The bovine foot skin microbiota is associated with host genotype and the development of infectious digital dermatitis lesions

Host genetic control of gut microbiome composition

(2021) Jason A. Bubier et al.   MAMMALIAN GENOME

Identification and Quantification of Bovine Digital Dermatitis-Associated Microbiota across Lesion Stages in Feedlot Beef Cattle

(2021) Ben Caddey et al.   mSystems

A Prospective Cohort Study on the Development of Claw Horn Disruption Lesions in Dairy Cattle; Furthering our Understanding of the Role of the Digital Cushion

(2020) Bethany E. Griffiths et al.   Frontiers in Veterinary Science

Microbiome Shift, Diversity, and Overabundance of Opportunistic Pathogens in Bovine Digital Dermatitis Revealed by 16S rRNA Amplicon Sequencing

(2020) Hector M. Espiritu et al.   Animals

A Novel Sparse Compositional Technique Reveals Microbial Perturbations

(2019) Cameron Martino et al.   mSystems

Fecal Microbial Communities in a Large Representative Cohort of California Dairy Cows

(2019) Jill V. Hagey et al.   Frontiers in Microbiology

Bovine digital dermatitis in Victoria, Australia

(2019) J. Hesseling et al.   AUSTRALIAN VETERINARY JOURNAL

Establishing microbial composition measurement standards with reference frames

(2019) James T. Morton et al.   Nature Communications

Quantitative Trait Loci Mapping for Lameness Associated Phenotypes in Holstein–Friesian Dairy Cattle

(2019) Enrique Sánchez-Molano et al.   Frontiers in Genetics

The Skin and Gut Microbiome and Its Role in Common Dermatologic Conditions

(2019) Samantha R. Ellis et al.   Microorganisms

16S rRNA amplicon sequencing reveals a polymicrobial nature of complicated claw horn disruption lesions and interdigital phlegmon in dairy cattle

(2018) V. Bay et al.   Scientific Reports

Species-level functional profiling of metagenomes and metatranscriptomes

(2018) Eric A. Franzosa et al.   NATURE METHODS

Improved detection of gene-microbe interactions in the mouse skin microbiota using high-resolution QTL mapping of 16S rRNA transcripts

(2017) Meriem Belheouane et al.   Microbiome

Genome-wide association between single nucleotide polymorphisms with beef fatty acid profile in Nellore cattle using the single step procedure

(2016) Marcos V. A. Lemos et al.   BMC GENOMICS

A Highly Effective Protocol for the Rapid and Consistent Induction of Digital Dermatitis in Holstein Calves

(2016) Adam C. Krull et al.   PLoS One

Longitudinal metagenomic profiling of bovine milk to assess the impact of intramammary treatment using a third-generation cephalosporin

(2016) Erika K. Ganda et al.   Scientific Reports

Autoimmune lymphoproliferative syndrome-like disease in patients with LRBA mutation

(2015) Shoshana Revel-Vilk et al.   CLINICAL IMMUNOLOGY

The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of pathway/genome databases

(2015) Ron Caspi et al.   NUCLEIC ACIDS RESEARCH

Sparse and Compositionally Robust Inference of Microbial Ecological Networks

(2015) Zachary D. Kurtz et al.   PLoS Computational Biology

Altered Microbiomes in Bovine Digital Dermatitis Lesions, and the Gut as a Pathogen Reservoir

(2015) Martin Zinicola et al.   PLoS One

Shotgun Metagenomic Sequencing Reveals Functional Genes and Microbiome Associated with Bovine Digital Dermatitis

(2015) Martin Zinicola et al.   PLoS One

Regional heritability advanced complex trait analysis for GPU and traditional parallel architectures

(2014) L. Cebamanos et al.   BIOINFORMATICS

Defining dysbiosis and its influence on host immunity and disease

(2014) Charisse Petersen et al.   CELLULAR MICROBIOLOGY

Deep Sequencing Analysis Reveals Temporal Microbiota Changes Associated with Development of Bovine Digital Dermatitis

(2014) Adam C. Krull et al.   INFECTION AND IMMUNITY

Kraken: ultrafast metagenomic sequence classification using exact alignments

(2014) Derrick E Wood et al.   GENOME BIOLOGY

PEAR: a fast and accurate Illumina Paired-End reAd mergeR

(2013) J. Zhang et al.   BIOINFORMATICS

Lypopolysaccharide Downregulates the Expression of Selected Phospholipase C Genes in Cultured Endothelial Cells

(2013) V. R. Lo Vasco et al.   INFLAMMATION

Genome-wide mapping of gene–microbiota interactions in susceptibility to autoimmune skin blistering

(2013) Girish Srinivas et al.   Nature Communications

LPS-responsive beige-like anchor (LRBA) gene mutation in a family with inflammatory bowel disease and combined immunodeficiency

(2012) Abdullah Alangari et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

Genome-wide efficient mixed-model analysis for association studies

(2012) Xiang Zhou et al.   NATURE GENETICS

Quality-filtering vastly improves diversity estimates from Illumina amplicon sequencing

(2012) Nicholas A Bokulich et al.   NATURE METHODS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Microbial interactions: from networks to models

(2012) Karoline Faust et al.   NATURE REVIEWS MICROBIOLOGY

Cyclic GMP-AMP Is an Endogenous Second Messenger in Innate Immune Signaling by Cytosolic DNA

(2012) J. Wu et al.   SCIENCE

Establishment of tolerance to commensal bacteria requires a complex microbiota and is accompanied by decreased intestinal chemokine expression

(2011) L. N. Fink et al.   AMERICAN JOURNAL OF PHYSIOLOGY-GASTROINTESTINAL AND LIVER PHYSIOLOGY

Microbial diversity in bovine papillomatous digital dermatitis in Holstein dairy cows from upstate New York

(2011) Thiago M.A. Santos et al.   FEMS MICROBIOLOGY ECOLOGY

Ovine pedomics: the first study of the ovine foot 16S rRNA-based microbiome

(2011) Leo A Calvo-Bado et al.   ISME Journal

Metagenomic biomarker discovery and explanation

(2011) Nicola Segata et al.   GENOME BIOLOGY

Prebiotic effects: metabolic and health benefits

(2010) Marcel Roberfroid et al.   BRITISH JOURNAL OF NUTRITION

Transcriptional profiling of cattle infected with Trypanosoma congolense highlights gene expression signatures underlying trypanotolerance and trypanosusceptibility

(2009) Grace M O'Gorman et al.   BMC GENOMICS

Murdochiella asaccharolytica gen. nov., sp. nov., a Gram-stain-positive, anaerobic coccus isolated from human wound specimens

(2009) N. Ulger-Toprak et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

A Promoter Sequence Variant of ZNF750 Is Linked with Familial Psoriasis

(2008) Chi-Fan Yang et al.   JOURNAL OF INVESTIGATIVE DERMATOLOGY