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2018
Bacterial density rather than diversity correlates with hatching success across different avian species
FEMS Microbiology Ecology
2018
Comparison of microbiomes of cold-water corals Primnoa pacifica and Primnoa resedaeformis, with possible link between microbiome composition and host genotype
Scientific Reports
2018
Effects of limestone inclusion on growth performance, intestinal microbiota, and the jejunal transcriptomic profile when fed to weaning pigs
Animal Feed Science and Technology
2018
Dysbiosis of the Vaginal Microbiota and Higher Vaginal Kynurenine/Tryptophan Ratio Reveals an Association with Chlamydia trachomatis Genital Infections
Frontiers in Cellular and Infection Microbiology
2018
Microbial community assembly in wild populations of the fruit fly Drosophila melanogaster
The ISME Journal
2018
Direct and indirect effects of a pH gradient bring insights into the mechanisms driving prokaryotic community structures
Microbiome
2018
A comparison of bioinformatic approaches for 16S rRNA gene profiling of food bacterial microbiota
International Journal of Food Microbiology
2018
Effect of dark sweet cherry powder consumption on the gut microbiota, short-chain fatty acids, and biomarkers of gut health in obese db/db mice
PeerJ
2018
A parallel computational framework for ultra-large-scale sequence clustering analysis
Bioinformatics
2018
Detecting macroecological patterns in bacterial communities across independent studies of global soils
Nature Microbiology
2018
Updating the 97% identity threshold for 16S ribosomal RNA OTUs
Bioinformatics
2018
In vivo microbiome and associated immune markers: New insights into the pathogenesis of vaginal dysbiosis
Scientific Reports
2018
Substrate-Induced Response in Biogas Process Performance and Microbial Community Relates Back to Inoculum Source
Microorganisms
2018
Phylogenetic Placement of Exact Amplicon Sequences Improves Associations with Clinical Information
mSystems
2018
Influence of immunogenetics, sex and body condition on the cutaneous microbial communities of two giant salamanders
Molecular Ecology
2018
The Gut Microbiome in Health and Disease
2018
Bifidobacterium longum BB536 alleviated upper respiratory illnesses and modulated gut microbiota profiles in Malaysian pre-school children
Beneficial Microbes
2018
Extracellular DNA as a genetic recorder of microbial diversity in benthic deep-sea ecosystems
Scientific Reports
2018
A nitrogen removal system to limit water exchange for recirculating freshwater aquarium using DHS–USB reactor
Environmental Technology
2018
Stable and Enriched Cenarchaeum symbiosum and Uncultured Betaproteobacteria HF1 in the Microbiome of the Mediterranean Sponge Haliclona fulva (Demospongiae: Haplosclerida)
Microbial Ecology
2018
Halotolerant microbial consortia able to degrade highly recalcitrant plant biomass substrate
Applied Microbiology and Biotechnology
2018
Early Salmonella Typhimurium infection in pigs disrupts Microbiome composition and functionality principally at the ileum mucosa
Scientific Reports
2018
Metagenomics
2018
Quantification of Mercury Bioavailability for Methylation Using Diffusive Gradient in Thin-Film Samplers
Environmental Science & Technology
2018
Systematic, continental scale temporal monitoring of marine pelagic microbiota by the Australian Marine Microbial Biodiversity Initiative
Scientific Data
2018
High-fat, high-fructose, high-cholesterol feeding causes severe NASH and cecal microbiota dysbiosis in juvenile Ossabaw swine
American Journal of Physiology-Endocrinology and Metabolism
2018
Prediction of functional metagenomic composition using archived 16S rDNA sequence data from the gut microbiota of livestock
Livestock Science
2018
The effect of resistant starch (RS) on the bovine rumen microflora and isolation of RS-degrading bacteria
Applied Microbiology and Biotechnology
2018
Dietary Changes Involving <b><i>Bifidobacterium</i></b> <b><i>longum</i></b> and Other Nutrients Delays Chronic Kidney Disease Progression
American Journal of Nephrology
2018
Hydrothermal chimneys host habitat-specific microbial communities: analogues for studying the possible impact of mining seafloor massive sulfide deposits
Scientific Reports
2018
Symposium review: Mining metagenomic and metatranscriptomic data for clues about microbial metabolic functions in ruminants 1
Journal of Dairy Science
2018
Strongyle Infection and Gut Microbiota: Profiling of Resistant and Susceptible Horses Over a Grazing Season
Frontiers in Physiology
2018
Gut Microbiota of Great Spotted Cuckoo Nestlings is a Mixture of Those of Their Foster Magpie Siblings and of Cuckoo Adults
Genes
2018
High-throughput environmental sequencing reveals high diversity of litter and moss associated protist communities along a gradient of drainage and tree productivity
Environmental Microbiology
2018
Discrepancies Between Molecular and Morphological Databases of Soil Ciliates Studied for Temperate Grasslands of Central Europe
Protist
2018
A comparative study of prokaryotic diversity and physicochemical characteristics of Devils Hole and the Ash Meadows Fish Conservation Facility, a constructed analog
PLOS ONE
2018
Unbiased Taxonomic Annotation of Metagenomic Samples
Journal of Computational Biology
2018
MicroPheno: predicting environments and host phenotypes from 16S rRNA gene sequencing using a k-mer based representation of shallow sub-samples
Bioinformatics
2018
Effects of metam sodium fumigation on the abundance, activity, and diversity of soil bacterial communities
Applied Soil Ecology
2018
Metagenomic Analysis of Subtidal Sediments from Polar and Subpolar Coastal Environments Highlights the Relevance of Anaerobic Hydrocarbon Degradation Processes
Microbial Ecology
2018
Nematode-associated microbial taxa do not correlate with host phylogeny, geographic region or feeding morphology in marine sediment habitats
Molecular Ecology
2018
In tandem effects of activated carbon and quorum quenching on fouling control and simultaneous removal of pharmaceutical compounds in membrane bioreactors
Chemical Engineering Journal
2018
Dietary live yeast and increased water temperature influence the gut microbiota of rainbow trout
Journal of Applied Microbiology
2018
Predictive Modeling of Microbiome Data Using a Phylogeny-Regularized Generalized Linear Mixed Model
Frontiers in Microbiology
2018
Experimentally induced metamorphosis in highly regenerative axolotl (ambystoma mexicanum) under constant diet restructures microbiota
Scientific Reports
2018
How gut transcriptional function of Drosophila melanogaster varies with the presence and composition of the gut microbiota
Molecular Ecology
2018
Associations between Escherichia coli O157 shedding and the faecal microbiota of dairy cows
Journal of Applied Microbiology
2018
Functional variation in the gut microbiome of wild Drosophila populations
Molecular Ecology
2017
Soy compared with milk protein in a Western diet changes fecal microbiota and decreases hepatic steatosis in obese OLETF rats
The Journal of Nutritional Biochemistry
2017
Lecture Notes in Computer Science
2017
Comparative Metagenomics of the Polymicrobial Black Band Disease of Corals
Frontiers in Microbiology
2017
Subgingival Microbiome Colonization and Cytokine Production during Early Dental Implant Healing
mSphere
2017
Cecal Microbiota in Broilers Fed with Prebiotics
Frontiers in Genetics
2017
Lactobacillus johnsonii N6.2 Modulates the Host Immune Responses: A Double-Blind, Randomized Trial in Healthy Adults
Frontiers in Immunology
2017
Sustainable Shale Oil and Gas
2017
Gut Microbiome and Putative Resistome of Inca and Italian Nobility Mummies
Genes
2017
Effects of dietary inclusion of the yeasts Saccharomyces cerevisiae and Wickerhamomyces anomalus on gut microbiota of rainbow trout
Aquaculture
2017
Methods in Molecular Biology
2017
Evaluating the accuracy of amplicon-based microbiome computational pipelines on simulated human gut microbial communities
BMC Bioinformatics
2017
Diversity is the question, not the answer
The ISME Journal
2017
Fungal diversity and community structure in gut, mound and surrounding soil of fungus-cultivating termites
African Journal of Microbiology Research
2017
Exact sequence variants should replace operational taxonomic units in marker-gene data analysis
The ISME Journal
2017
Randomized clinical trial to evaluate the effect of fecal microbiota transplant for initial Clostridium difficile infection in intestinal microbiome
PLOS ONE
2017
Moving beyond de novo clustering in fungal community ecology
New Phytologist
2017
Microbiota composition of the koala (Phascolarctos cinereus) ocular and urogenital sites, and their association with Chlamydia infection and disease
Scientific Reports
2017
Cutaneous microbiota of the Japanese giant salamander (Andrias japonicus), a representative of an ancient amphibian clade
Hydrobiologia
2017
Decreased Taxon-Specific IgA Response in Relation to the Changes of Gut Microbiota Composition in the Elderly
Frontiers in Microbiology
2017
Environmental fluctuations and host skin bacteria shift survival advantage between frogs and their fungal pathogen
The ISME Journal
2017
Diversity of microflora at the fourth destroyed unit of the ChNPP
Nuclear Physics and Atomic Energy
2017
Effect of barley supplementation on the fecal microbiota, caecal biochemistry, and key biomarkers of obesity and inflammation in obese db/db mice
European Journal of Nutrition
2017
Full Issue PDF
Phytobiomes
2017
Microbiomic differences in tumor and paired-normal tissue in head and neck squamous cell carcinomas
Genome Medicine
2017
Cutaneous Microbial Community Variation across Populations of Eastern Hellbenders (Cryptobranchus alleganiensis alleganiensis)
Frontiers in Microbiology
2017
Microbial Factors Associated with Postoperative Crohn’s Disease Recurrence
Journal of Crohn's and Colitis
2017
The molecular ecology of Microcystis sp. blooms in the San Francisco Estuary
Environmental Microbiology
2017
A communal catalogue reveals Earth’s multiscale microbial diversity
Nature
2017
Critical Issues in Mycobiota Analysis
Frontiers in Microbiology
2017
The effect of temperature and retention time on methane production and microbial community composition in staged anaerobic digesters fed with food waste
Biotechnology for Biofuels
2017
Probiotics in Agroecosystem
2017
Two dynamic regimes in the human gut microbiome
PLOS Computational Biology
2017
Visibiome: an efficient microbiome search engine based on a scalable, distributed architecture
BMC Bioinformatics
2017
The rectal mucosa and condomless receptive anal intercourse in HIV-negative MSM: implications for HIV transmission and prevention
Mucosal Immunology
2017
What do we learn from cultures in the omics age? High-throughput sequencing and cultivation of leaf-inhabiting endophytes from beech (Fagus sylvatica L.) revealed complementary community composition but similar correlations with local habitat conditions
MycoKeys
2017
Microbial composition of spiny ants (Hymenoptera: Formicidae: Polyrhachis) across their geographic range
BMC Evolutionary Biology
2017
Subclinical alteration of the cervical-vaginal microbiome in women with idiopathic infertility
Journal of Cellular Physiology
2017
Selective depletion of uropathogenic E. coli from the gut by a FimH antagonist
Nature
2017
Temperature variation, bacterial diversity and fungal infection dynamics in the amphibian skin
Molecular Ecology
2017
Cutaneous Bacterial Communities of a Poisonous Salamander: a Perspective from Life Stages, Body Parts and Environmental Conditions
Microbial Ecology
2017
Methods in Microbiology
2017
Microbiome measurement: Possibilities and pitfalls
Best Practice & Research Clinical Gastroenterology
2017
Divergent extremes but convergent recovery of bacterial and archaeal soil communities to an ongoing subterranean coal mine fire
The ISME Journal
2017
Comprehensive Molecular Characterization of Bacterial Communities in Feces of Pet Birds Using 16S Marker Sequencing
Microbial Ecology
2017
Skin microbiota differs drastically between co-occurring frogs and newts
Royal Society Open Science
2017
Molecular assessment of the fecal microbiota in healthy cats and dogs before and during supplementation with fructo-oligosaccharides (FOS) and inulin using high-throughput 454-pyrosequencing
PeerJ
2017
A wellness study of 108 individuals using personal, dense, dynamic data clouds
Nature Biotechnology
2017
Prokaryotic Community Distribution along an Ecological Gradient of Salinity in Surface and Subsurface Saline Soils
Scientific Reports
2017
Bacterial diversity in Buruli ulcer skin lesions: Challenges in the clinical microbiome analysis of a skin disease
PLOS ONE
2017
Composition of Micro-eukaryotes on the Skin of the Cascades Frog (Rana cascadae) and Patterns of Correlation between Skin Microbes and Batrachochytrium dendrobatidis
Frontiers in Microbiology
2017
The Effects of Weaning Methods on Gut Microbiota Composition and Horse Physiology
Frontiers in Physiology
2017
Alien vs. predator: bacterial challenge alters coral microbiomes unless controlled by Halobacteriovorax predators
PeerJ
2017
Revegetation rewilds the soil bacterial microbiome of an old field
Molecular Ecology
2017
Strategies to improve reference databases for soil microbiomes
The ISME Journal
2017
Faecal bacterial microbiota in patients with cirrhosis and the effect of lactulose administration
BMC Gastroenterology
2017
The Wheat Microbiome Under Four Management Strategies, and Potential for Endophytes in Disease Protection
Phytobiomes
2017
Spatio-temporal variability in Mediterranean rocky shore microphytobenthos
Marine Ecology Progress Series
2017
Fungal diversity and seasonal succession in ash leaves infected by the invasive ascomycete Hymenoscyphus fraxineus
New Phytologist
2017
Host niche may determine disease-driven extinction risk
PLOS ONE
2017
Preferential suppression of Anopheles gambiae host sequences allows detection of the mosquito eukaryotic microbiome
Scientific Reports
2017
Biogeographic Comparison of Lophelia-Associated Bacterial Communities in the Western Atlantic Reveals Conserved Core Microbiome
Frontiers in Microbiology
2017
Personalization of the Microbiota of Donor Human Milk with Mother’s Own Milk
Frontiers in Microbiology
2017
Temporal changes in cutaneous bacterial communities of terrestrial- and aquatic-phase newts (Amphibia)
Environmental Microbiology
2017
Modulation of the tick gut milieu by a secreted tick protein favors Borrelia burgdorferi colonization
Nature Communications
2017
Accuracy of microbial community diversity estimated by closed- and open-reference OTUs
PeerJ
2016
ghost-tree: creating hybrid-gene phylogenetic trees for diversity analyses
Microbiome
2016
Introducing BASE: the Biomes of Australian Soil Environments soil microbial diversity database
GigaScience
2016
Microbiome shifts and the inhibition of quorum sensing by Black Band Disease cyanobacteria
The ISME Journal
2016
Exploring the cockatiel (Nymphicus hollandicus) fecal microbiome, bacterial inhabitants of a worldwide pet
PeerJ
2016
Taxonomic and predicted metabolic profiles of the human gut microbiome in pre-Columbian mummies
FEMS Microbiology Ecology
2016
Influence of whole-wheat consumption on fecal microbial community structure of obese diabetic mice
PeerJ
2016
Spatial Heterogeneity of Gut Microbial Composition along the Gastrointestinal Tract in Natural Populations of House Mice
PLOS ONE
2016
Epimicrobiota Associated with the Decay and Recovery of Orbicella Corals Exhibiting Dark Spot Syndrome
Frontiers in Microbiology
2016
Different inocula produce distinctive microbial consortia with similar lignocellulose degradation capacity
Applied Microbiology and Biotechnology
2016
The microbiome of otitis media with effusion
The Laryngoscope
2016
Microbiota formed on attached stainless steel coupons correlates with the natural biofilm of the sink surface in domestic kitchens
Canadian Journal of Microbiology
2016
Molecular exploration of fecal microbiome in quinoa-supplemented obese mice
FEMS Microbiology Ecology
2016
It's all relative: analyzing microbiome data as compositions
Annals of Epidemiology
2016
Bacterial community diversity of the deep-sea octocoralParamuricea placomus
PeerJ
2016
Bacterial community composition and fhs profiles of low- and high-ammonia biogas digesters reveal novel syntrophic acetate-oxidising bacteria
Biotechnology for Biofuels
2016
Development of the gut microbiota and mucosal IgA responses in twins and gnotobiotic mice
Nature
2016
Amphibian gut microbiota shifts differentially in community structure but converges on habitat-specific predicted functions
Nature Communications
2016
Gut microbiota are linked to increased susceptibility to hepatic steatosis in low-aerobic-capacity rats fed an acute high-fat diet
American Journal of Physiology-Gastrointestinal and Liver Physiology
2016
Composition of the Cutaneous Bacterial Community in Japanese Amphibians: Effects of Captivity, Host Species, and Body Region
Microbial Ecology
2016
Coral-Associated Bacterial Diversity Is Conserved across Two Deep-Sea Anthothela Species
Frontiers in Microbiology
2016
Tiny microbes, enormous impacts: what matters in gut microbiome studies?
Genome Biology
2016
Characterisation of the gastrointestinal mucosa-associated microbiota: a novel technique to prevent cross-contamination during endoscopic procedures
Alimentary Pharmacology & Therapeutics
2016
Characterization of the stromatolite microbiome from Little Darby Island, The Bahamas using predictive and whole shotgun metagenomic analysis
Environmental Microbiology
2016
Aging and serum MCP-1 are associated with gut microbiome composition in a murine model
PeerJ
2016
Probiotic treatment restores protection against lethal fungal infection lost during amphibian captivity
Proceedings of the Royal Society B: Biological Sciences
2016
18S rRNA V9 metabarcoding for diet characterization: a critical evaluation with two sympatric zooplanktivorous fish species
Ecology and Evolution
2016
Printing-Assisted Surface Modifications of Patterned Ultrafiltration Membranes
ACS Applied Materials & Interfaces
2016
Bacterial microbiome of breast milk and child saliva from low-income Mexican-American women and children
Pediatric Research
2016
Metabarcoding of Bacteria Associated with the Acute Oak Decline Syndrome in England
Forests
2016
Endemic hydrothermal vent species identified in the open ocean seed bank
Nature Microbiology
2016
Carrageenan Gum and Adherent Invasive Escherichia coli in a Piglet Model of Inflammatory Bowel Disease: Impact on Intestinal Mucosa-associated Microbiota
Frontiers in Microbiology
2016
Effect of Dietary Fibers on Cecal Microbiota and Intestinal Tumorigenesis in Azoxymethane Treated A/J Min/+ Mice
PLOS ONE
2016
Using the gut microbiota as a novel tool for examining colobine primate GI health
Global Ecology and Conservation
2016
Partial restoration of the microbiota of cesarean-born infants via vaginal microbial transfer
Nature Medicine
2015
The microbiome of the human lower airways: a next generation sequencing perspective
World Allergy Organization Journal
2015
Ecological Succession and Viability of Human-Associated Microbiota on Restroom Surfaces
Applied and Environmental Microbiology
2015
454 Pyrosequencing-based assessment of bacterial diversity and community structure in termite guts, mounds and surrounding soils
SpringerPlus
2015
Deriving accurate microbiota profiles from human samples with low bacterial content through post-sequencing processing of Illumina MiSeq data
Microbiome
2015
The Role of Curcumin in Modulating Colonic Microbiota During Colitis and Colon Cancer Prevention
Inflammatory Bowel Diseases
2015
De novo clustering methods outperform reference-based methods for assigning 16S rRNA gene sequences to operational taxonomic units
PeerJ
2015
Dynamics of marine bacterial community diversity of the coastal waters of the reefs, inlets, and wastewater outfalls of southeast Florida
MicrobiologyOpen
2015
The microbiome of otitis media with effusion in Indigenous Australian children
International Journal of Pediatric Otorhinolaryngology
2015
Swarm v2: highly-scalable and high-resolution amplicon clustering
PeerJ
2015
Stability of operational taxonomic units: an important but neglected property for analyzing microbial diversity
Microbiome
2015
The short-chain fatty acid receptor, FFA2, contributes to gestational glucose homeostasis
American Journal of Physiology-Endocrinology and Metabolism
2015
Springer Protocols Handbooks
2015
Context and the human microbiome
Microbiome
2015
Springer Protocols Handbooks
2015
Euphorbia plant latex is inhabited by diverse microbial communities
American Journal of Botany
2015
Microbial diversity—exploration of natural ecosystems and microbiomes
Current Opinion in Genetics & Development
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