The Inducible Response of the Nematode Caenorhabditis elegans to Members of Its Natural Microbiota Across Development and Adult Life

TGFβ/BMP immune signaling affects abundance and function of C. elegans gut commensals

(2019) Maureen Berg et al.   Nature Communications

Natural C. elegans Microbiota Protects against Infection via Production of a Cyclic Lipopeptide of the Viscosin Group

(2019) Kohar A.B. Kissoyan et al.   CURRENT BIOLOGY

The Caenorhabditis elegans Proteome Response to Naturally Associated Microbiome Members of the Genus Ochrobactrum

(2018) Liam Cassidy et al.   PROTEOMICS

Drosophila melanogaster establishes a species-specific mutualistic interaction with stable gut-colonizing bacteria

(2018) Inês S. Pais et al.   PLOS BIOLOGY

Metabolite exchange between microbiome members produces compounds that influence Drosophila behavior

(2017) Caleb N Fischer et al.   eLife

Caenorhabditis elegans as a Model for Microbiome Research

(2017) Fan Zhang et al.   Frontiers in Microbiology

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

(2016) Philipp Dirksen et al.   BMC BIOLOGY

ABSSeq: a new RNA-Seq analysis method based on modelling absolute expression differences

(2016) Wentao Yang et al.   BMC GENOMICS

Contrasting invertebrate immune defense behaviors caused by a single gene, the Caenorhabditis elegans neuropeptide receptor gene npr-1

(2016) Rania Nakad et al.   BMC GENOMICS

A Systems Approach to Reverse Engineer Lifespan Extension by Dietary Restriction

(2016) Lei Hou et al.   Cell Metabolism

The microbiome and innate immunity

(2016) Christoph A. Thaiss et al.   NATURE

Reevaluation of whether a soma–to–germ-line transformation extends lifespan inCaenorhabditis elegans

(2016) Andrew Kekūpa'a Knutson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Caenorhabditis elegansresponses to bacteria from its natural habitats

(2016) Buck S. Samuel et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

GATA transcription factor as a likely key regulator of the Caenorhabditis elegans innate immune response against gut pathogens

(2016) Wentao Yang et al.   ZOOLOGY

Utility and Limitations of Using Gene Expression Data to Identify Functional Associations

(2016) Sahra Uygun et al.   PLoS Computational Biology

Deactivation of the GATA Transcription Factor ELT-2 Is a Major Driver of Normal Aging in C. elegans

(2016) Frederick G. Mann et al.   PLoS Genetics

Host-Specific Functional Significance of Caenorhabditis Gut Commensals

(2016) Maureen Berg et al.   Frontiers in Microbiology

A Genome-Scale Database and Reconstruction of Caenorhabditis elegans Metabolism

(2016) Juliane Gebauer et al.   Cell Systems

Methionine restriction and life-span control

(2015) Byung Cheon Lee et al.   Annals of the New York Academy of Sciences

Host Genetic Control of the Microbiota Mediates the Drosophila Nutritional Phenotype

(2015) John M. Chaston et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

WormExp: a web-based application for aCaenorhabditis elegans-specific gene expression enrichment analysis

(2015) Wentao Yang et al.   BIOINFORMATICS

Neuronal CRTC-1 Governs Systemic Mitochondrial Metabolism and Lifespan via a Catecholamine Signal

(2015) Kristopher Burkewitz et al.   CELL

Control of Brain Development, Function, and Behavior by the Microbiome

(2015) Timothy R. Sampson et al.   Cell Host & Microbe

The function and regulation of the GATA factor ELT-2 in theC. elegansendoderm

(2015) Tobias Wiesenfahrt et al.   DEVELOPMENT

Overlapping and unique signatures in the proteomic and transcriptomic responses of the nematode Caenorhabditis elegans toward pathogenic Bacillus thuringiensis

(2015) Wentao Yang et al.   DEVELOPMENTAL AND COMPARATIVE IMMUNOLOGY

Food, Immunity, and the Microbiome

(2015) Herbert Tilg et al.   GASTROENTEROLOGY

High Innate Immune Specificity through Diversified C-Type Lectin-Like Domain Proteins in Invertebrates

(2015) Barbara Pees et al.   Journal of Innate Immunity

Cancer and the microbiota

(2015) W. S. Garrett   SCIENCE

Branched-chain amino acid catabolism is a conserved regulator of physiological ageing

(2015) Johannes Mansfeld et al.   Nature Communications

HTSeq--a Python framework to work with high-throughput sequencing data

(2014) S. Anders et al.   BIOINFORMATICS

Prokka: rapid prokaryotic genome annotation

(2014) T. Seemann   BIOINFORMATICS

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

You Are What You Host: Microbiome Modulation of the Aging Process

(2014) Caroline Heintz et al.   CELL

Innate Host Defense Requires TFEB-Mediated Transcription of Cytoprotective and Antimicrobial Genes

(2014) Orane Visvikis et al.   IMMUNITY

Lipid Droplet Protein LID-1 Mediates ATGL-1-Dependent Lipolysis during Fasting in Caenorhabditis elegans

(2014) J. H. Lee et al.   MOLECULAR AND CELLULAR BIOLOGY

DAF-16/FOXO and EGL-27/GATA promote developmental growth in response to persistent somatic DNA damage

(2014) Michael M. Mueller et al.   NATURE CELL BIOLOGY

Conserved Nutrient Sensor O-GlcNAc Transferase Is Integral to C. elegans Pathogen-Specific Immunity

(2014) Michelle R. Bond et al.   PLoS One

TOR Signaling Couples Oxygen Sensing to Lifespan in C. elegans

(2014) Michael Schieber et al.   Cell Reports

Integration of Metabolic and Gene Regulatory Networks Modulates the C. elegans Dietary Response

(2013) Emma Watson et al.   CELL

Diet-Induced Developmental Acceleration Independent of TOR and Insulin in C. elegans

(2013) Lesley T. MacNeil et al.   CELL

Metformin Retards Aging in C. elegans by Altering Microbial Folate and Methionine Metabolism

(2013) Filipe Cabreiro et al.   CELL

Innate and Adaptive Immunity Interact to Quench Microbiome Flagellar Motility in the Gut

(2013) Tyler C. Cullender et al.   Cell Host & Microbe

An Integrated Serotonin and Octopamine Neuronal Circuit Directs the Release of an Endocrine Signal to Control C. elegans Body Fat

(2013) Tallie Noble et al.   Cell Metabolism

Fertility and Germline Stem Cell Maintenance under Different Diets Requires nhr-114/HNF4 in C. elegans

(2013) Xicotencatl Gracida et al.   CURRENT BIOLOGY

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

Model-based identification of drug targets that revert disrupted metabolism and its application to ageing

(2013) Keren Yizhak et al.   Nature Communications

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

SPP-3, a saposin-like protein of Caenorhabditis elegans, displays antimicrobial and pore-forming activity and is located in the intestine and in one head neuron

(2012) Aylin Hoeckendorf et al.   DEVELOPMENTAL AND COMPARATIVE IMMUNOLOGY

The gut microbiota, obesity and insulin resistance

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

Fiji: an open-source platform for biological-image analysis

(2012) Johannes Schindelin et al.   NATURE METHODS

How glycan metabolism shapes the human gut microbiota

(2012) Nicole M. Koropatkin et al.   NATURE REVIEWS MICROBIOLOGY

NCBI GEO: archive for functional genomics data sets—update

(2012) Tanya Barrett et al.   NUCLEIC ACIDS RESEARCH

Delaying aging and the aging-associated decline in protein homeostasis by inhibition of tryptophan degradation

(2012) A. T. van der Goot et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Host-Gut Microbiota Metabolic Interactions

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

AMD, an Automated Motif Discovery Tool Using Stepwise Refinement of Gapped Consensuses

(2011) Jiantao Shi et al.   PLoS One

iMAT: an integrative metabolic analysis tool

(2010) Hadas Zur et al.   BIOINFORMATICS

A new vision of immunity: homeostasis of the superorganism

(2010) G Eberl   Mucosal Immunology

The role of the gut microbiota in nonalcoholic fatty liver disease

(2010) Ahmed Abu-Shanab et al.   Nature Reviews Gastroenterology & Hepatology

Caenorhabditis elegans N-glycan Core β-galactoside Confers Sensitivity towards Nematotoxic Fungal Galectin CGL2

(2010) Alex Butschi et al.   PLoS Pathogens

A Multiparameter Network Reveals Extensive Divergence between C. elegans bHLH Transcription Factors

(2009) Christian A. Grove et al.   CELL

Caenopores are antimicrobial peptides in the nematode Caenorhabditis elegans instrumental in nutrition and immunity

(2009) Thomas Roeder et al.   DEVELOPMENTAL AND COMPARATIVE IMMUNOLOGY

Dopamine counteracts octopamine signalling in a neural circuit mediating food response in C. elegans

(2009) Satoshi Suo et al.   EMBO JOURNAL

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

(2009) Da Wei Huang et al.   Nature Protocols

An elt-3/elt-5/elt-6 GATA Transcription Circuit Guides Aging in C. elegans

(2008) Yelena V. Budovskaya et al.   CELL