and Adaptive Radiation: Insights from Transcriptional Adaptation to the Limnetic Niche among Coregonine Fishes (Coregonus spp., Salmonidae)

(2008) J. Jeukens et al.   MOLECULAR BIOLOGY AND EVOLUTION

The transcriptomics of life-history trade-offs in whitefish species pairs (Coregonussp.)

(2008) J. ST-CYR et al.   MOLECULAR ECOLOGY

A core gut microbiome in obese and lean twins

(2008) Peter J. Turnbaugh et al.   NATURE

Touchdown PCR for increased specificity and sensitivity in PCR amplification

(2008) Darren J Korbie et al.   Nature Protocols

Exploring Microbial Diversity and Taxonomy Using SSU rRNA Hypervariable Tag Sequencing

(2008) Susan M. Huse et al.   PLoS Genetics

Isolation of halotolerant Lactococcus lactis subsp. lactis from intestinal tract of coastal fish

(2007) Shiro Itoi et al.   INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY