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Sample Repository

-- Choose -- Brown Digital Repository DDBJ European Nucleotide Archive (ENA) Mendeley MG-RAST Missing National Center for Biotechnology Information (NCBI) Nematode.net Not applicable (qPCR) SRA TODO

Diversity Change

-- Choose -- Decrease Increase None - no change Not assessed

Host Species

-- Choose -- Alpine Goat (Capra aegagrus hircus) Cat (Felis catus) Cattle (Bos taurus) Chimpanzees (Pan troglodytes verus) Dog (Canis lupus familiaris) Hamster (Mesocricetus auratus) Horse (Equus ferus caballus) Human (Homo Sapiens) Macaca mulatta - captive Mouse (Mus musculus) Pig (Sus scrofa domestica) Rabbits (Oryctolagus cuniculus) Rat (Rattus norvegicus) Sheep (Ovis aries) Three-spined stickleback (Gasterosteus aculeatus) UNKNOWN Wild yellow-necked mouse (Apodemus flavicollis)

Infection Type

-- Choose -- Experimental Natural

Journal

-- Choose -- Brain, Behavior, and Immunity Cells Experimental Parasitology Front. Genet Frontiers in Cellular and Infection Microbiology Frontiers in Immunology Frontiers in Microbiology Frontiers in Physiology Gut microbes Journal Gut Microbes Infection and Immunity (WAS: American Society for Microbiology Journals) Infection, Genetics and Evolution Inflammatory Bowel Diseases International Journal for Parasitology Journal of Microbiology, Immunology and Infection mBio Microbiome mSystems Mucosal Immunology Nature Communications Volume Parasites & Vectors Parasitology Parasitology Research PeerJ — the Journal of Life and Environmental Sciences Philosophical Transactions of the Royal Society London B: Biolological Sciences PLoS One PLoS Neglected Tropical Diseases PLoS Pathogens Science Advances Scientific Reports The American Journal of Tropical Medicine and Hygiene The ISME Journal The FASEB Journal The Journal of Infectious Diseases TODO Veterinary Microbiology Veterinary Research Communications

Parasite Species

-- Choose -- Ancylostoma caninum Ancylostoma ceylanicum Ancylostoma duodenale Anoplocephala perfoliata Ascaris lumbricoides Ascaris spp. Ascaris suum Blastocystis sp. Clonorchis sinensis Cryptosporidium Cyathostominae Cystoisospora rivolta Entamoeba hartmanni Enterobius vermicularis ES-62 Giardia intestinalis glutathione S-transferase (P28GST) from Schistosoma glycoprotein from Acanthocheilonema viteae Haemonchus contortus Heligmosomoides polygyrus Hookworms Hymenolepis diminuta Hymenolepsis spp. Metagonimus yokogawai Necator americanus Nippostrongylus brasiliensis Opisthorchis viverrini Ostertagia ostertagi Schistocephalus solidus Schistosoma haematobium Schistosoma mansoni Strongyles Strongyloides spp. Strongyloides stercoralis Strongyloides venezuelensis Syphacia spp. Teladorsagia circumcincta TODO Toxocara cati Trichinella spiralis Trichostrongylus retortaeformis Trichuris muris Trichuris spp. Trichuris suis Trichuris trichiura Trichuris vulpis

Profiling Method

-- Choose -- Bacterial 16S rRNA qPCR Cloning and bacterial 16S rRNA amplicon qPCR High throughput sequencing of 16S rRNA amplicons (Ion Torrent) High throughput sequencing of bacterial 16S rRNA amplicons (Illumina) High throughput sequencing of bacterial 16S rRNA amplicons (Roche 454) Whole metagenome shotgun sequencing (Illumina) Whole metagenome shotgun sequencing (Roche 454) Whole metagenome shotgun sequencing (Roche 454), High throughput sequencing of bacterial 16S rRNA amplicons (Roche 454)

Sample Site

-- Choose -- Abomasum Bile ducts Caecum Colon Colorectum COMPOUND: ileum, caecum COMPOUND: ileum, caecum, colon Duodenum Ileum Large intestine Liver None Rumen Small intestine Stomach

Sample Type

-- Choose -- Biopsy Blood Faeces Fluids Lumen Mucosa None

Phylum

-- Choose -- -- N/A -- Actinobacteria Bacteroides Bacteroidetes Candidatus Saccharibacteria Cyanobacteria Deferribacteres Elusimicrobia Euryarchaeota Fibrobacteres Firmicutes Fusobacteria Gammatimonadetes Lachnospiraceae Proteobacteria Spirochaetes Tenericutes Verrucomicrobia

Class

-- Choose -- -- N/A -- Actinobacteria Alphaproteobacteria Bacilli Bacteroidia Betaproteobacteria Clostridia Coreobacteriia Deltaproteobacteria Endomicrobia Erysipelotrichi Erysipelotrichia Flavobacteria Fusobacteriia Gammaproteobacteria Melainabacteria Methanomicrobia Mollicutes Negativicutes Opitutae Tenericutes Verrucomicrobiae

Order

-- Choose -- -- N/A -- Anaeroplasmatales Bacteroidales Bifidobacteriales Cerasiococcales Clostridiales Coriobacteriales Desulfovibrionales Elusimicrobiales Enterobacterales Erysipelotrichales Flavobacteriales Fusobacteriales Gastranaerophilales GMD14H09 Lactobacillales Methanomicrobiales Pasteurellales Pseudomonadales RF32 RF9 Rickettsiales Selenomonadales Turicibacterales Verrucomicrobiales

Family

-- Choose -- -- N/A -- Anaeroplasmataceae Bacteroidaceae Bifidobacteriaceae Campylobacteraceae Cerasiococcaceae Clostridiaceae Coriobacteriaceae Coriobacteriaceae Dehalobacteriaceae Desulfobacteraceae Desulfovibrionaceae Elusimicrobiaceae Enterobacteriaceae Enterococcaceae Erysipelotrichaceae Erysipelotrichaceaeileum Eubacteriaceae Fusobacteriaceae Lachnospiracaea Lachnospiraceae Lactobacillaceae Lactobacilluscrispatus Lactobacilluskitasatonis Leptospiraceae Leuconostocaceae Methanocorpusculaceae Mogibacteriaceae Moraxellaceae Odoribacteraceae Paraprevotellaceae Pasteurellaceae Peptococcaceae Peptostreptococcaceae Phyromonadaceae Porphyromonadaceae Prevotellaceae Pseudomonadaceae Rikenellaceae Ruminococcaceae S24-7 Streptococcaceae Sutterellaceae Turicibacteraceae Veillonellaceae Verrucomicrobiaceae Weeksellacea

Genus

-- Choose -- -- N/A -- Acetanaerobacterium Acetivibrio Acinetobacter Actinobacillus Adlercreutzia Agrobacterium Akkermansia Alistipes Allobaculum Alloprevotella Aquamicrobium Asteroleplasma Bacillus Bacteroides Bacteroidescaecum Barnsiella BF311 Bifidobacterium Blautia Brachyspira Bulleidia Butyricicoccus Campylobacter Candidatus Arthromitus Catenibacterium CF231 Chelatococcus Christensenella Cloacibacillus Clostridium ClostridiumIII ClsotridiumXIVa Collinsella Coprobacillus Coriobacteriaceae Dehalobacterium Desulfocella Desulfovibrio Dialister Dorea Enhydrobacter Enterobacter Enterococcus Enterorhabdus Epulopiscium Escherichia Ethanoligenens Eubacterium Fibrobacter Francisella Fructobacillus Fusobacterium Geobacillus Haemophilus Halomonas Howardella Jeotgalicoccus Klebsiella Lactobacillus Lactobacillusileum Lactococcus Leptomena Leucobacter Megamonas Megasphaera Meiothermus Methanocorpusculum Methylobacterium Microbacterium MollicutesRF9 Mucispirillum Mucospirillium Mycoplasma Nevskia Olsenella Oribacterium Oscillibacter Oscillospira Paludibacter Papilibacter Parabacteroides Paraprevotella Parasutterella Peptococcus Prevotella Proteiniphilum Pseudobutyrivibrio Pseudomonas RFN20 Rhodococcus Rosburia Roseburia Ruminococcus Schlegelella Schwartzia Selenomonas Silanimonas Sphingomonas Spirochaeta Sporobacter Staphylococcus Streptococcus Subdoligranulum Succiniclasticum Succinivibrio Sutterella Thermomonas Thermotoga Treponema Turibacter Turicibacter Variovorax Veillonella

Species

-- Choose -- -- N/A -- Akkermansia muciniphila Bacteroides acidifaciens Candidatus arthromitus SFB Clostridium cochleatum Enterobacter arachidis Lactobacillus intestinalis Lactobacillus reuteri Ruminococcus gnavus Selenomonas ruminantium

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