The role of adaptive immunity as an ecological filter on the gut microbiota in zebrafish

Cross-species comparisons of host genetic associations with the microbiome

(2016) Julia K. Goodrich et al.   SCIENCE

MyD88 Signaling in T Cells Directs IgA-Mediated Control of the Microbiota to Promote Health

(2015) Jason L. Kubinak et al.   Cell Host & Microbe

Genetic and environmental control of host-gut microbiota interactions

(2015) Elin Org et al.   GENOME RESEARCH

BALB/c and C57BL/6 Mice Differ in Polyreactive IgA Abundance, which Impacts the Generation of Antigen-Specific IgA and Microbiota Diversity

(2015) Floris Fransen et al.   IMMUNITY

Innate and Adaptive Humoral Responses Coat Distinct Commensal Bacteria with Immunoglobulin A

(2015) Jeffrey J. Bunker et al.   IMMUNITY

The composition of the zebrafish intestinal microbial community varies across development

(2015) W Zac Stephens et al.   ISME Journal

Contribution of neutral processes to the assembly of gut microbial communities in the zebrafish over host development

(2015) Adam R Burns et al.   ISME Journal

Ontogenetic Differences in Dietary Fat Influence Microbiota Assembly in the Zebrafish Gut

(2015) Sandi Wong et al.   mBio

MHC variation sculpts individualized microbial communities that control susceptibility to enteric infection

(2015) Jason L. Kubinak et al.   Nature Communications

Genome-Wide Association Studies of the Human Gut Microbiota

(2015) Emily R. Davenport et al.   PLoS One

Immunoglobulin A Coating Identifies Colitogenic Bacteria in Inflammatory Bowel Disease

(2014) Noah W. Palm et al.   CELL

Foxp3+ T Cells Regulate Immunoglobulin A Selection and Facilitate Diversification of Bacterial Species Responsible for Immune Homeostasis

(2014) Shimpei Kawamoto et al.   IMMUNITY

Host adaptive immunity alters gut microbiota

(2014) Husen Zhang et al.   ISME Journal

Composition of Intestinal Microbiota in Immune-Deficient Mice Kept in Three Different Housing Conditions

(2014) Christa Thoene-Reineke et al.   PLoS One

Adaptive immunity to murine skin commensals

(2014) W. Shen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Waste Not, Want Not: Why Rarefying Microbiome Data Is Inadmissible

(2014) Paul J. McMurdie et al.   PLoS Computational Biology

Exploring host-microbiota interactions in animal models and humans

(2013) A. D. Kostic et al.   GENES & DEVELOPMENT

The altered landscape of the human skin microbiome in patients with primary immunodeficiencies

(2013) J. Oh et al.   GENOME RESEARCH

phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data

(2013) Paul J. McMurdie et al.   PLoS One

Immune system and immune responses in fish and their role in comparative immunity study: A model for higher organisms

(2012) Pradipta R. Rauta et al.   IMMUNOLOGY LETTERS

Rag1−/− Mutant Zebrafish Demonstrate Specific Protection following Bacterial Re-Exposure

(2012) Claudia Hohn et al.   PLoS One

Temporal stability of the mouse gut microbiota in relation to innate and adaptive immunity

(2012) Pedro A. Dimitriu et al.   Environmental Microbiology Reports

FLASH: fast length adjustment of short reads to improve genome assemblies

(2011) T. Magoc et al.   BIOINFORMATICS

Evidence for a core gut microbiota in the zebrafish

(2011) Guus Roeselers et al.   ISME Journal

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

(2011) Aymé Spor et al.   NATURE REVIEWS MICROBIOLOGY

Picante: R tools for integrating phylogenies and ecology

(2010) S. W. Kembel et al.   BIOINFORMATICS

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

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

Origin and evolution of the adaptive immune system: genetic events and selective pressures

(2009) Martin F. Flajnik et al.   NATURE REVIEWS GENETICS

High-Throughput Sequencing of the Zebrafish Antibody Repertoire

(2009) J. A. Weinstein et al.   SCIENCE

Diet-Induced Obesity Is Linked to Marked but Reversible Alterations in the Mouse Distal Gut Microbiome

(2008) Peter J. Turnbaugh et al.   Cell Host & Microbe

The inner of the two Muc2 mucin-dependent mucus layers in colon is devoid of bacteria

(2008) M. E. V. Johansson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA