Citation sources

Updated weekly. Details via Crossref
Crossref Scopus Google Scholar
365 308 Search
2019
Advances in Intelligent Systems and Computing
2019
Development of a DNA metabarcoding method for the identification of fifteen mammalian and six poultry species in food
Food Chemistry
2019
Environmental variables better explain changes in potential nitrification and denitrification activities than microbial properties in fertilized forest soils
Science of The Total Environment
2019
Assessment of the effects of oxamyl on the bacterial community of an agricultural soil exhibiting enhanced biodegradation
Science of The Total Environment
2019
Iron-organic matter complexes accelerate microbial iron cycling in an iron-rich fen
Science of The Total Environment
2019
Bats as potential suppressors of multiple agricultural pests: A case study from Madagascar
Agriculture, Ecosystems & Environment
2018
Discrepancies Between Molecular and Morphological Databases of Soil Ciliates Studied for Temperate Grasslands of Central Europe
Protist
2018
Comparative Analysis of Homologous Sequences of Saccharum officinarum and Saccharum spontaneum Reveals Independent Polyploidization Events
Frontiers in Plant Science
2018
Multi-marker metabarcoding approach to study mesozooplankton at basin scale
Scientific Reports
2018
Water, water everywhere: environmental DNA can unlock population structure in elusive marine species
Royal Society Open Science
2018
Analysis of the otic mycobiota in dogs with otitis externa compared to healthy individuals
Veterinary Dermatology
2018
DNA metabarcoding reveals the complex and hidden responses of chironomids to multiple stressors
Environmental Sciences Europe
2018
Detecting host-parasitoid interactions in an invasive Lepidopteran using nested tagging DNA metabarcoding
Molecular Ecology
2018
Integrating quantitative morphological and qualitative molecular methods to analyse soil nematode community responses to plant range expansion
Methods in Ecology and Evolution
2018
Horizontal transfer of BovB and L1 retrotransposons in eukaryotes
Genome Biology
2018
Resolving neutral and deterministic contributions to genomic structure in Syntrichia ruralis (Bryophyta, Pottiaceae) informs propagule sourcing for dryland restoration
Conservation Genetics
2018
Long-read DNA metabarcoding of ribosomal RNA in the analysis of fungi from aquatic environments
Molecular Ecology Resources
2018
Coral Bacterial-Core Abundance and Network Complexity as Proxies for Anthropogenic Pollution
Frontiers in Microbiology
2018
Lithocholic Acid Improves the Survival of Drosophila Melanogaster
Molecular Nutrition & Food Research
2018
Predator identity more than predator richness structures aquatic microbial assemblages in Sarracenia purpurea leaves
Ecology
2018
Run-to-Run Sequencing Variation Can Introduce Taxon-Specific Bias in the Evaluation of Fungal Microbiomes
Phytobiomes
2018
Correcting for 16S rRNA gene copy numbers in microbiome surveys remains an unsolved problem
Microbiome
2018
Microbiota Composition May Predict Anti-Tnf Alpha Response in Spondyloarthritis Patients: an Exploratory Study
Scientific Reports
2018
Profiling of Bacterial and Fungal Microbial Communities in Cystic Fibrosis Sputum Using RNA
mSphere
2018
Epidermal lipid composition, barrier integrity, and eczematous inflammation are associated with skin microbiome configuration
Journal of Allergy and Clinical Immunology
2018
Comparison of differences in microbial compositions between negative controls and subject samples with varying analysis configurations
Allergy, Asthma & Respiratory Disease
2018
TaxAss: Leveraging a Custom Freshwater Database Achieves Fine-Scale Taxonomic Resolution
mSphere
2018
Effect of temperature and dietary lipid proportion on gut microbiota in yellowtail kingfish Seriola lalandi juveniles
Aquaculture
2018
DNA metabarcoding of spiders, insects, and springtails for exploring potential linkage between above- and below-ground food webs
Zoological Letters
2018
Great differences in performance and outcome of high-throughput sequencing data analysis platforms for fungal metabarcoding
MycoKeys
2018
Metagenomics
2018
Low-Temperature Sulfidic-Ice Microbial Communities, Borup Fiord Pass, Canadian High Arctic
Frontiers in Microbiology
2018
16S metagenomic analysis reveals adaptability of a mixed-PAH-degrading consortium isolated from crude oil-contaminated seawater to changing environmental conditions
Journal of Hazardous Materials
2018
Microbial community response to growing season and plant nutrient optimisation in a boreal Norway spruce forest
Soil Biology and Biochemistry
2018
Development and preliminary validation of a multi-trophic metabarcoding biotic index for monitoring benthic organic enrichment
Ecological Indicators
2018
Metagenomics reveal triclosan-induced changes in the antibiotic resistome of anaerobic digesters
Environmental Pollution
2018
Human-Associated Lachnospiraceae Genetic Markers Improve Detection of Fecal Pollution Sources in Urban Waters
Applied and Environmental Microbiology
2018
High diversity of thermophilic cyanobacteria in Rupite hot spring identified by microscopy, cultivation, single-cell PCR and amplicon sequencing
Extremophiles
2018
Variations in the relative abundance of Wolbachia in the gut of Nasutitermes arborum across life stages and castes
FEMS Microbiology Letters
2018
Subclinical Cytomegalovirus Infection Is Associated with Altered Host Immunity, Gut Microbiota, and Vaccine Responses
Journal of Virology
2018
Diversity patterns of microbial eukaryotes mirror those of bacteria in Antarctic cryoconite holes
FEMS Microbiology Ecology
2018
Incorporating molecular-based functional and co-occurrence network properties into benthic marine impact assessments
FEMS Microbiology Ecology
2018
Metatranscriptome Sequencing Reveals Insights into the Gene Expression and Functional Potential of Rumen Wall Bacteria
Frontiers in Microbiology
2018
A cross-taxa study using environmental DNA/RNA metabarcoding to measure biological impacts of offshore oil and gas drilling and production operations
Marine Pollution Bulletin
2018
Primer selection impacts specific population abundances but not community dynamics in a monthly time-series 16S rRNA gene amplicon analysis of coastal marine bacterioplankton
Environmental Microbiology
2018
Indexed variation graphs for efficient and accurate resistome profiling
Bioinformatics
2018
Depth matters: effects of precipitation regime on soil microbial activity upon rewetting of a plant-soil system
The ISME Journal
2018
Apple endophytic microbiota of different rootstock/scion combinations suggests a genotype-specific influence
Microbiome
2018
Dynamics and determinants of amoeba community, occurrence and abundance in subtropical reservoirs and rivers
Water Research
2018
Detection of stable community structures within gut microbiota co-occurrence networks from different human populations
PeerJ
2018
Single-Cell Genomics Reveals a Diverse Metabolic Potential of Uncultivated Desulfatiglans-Related Deltaproteobacteria Widely Distributed in Marine Sediment
Frontiers in Microbiology
2018
A comparative study of single- and two-phase anaerobic digestion of food waste under uncontrolled pH conditions
Waste Management
2018
Newly designed 16S rRNA metabarcoding primers amplify diverse and novel archaeal taxa from the environment
Environmental Microbiology Reports
2018
Direct-fed microbial supplementation influences the bacteria community composition of the gastrointestinal tract of pre- and post-weaned calves
Scientific Reports
2018
Microplastic pollution increases gene exchange in aquatic ecosystems
Environmental Pollution
2018
ViDiT–CACTUS: an inexpensive and versatile library preparation and sequence analysis method for virus discovery and other microbiology applications
Canadian Journal of Microbiology
2018
Next Generation Sequencing of Ancient Fungal Specimens: The Case of the Saccardo Mycological Herbarium
Frontiers in Ecology and Evolution
2018
Incomplete Co-cladogenesis Between Zootermopsis Termites and Their Associated Protists
Environmental Entomology
2018
Characterization of bacterial and microbial eukaryotic communities associated with an ephemeral hypoxia event in Taihu Lake, a shallow eutrophic Chinese lake
Environmental Science and Pollution Research
2018
Vertically distinct microbial communities in the Mariana and Kermadec trenches
PLOS ONE
2018
Determining lineage-specific bacterial growth curves with a novel approach based on amplicon reads normalization using internal standard (ARNIS)
The ISME Journal
2018
Treated and untreated wastewater effluents alter river sediment bacterial communities involved in nitrogen and sulphur cycling
Science of The Total Environment
2018
FROGS: Find, Rapidly, OTUs with Galaxy Solution
Bioinformatics
2018
Depicting the composition of gut microbiota in a population with varied ethnic origins but shared geography
Nature Medicine
2018
Anaerobic co-digestion of high-strength organic wastes pretreated by thermal hydrolysis
Bioresource Technology
2018
Environment and host as large-scale controls of ectomycorrhizal fungi
Nature
2018
Physicochemical differences between malanga ( Xanthosoma sagittifolium ) and potato ( Solanum tuberosum ) tubers are associated with differential effects on the gut microbiome
Journal of Functional Foods
2018
Detrimental Effect of Broad-spectrum Antibiotics on Intestinal Microbiome Diversity in Patients After Allogeneic Stem Cell Transplantation: Lack of Commensal Sparing Antibiotics
Clinical Infectious Diseases
2018
Bulk soil bacterial community structure and function respond to long-term organic and conventional agricultural management
Canadian Journal of Microbiology
2018
Mediation Analysis as a Means of Identifying Dietary Components That Differentially Affect the Fecal Microbiota of Infants Weaned by Modified Baby-Led and Traditional Approaches
Applied and Environmental Microbiology
2018
Daily rhythmicity in coastal microbial mats
npj Biofilms and Microbiomes
2018
Does Population Structure Predict the Rate of Speciation? A Comparative Test across Australia’s Most Diverse Vertebrate Radiation
The American Naturalist
2018
Antarctic Cryptoendolithic Fungal Communities Are Highly Adapted and Dominated by Lecanoromycetes and Dothideomycetes
Frontiers in Microbiology
2018
DNA Template Dilution Impacts Amplicon Sequencing-Based Estimates of Soil Fungal Diversity
Phytobiomes
2018
FRAGMATIC: in silico locus prediction and its utility in optimizing ddRADseq projects
Conservation Genetics Resources
2018
Facultative methanotrophs are abundant at terrestrial natural gas seeps
Microbiome
2018
Characterization of the vaginal microbiome during cytolytic vaginosis using high-throughput sequencing
Journal of Clinical Laboratory Analysis
2018
Understanding bacterial communities for informed biosecurity and improved larval survival in Pacific oysters
Aquaculture
2018
Integrative taxonomy of the lizards Cercosaura ocellata species complex (Reptilia: Gymnophthalmidae)
Zoologischer Anzeiger
2018
First insight into microbiome profile of fungivorous thrips Hoplothrips carpathicus (Insecta: Thysanoptera) at different developmental stages: molecular evidence of Wolbachia endosymbiosis
Scientific Reports
2018
Differential biodiversity responses between kingdoms (plants, fungi, bacteria and metazoa) along an Alpine succession gradient
Molecular Ecology
2018
Injectable antimicrobials in commercial feedlot cattle and their effect on the nasopharyngeal microbiota and antimicrobial resistance
Veterinary Microbiology
2018
Short-term impacts of anthropogenic stressors on Aedes albopictus mosquito vector microbiota
FEMS Microbiology Ecology
2018
Endocervical and vaginal microbiota in South African adolescents with asymptomatic Chlamydia trachomatis infection
Scientific Reports
2018
Optimizing taxonomic classification of marker-gene amplicon sequences with QIIME 2’s q2-feature-classifier plugin
Microbiome
2018
Protists Within Corals: The Hidden Diversity
Frontiers in Microbiology
2018
Microbial communities inhabiting the fairy ring of Floccularia luteovirens and isolation of potential mycorrhiza helper bacteria
Journal of Basic Microbiology
2018
Biodiversity of biological soil crusts from the Polar Regions revealed by metabarcoding
FEMS Microbiology Ecology
2018
ITSoneDB: a comprehensive collection of eukaryotic ribosomal RNA Internal Transcribed Spacer 1 (ITS1) sequences
Nucleic Acids Research
2018
SEED 2: a user-friendly platform for amplicon high-throughput sequencing data analyses
Bioinformatics
2018
Environmental DNA illuminates the dark diversity of sharks
Science Advances
2018
The Hidden Diversity of Flagellated Protists in Soil
Protist
2018
The impact of bacteriophages on phyllosphere bacterial abundance and composition
Molecular Ecology
2018
The Intestinal Mycobiota in Wild Zebrafish Comprises Mainly Dothideomycetes While Saccharomycetes Predominate in Their Laboratory-Reared Counterparts
Frontiers in Microbiology
2018
A Hard Day's Night: Diel Shifts in Microbial Eukaryotic Activity in the North Pacific Subtropical Gyre
Frontiers in Marine Science
2018
Location, Root Proximity, and Glyphosate-Use History Modulate the Effects of Glyphosate on Fungal Community Networks of Wheat
Microbial Ecology
2018
Ecology and Biotechnological Potential of Bacteria Belonging to the Genus Pseudovibrio
Applied and Environmental Microbiology
2018
Diverse Bacteria Utilize Alginate Within the Microbiome of the Giant Kelp Macrocystis pyrifera
Frontiers in Microbiology
2018
SunGold Kiwifruit Supplementation of Individuals with Prediabetes Alters Gut Microbiota and Improves Vitamin C Status, Anthropometric and Clinical Markers
Nutrients
2018
Synopsis and taxonomic revision of three genera in the snake tribe Sonorini
Journal of Natural History
2018
Thermal regime and host clade, rather than geography, drive Symbiodinium and bacterial assemblages in the scleractinian coral Pocillopora damicornis sensu lato
Microbiome
2018
The time response of anaerobic digestion microbiome during an organic loading rate shock
Applied Microbiology and Biotechnology
2018
Drought Legacy Effects on the Composition of Soil Fungal and Prokaryote Communities
Frontiers in Microbiology
2018
Gut Microbiota Profiling and Gut–Brain Crosstalk in Children Affected by Pediatric Acute-Onset Neuropsychiatric Syndrome and Pediatric Autoimmune Neuropsychiatric Disorders Associated With Streptococcal Infections
Frontiers in Microbiology
2018
Porcine Response to a Multidrug-Resistant Salmonella enterica serovar I 4,[5],12:i:- Outbreak Isolate
Foodborne Pathogens and Disease
2018
Assessing Metagenomic Signals Recovered from Lyuba, a 42,000-Year-Old Permafrost-Preserved Woolly Mammoth Calf
Genes
2018
Key Role of Alphaproteobacteria and Cyanobacteria in the Formation of Stromatolites of Lake Dziani Dzaha (Mayotte, Western Indian Ocean)
Frontiers in Microbiology
2018
Potential for manganese biofouling in water transmission lines using model reactors
Environmental Science: Water Research & Technology
2018
Evaluating freshwater macroinvertebrates from eDNA metabarcoding: A river Nalón case study
PLOS ONE
2018
The impact of Rhodiola rosea on the gut microbial community of Drosophila melanogaster
Gut Pathogens
2018
Biochar does not attenuate triclosan's impact on soil bacterial communities
Chemosphere
2018
Carbon and nitrogen in the topsoils of Inceptisols and Mollisols under native sage scrub and non-native grasslands in southern California
Geoderma Regional
2018
Metagenomics
2018
New barcoded primers for efficient retrieval of cercozoan sequences in high-throughput environmental diversity surveys, with emphasis on worldwide biological soil crusts
Molecular Ecology Resources
2018
Microbial ecology of full-scale wastewater treatment systems in the Polar Arctic Circle: Archaea, Bacteria and Fungi
Scientific Reports
2018
Non-biological synthetic spike-in controls and the AMPtk software pipeline improve mycobiome data
PeerJ
2018
Deciphering intra-species bacterial diversity of meat and seafood spoilage microbiota using gyrB amplicon sequencing: A comparative analysis with 16S rDNA V3-V4 amplicon sequencing
PLOS ONE
2018
Scaling up: A guide to high-throughput genomic approaches for biodiversity analysis
Molecular Ecology
2018
Fungal communities in organic and mineral soil horizons in an industrially polluted boreal forest
Biodiversity
2018
Third-party fecal microbiota transplantation following allo-HCT reconstitutes microbiome diversity
Blood Advances
2018
Stool and urine trefoil factor 3 levels: associations with symptoms, intestinal permeability, and microbial diversity in irritable bowel syndrome
Beneficial Microbes
2018
Taxonomic diversity of fungi deposited from the atmosphere
The ISME Journal
2018
eDNA metabarcoding as a new surveillance approach for coastal Arctic biodiversity
Ecology and Evolution
2018
A Nematode of the Mid-Atlantic Ridge Hydrothermal Vents Harbors a Possible Symbiotic Relationship
Frontiers in Microbiology
2018
Bacterial and archaeal profiling of hypersaline microbial mats and endoevaporites, under natural conditions and methanogenic microcosm experiments
Extremophiles
2018
Bacterial microbiome of root-associated endophytes of Salicornia europaea in correspondence to different levels of salinity
Environmental Science and Pollution Research
2018
Combined bacterial and fungal intestinal microbiota analyses: Impact of storage conditions and DNA extraction protocols
PLOS ONE
2018
The Microbiome in Rheumatic Diseases and Infection
2018
A salamander's top down effect on fungal communities in a detritivore ecosystem
FEMS Microbiology Ecology
2018
Phosphorus addition shifts the microbial community in the rhizosphere of blueberry (Vaccinium corymbosum L.)
Rhizosphere
2018
Long-term in situ permafrost thaw effects on bacterial communities and potential aerobic respiration
The ISME Journal
2018
Organic nitrogen addition suppresses fungal richness and alters community composition in temperate forest soils
Soil Biology and Biochemistry
2018
The microbiome in PTEN hamartoma tumor syndrome
Endocrine-Related Cancer
2018
Geographical and Cultivar Features Differentiate Grape Microbiota in Northern Italy and Spain Vineyards
Frontiers in Microbiology
2018
Seasonal and annual variation in fungal communities associated with epigeic springtails (Collembola spp.) in boreal forests
Soil Biology and Biochemistry
2018
Dynamics of compost microbiota during the cultivation of Agaricus bisporus in the presence of Bacillus velezensis QST713 as biocontrol agent against Trichoderma aggressivum
Biological Control
2018
Viable cyanobacteria in the deep continental subsurface
Proceedings of the National Academy of Sciences
2018
Comparative pan-genomic analyses of Orientia tsutsugamushi reveal an exceptional model of bacterial evolution driving genomic diversity
Microbial Genomics
2018
Full Issue PDF
Phytobiomes
2018
Exploring deep-water coral communities using environmental DNA
Deep Sea Research Part II: Topical Studies in Oceanography
2018
Use of genomics to design a diagnostic assay to discriminate between Streptococcus pneumoniae and Streptococcus pseudopneumoniae
Microbial Genomics
2018
Distributing regionally, distinguishing locally: examining the underlying effects of local land use on airborne bacterial biodiversity
Environmental Microbiology
2018
Impact of Edible Cricket Consumption on Gut Microbiota in Healthy Adults, a Double-blind, Randomized Crossover Trial
Scientific Reports
2018
Metaxa2 Database Builder: enabling taxonomic identification from metagenomic or metabarcoding data using any genetic marker
Bioinformatics
2018
Molecular gut content analysis of different spider body parts
PLOS ONE
2018
Physicochemical Drivers of Microbial Community Structure in Sediments of Lake Hazen, Nunavut, Canada
Frontiers in Microbiology
2018
Co-application of wood ash and Paenibacillus mucilaginosus to soil: the effect on maize nutritional status, root exudation and composition of soil solution
Plant and Soil
2018
Alterations in the Gut Microbiota of Rats Chronically Exposed to Volatilized Cocaine and Its Active Adulterants Caffeine and Phenacetin
Neurotoxicity Research
2018
Soil microbial response following wildfires in thermic oak-pine forests
Biology and Fertility of Soils
2018
Litter species richness and composition effects on fungal richness and community structure in decomposing foliar and root litter
Soil Biology and Biochemistry
2018
Leveraging Existing 16S rRNA Gene Surveys To Identify Reproducible Biomarkers in Individuals with Colorectal Tumors
mBio
2018
Potential microbial consortium involved in the biodegradation of diesel, hexadecane and phenanthrene in mangrove sediment explored by metagenomics analysis
Marine Pollution Bulletin
2018
Alterations in the Urinary Microbiota Are Associated With Cesarean Delivery
Frontiers in Microbiology
2018
Diversity, specificity, co-occurrence and hub taxa of the bacterial–fungal pollen microbiome
FEMS Microbiology Ecology
2018
Estimating intraspecific genetic diversity from community DNA metabarcoding data
PeerJ
2018
A thin ice layer segregates two distinct fungal communities in Antarctic brines from Tarn Flat (Northern Victoria Land)
Scientific Reports
2018
Metagenomic insights into diazotrophic communities across Arctic glacier forefields
FEMS Microbiology Ecology
2018
dinoref : A curated dinoflagellate (Dinophyceae) reference database for the 18S rRNA gene
Molecular Ecology Resources
2018
Succession of Fungal and Oomycete Communities in Glyphosate-Killed Wheat Roots
Phytopathology
2018
Bacterial community assembly from cow teat skin to ripened cheeses is influenced by grazing systems
Scientific Reports
2018
Application of microbial fuel cell technology for wastewater treatment and electricity generation under Nordic countries climate conditions: Study of performance and microbial communities
Bioresource Technology
2018
Comprehensive simulation of metagenomic sequencing data with non-uniform sampling distribution
Quantitative Biology
2018
DNA metabarcoding of littoral hard-bottom communities: high diversity and database gaps revealed by two molecular markers
PeerJ
2018
Influent salinity conditions affect the bacterial communities of biofouling in hybrid MBBR-MBR systems
Journal of Water Process Engineering
2018
Location-dependent impacts of liming and crop rotation on bacterial communities in acid soils of the Pacific Northwest
Applied Soil Ecology
2018
ASaiM: a Galaxy-based framework to analyze microbiota data
GigaScience
2018
Comparing Sanger sequencing and high-throughput metabarcoding for inferring photobiont diversity in lichens
Scientific Reports
2018
Phylogenomics and barcoding of Panax: toward the identification of ginseng species
BMC Evolutionary Biology
2018
A fungal mock community control for amplicon sequencing experiments
Molecular Ecology Resources
2018
MrBait: universal identification and design of targeted-enrichment capture probes
Bioinformatics
2018
Comparison of environmental DNA and bulk-sample metabarcoding using highly degenerate cytochrome c oxidase I primers
Molecular Ecology Resources
2018
Dietary specialization in mutualistic acacia-ants affects relative abundance but not identity of host-associated bacteria
Molecular Ecology
2018
Genomes of two archaeal endosymbionts show convergent adaptations to an intracellular lifestyle
The ISME Journal
2018
SGLT2 inhibition via dapagliflozin improves generalized vascular dysfunction and alters the gut microbiota in type 2 diabetic mice
Cardiovascular Diabetology
2018
Light-dependent processes on the cathode enhance the electrical outputs of sediment microbial fuel cells
Bioelectrochemistry
2018
Feeding frequency influences process performance and microbial community composition in anaerobic digesters treating steam exploded food waste
Bioresource Technology
2018
Child Weight Gain Trajectories Linked To Oral Microbiota Composition
Scientific Reports
2018
Variation of soil bacterial communities along a chronosequence of Eucalyptus plantation
PeerJ
2018
MITE Tracker: an accurate approach to identify miniature inverted-repeat transposable elements in large genomes
BMC Bioinformatics
2018
BTW—Bioinformatics Through Windows: an easy-to-install package to analyze marker gene data
PeerJ
2018
Microbiota changes impact on sexually transmitted infections and the development of pelvic inflammatory disease
Microbes and Infection
2018
Gut microbiome modulation during treatment of mucositis with the dairy bacterium Lactococcus lactis and recombinant strain secreting human antimicrobial PAP
Scientific Reports
2018
Sun Exposure Shapes Functional Grouping of Fungi in Cryptoendolithic Antarctic Communities
Life
2018
Double-digest RADseq loci using standard Illumina indexes improve deep and shallow phylogenetic resolution of Lophodermium , a widespread fungal endophyte of pine needles
Ecology and Evolution
2018
Soil bacterial networks are less stable under drought than fungal networks
Nature Communications
2018
Maternal gut and breast milk microbiota affect infant gut antibiotic resistome and mobile genetic elements
Nature Communications
2018
Diversity and Cyclical Seasonal Transitions in the Bacterial Community in a Large and Deep Perialpine Lake
Microbial Ecology
2018
Rates of gut microbiome divergence in mammals
Molecular Ecology
2018
Detection of Coccidioides posadasii from xerophytic environments in Venezuela reveals risk of naturally acquired coccidioidomycosis infections
Emerging Microbes & Infections
2018
Combining allele frequency and tree-based approaches improves phylogeographic inference from natural history collections
Molecular Ecology
2018
Simulated Marine Heat Wave Alters Abundance and Structure of Vibrio Populations Associated with the Pacific Oyster Resulting in a Mass Mortality Event
Microbial Ecology
2018
Metagenomic Composition Analysis of an Ancient Sequenced Polar Bear Jawbone from Svalbard
Genes
2018
A metabarcoding survey for seasonal picophytoplankton composition in two coral reefs around Sesoko Island, Okinawa, Japan
Journal of Applied Phycology
2018
High-throughput terrestrial biodiversity assessments: mitochondrial metabarcoding, metagenomics or metatranscriptomics?
Mitochondrial DNA Part A
2018
The all-intracellular order Legionellales is unexpectedly diverse, globally distributed and lowly abundant
FEMS Microbiology Ecology
2018
Wolbachia enhances insect-specific flavivirus infection in Aedes aegypti mosquitoes
Ecology and Evolution
2018
Digestive microbiota is different in pigs receiving antimicrobials or a feed additive during the nursery period
PLOS ONE
2018
Core Microbiome of Medicinal Plant Salvia miltiorrhiza Seed: A Rich Reservoir of Beneficial Microbes for Secondary Metabolism?
International Journal of Molecular Sciences
2018
Pollutants degradation performance and microbial community structure of aerobic granular sludge systems using inoculums adapted at mild and low temperature
Chemosphere
2018
EukRef: Phylogenetic curation of ribosomal RNA to enhance understanding of eukaryotic diversity and distribution
PLOS Biology
2018
Multiple identification of most important waterborne protozoa in surface water used for irrigation purposes by 18S rRNA amplicon-based metagenomics
International Journal of Hygiene and Environmental Health
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
Antibiotic Treatments for Clostridium difficile Infection Are Associated with Distinct Bacterial and Fungal Community Structures
mSphere
2018
Probiotic supplementation and associated infant gut microbiome and health: a cautionary retrospective clinical comparison
Scientific Reports
2018
More bang for the buck? Can arbuscular mycorrhizal fungal communities be characterized adequately alongside other fungi using general fungal primers?
New Phytologist
2018
ITSxpress: Software to rapidly trim internally transcribed spacer sequences with quality scores for marker gene analysis
F1000Research
2018
Methodology challenges in studying human gut microbiota – effects of collection, storage, DNA extraction and next generation sequencing technologies
Scientific Reports
2018
High-Throughput Analysis Reveals Seasonal Variation of the Gut Microbiota Composition Within Forest Musk Deer (Moschus berezovskii)
Frontiers in Microbiology
2018
A common garden experiment with Porphyra umbilicalis (Rhodophyta) evaluates methods to study spatial differences in the macroalgal microbiome
Journal of Phycology
2018
Methods in Molecular Biology
2018
Bacteriophages Synergize with the Gut Microbial Community To Combat Salmonella
mSystems
2018
How Does Salinity Shape Bacterial and Fungal Microbiomes of Alnus glutinosa Roots?
Frontiers in Microbiology
2018
A RAD-sequencing approach to genome-wide marker discovery, genotyping, and phylogenetic inference in a diverse radiation of primates
PLOS ONE
2018
Fungal community composition and diversity vary with soil depth and landscape position in a no-till wheat-based cropping system
FEMS Microbiology Ecology
2018
Global diversity and distribution of close relatives of apicomplexan parasites
Environmental Microbiology
2018
Soil exposure modifies the gut microbiota and supports immune tolerance in a mouse model
Journal of Allergy and Clinical Immunology
2018
Long-term treatment with green tea polyphenols modifies the gut microbiome of female sprague-dawley rats
The Journal of Nutritional Biochemistry
2018
Methods in Molecular Biology
2018
Synthesis of multi-omic data and community metabolic models reveals insights into the role of hydrogen sulfide in colon cancer
Methods
2018
A Comparative Study on the Faecal Bacterial Community and Potential Zoonotic Bacteria of Muskoxen (Ovibos moschatus) in Northeast Greenland, Northwest Greenland and Norway
Microorganisms
2018
Microbiomes of the Arctic carnivorous sponges Chondrocladia grandis and Cladorhiza oxeata suggest a specific, but differential involvement of bacterial associates
Arctic Science
2018
Evolution of intestinal microbiota and body compartments during spontaneous hyperphagia in the Greylag goose
Poultry Science
2018
Tick-Bacteria Mutualism Depends on B Vitamin Synthesis Pathways
Current Biology
2018
Disturbance reduces the differentiation of mycorrhizal fungal communities in grasslands along a precipitation gradient
Ecological Applications
2018
Preliminary analysis of New Zealand scampi (Metanephrops challengeri) diet using metabarcoding
PeerJ
2018
Ecology determines how low antibiotic concentration impacts community composition and horizontal transfer of resistance genes
Communications Biology
2018
Effects of corn stover management on soil quality
European Journal of Soil Biology
2018
Novel ATP-cone-driven allosteric regulation of ribonucleotide reductase via the radical-generating subunit
eLife
2018
Sequence clustering in bioinformatics: an empirical study
Briefings in Bioinformatics
2018
Experimental Evidence of Functional Group-Dependent Effects of Tree Diversity on Soil Fungi in Subtropical Forests
Frontiers in Microbiology
2018
First evidence of the presence and activity of archaeal C3 group members in an Atlantic intertidal mudflat
Scientific Reports
2018
Denoising the Denoisers: an independent evaluation of microbiome sequence error-correction approaches
PeerJ
2018
Environment and host identity structure communities of green algal symbionts in lichens
New Phytologist
2018
The impact of artificial surfaces on marine bacterial and eukaryotic biofouling assemblages: A high-throughput sequencing analysis
Marine Environmental Research
2018
Predator and prey biodiversity relationship and its consequences on marine ecosystem functioning—interplay between nanoflagellates and bacterioplankton
The ISME Journal
2018
Root-Associated Fungi Shared Between Arbuscular Mycorrhizal and Ectomycorrhizal Conifers in a Temperate Forest
Frontiers in Microbiology
2018
GeFaST: An improved method for OTU assignment by generalising Swarm’s fastidious clustering approach
BMC Bioinformatics
2018
Experimentally altered rainfall regimes and host root traits affect grassland arbuscular mycorrhizal fungal communities
Molecular Ecology
2018
Consequences of integrating livestock and wildlife in an African savanna
Nature Sustainability
2018
Delimitation of evolutionary units in Cuvier’s dwarf caiman, Paleosuchus palpebrosus (Cuvier, 1807): insights from conservation of a broadly distributed species
Conservation Genetics
2018
Differential responses of bacteria to diatom-derived dissolved organic matter in the Arctic Ocean
Aquatic Microbial Ecology
2018
Optimizing body fluid recognition from microbial taxonomic profiles
Forensic Science International: Genetics
2018
Methods in Molecular Biology
2018
Phylogeny and biogeography of East Asian evergreen oaks (Quercus section Cyclobalanopsis; Fagaceae): Insights into the Cenozoic history of evergreen broad-leaved forests in subtropical Asia
Molecular Phylogenetics and Evolution
2018
Pig Farmers’ Homes Harbor More Diverse Airborne Bacterial Communities Than Pig Stables or Suburban Homes
Frontiers in Microbiology
2018
Full Issue PDF
Phytobiomes
2018
What Can Environmental Sequences Tell Us About the Distribution of Low-Rank Taxa? The Case of Euplotes (Ciliophora, Spirotrichea), Including a Description of Euplotes enigma sp. nov.
Journal of Eukaryotic Microbiology
2018
Impact of an artificial structure on the benthic community composition in the southern North Sea: assessed by a morphological and molecular approach
ICES Journal of Marine Science
2018
Immune-suppression by OsHV-1 viral infection causes fatal bacteraemia in Pacific oysters
Nature Communications
2018
Effect of pH and temperature on microbial community structure and carboxylic acid yield during the acidogenic digestion of duckweed
Biotechnology for Biofuels
2018
Natural history bycatch: a pipeline for identifying metagenomic sequences in RADseq data
PeerJ
2018
Plant host habitat and root exudates shape fungal diversity
Mycorrhiza
2018
MATAM: reconstruction of phylogenetic marker genes from short sequencing reads in metagenomes
Bioinformatics
2018
Gut microbiome modulates response to anti–PD-1 immunotherapy in melanoma patients
Science
2018
Life on N2O: deciphering the ecophysiology of N2O respiring bacterial communities in a continuous culture
The ISME Journal
2018
The Influence of Flower Anatomy and Apple Cultivar on the Apple Flower Phytobiome
Phytobiomes
2018
Bacterial diversification through geological time
Nature Ecology & Evolution
2017
Spatial distribution of environmental DNA in a nearshore marine habitat
PeerJ
2017
A Metagenomic and in Silico Functional Prediction of Gut Microbiota Profiles May Concur in Discovering New Cystic Fibrosis Patient-Targeted Probiotics
Nutrients
2017
Novel ITS1 Fungal Primers for Characterization of the Mycobiome
mSphere
2017
Amplicon-Based Sequencing of Soil Fungi from Wood Preservative Test Sites
Frontiers in Microbiology
2017
Enterotype May Drive the Dietary-Associated Cardiometabolic Risk Factors
Frontiers in Cellular and Infection Microbiology
2017
Microbes and associated soluble and volatile chemicals on periodically wet household surfaces
Microbiome
2017
16S rRNA gene sequencing and healthy reference ranges for 28 clinically relevant microbial taxa from the human gut microbiome
PLOS ONE
2017
Conflicting phylogenomic signals reveal a pattern of reticulate evolution in a recent high-Andean diversification (Asteraceae: Astereae: Diplostephium )
New Phytologist
2017
Grape microbiome as a reliable and persistent signature of field origin and environmental conditions in Cannonau wine production
PLOS ONE
2017
Elevation in tropical sky islands as the common driver in structuring genes and communities of freshwater organisms
Scientific Reports
2017
Effect of membrane material chemistry and properties on biofouling susceptibility during milk and cheese whey ultrafiltration
Journal of Membrane Science
2017
The Protistan Microbiome of Grassland Soil: Diversity in the Mesoscale
Protist
2017
Carbonate-rich dendrolitic cones: insights into a modern analog for incipient microbialite formation, Little Hot Creek, Long Valley Caldera, California
npj Biofilms and Microbiomes
2017
Environmental DNA metabarcoding: Transforming how we survey animal and plant communities
Molecular Ecology
2017
Greater diversity of soil fungal communities and distinguishable seasonal variation in temperate deciduous forests compared with subtropical evergreen forests of eastern China
FEMS Microbiology Ecology
2017
The Gut Microbiota of Healthy Chilean Subjects Reveals a High Abundance of the Phylum Verrucomicrobia
Frontiers in Microbiology
2017
Early diverging lineages within Cryptomycota and Chytridiomycota dominate the fungal communities in ice-covered lakes of the McMurdo Dry Valleys, Antarctica
Scientific Reports
2017
OptiClust, an Improved Method for Assigning Amplicon-Based Sequence Data to Operational Taxonomic Units
mSphere
2017
The microbiota of water buffalo milk during mastitis
PLOS ONE
2017
Microbiome Helper: a Custom and Streamlined Workflow for Microbiome Research
mSystems
2017
The Fungal Frontier: A Comparative Analysis of Methods Used in the Study of the Human Gut Mycobiome
Frontiers in Microbiology
2017
Linking Spatial Structure and Community-Level Biotic Interactions through Cooccurrence and Time Series Modeling of the Human Intestinal Microbiota
mSystems
2017
In Vivo Analysis of the Viable Microbiota and Helicobacter pylori Transcriptome in Gastric Infection and Early Stages of Carcinogenesis
Infection and Immunity
2017
The Human Salivary Microbiome Is Shaped by Shared Environment Rather than Genetics: Evidence from a Large Family of Closely Related Individuals
mBio
2017
MG-RAST version 4—lessons learned from a decade of low-budget ultra-high-throughput metagenome analysis
Briefings in Bioinformatics
2017
Ulva biomass as a co-substrate for stable anaerobic digestion of spent coffee grounds in continuous mode
Bioresource Technology
2017
Habitat- and soil-related drivers of the root-associated fungal community of Quercus suber in the Northern Moroccan forest
PLOS ONE
2017
Scaling bioinformatics applications on HPC
BMC Bioinformatics
2017
The Native Hawaiian Insect Microbiome Initiative: A Critical Perspective for Hawaiian Insect Evolution
Insects
2017
Host conservatism, geography, and elevation in the evolution of a Neotropical moth radiation
Evolution
2017
Ferrihydrite-associated organic matter (OM) stimulates reduction by <i>Shewanella oneidensis</i> MR-1 and a complex microbial consortia
Biogeosciences
2017
Phylogenomic inferences from reference-mapped and de novo assembled short-read sequence data using RADseq sequencing of California white oaks (Quercus section Quercus)
Genome
2017
Disentangling higher trophic level interactions in the cabbage aphid food web using high-throughput DNA sequencing
Metabarcoding and Metagenomics
2017
A long-term study on the effect of magnetite supplementation in continuous anaerobic digestion of dairy effluent – Magnetic separation and recycling of magnetite
Bioresource Technology
2017
Microbiota Analysis of an Environmental Slurry and Its Potential Role as a Reservoir of Bovine Digital Dermatitis Pathogens
Applied and Environmental Microbiology
2017
Deblur Rapidly Resolves Single-Nucleotide Community Sequence Patterns
mSystems
2017
Mirnovo: genome-free prediction of microRNAs from small RNA sequencing data and single-cells using decision forests
Nucleic Acids Research
2017
A communal catalogue reveals Earth’s multiscale microbial diversity
Nature
2017
Environmental drivers of a microbial genomic transition zone in the ocean’s interior
Nature Microbiology
2017
Parasites dominate hyperdiverse soil protist communities in Neotropical rainforests
Nature Ecology & Evolution
2017
Functional structure of the bromeliad tank microbiome is strongly shaped by local geochemical conditions
Environmental Microbiology
2017
Body fluid prediction from microbial patterns for forensic application
Forensic Science International: Genetics
2017
PrimerMiner : an r package for development and in silico validation of DNA metabarcoding primers
Methods in Ecology and Evolution
2017
Impacts of Repeated Glyphosate Use on Wheat-Associated Bacteria Are Small and Depend on Glyphosate Use History
Applied and Environmental Microbiology
2017
Comparison of fungal communities associated with spruce seedling roots and bryophyte carpets on logs in an old-growth subalpine coniferous forest in Japan
Fungal Ecology
2017
Unexplored Archaeal Diversity in the Great Ape Gut Microbiome
mSphere
2017
Disease Suppressive Soils: New Insights from the Soil Microbiome
Phytopathology
2017
Fungal diversity and potential tree pathogens in decaying logs and stumps
Forest Ecology and Management
2017
Isolation and Characterization of Bacteria That Degrade Phosphonates in Marine Dissolved Organic Matter
Frontiers in Microbiology
2017
Microbiome analysis shows enrichment for specific bacteria in separate anatomical regions of the deep-sea carnivorous spongeChondrocladia grandis
FEMS Microbiology Ecology
2017
Taxonomic differences of gut microbiomes drive cellulolytic enzymatic potential within hind-gut fermenting mammals
PLOS ONE
2017
Open the SterivexTM casing: An easy and effective way to improve DNA extraction yields
Limnology and Oceanography: Methods
2017
Dietary energy drives the dynamic response of bovine rumen viral communities
Microbiome
2017
Filling reference gaps via assembling DNA barcodes using high-throughput sequencing—moving toward barcoding the world
GigaScience
2017
Individual signatures and environmental factors shape skin microbiota in healthy dogs
Microbiome
2017
Evidence for concerted movement of nuclear and mitochondrial clines in a lizard hybrid zone
Molecular Ecology
2017
Molecular and Microscopic Insights into the Formation of Soil Organic Matter in a Red Pine Rhizosphere
Soils
2017
Genomic characterization of Nontuberculous Mycobacteria
Scientific Reports
2017
Algorithms for Next-Generation Sequencing Data
2017
Impact of land-use change and soil organic carbon quality on microbial diversity in soils across Europe
FEMS Microbiology Ecology
2017
Discovery of numerous novel small genes in the intergenic regions of the Escherichia coli O157:H7 Sakai genome
PLOS ONE
2017
MAPseq: highly efficient k-mer search with confidence estimates, for rRNA sequence analysis
Bioinformatics
2017
Genetic diversity is largely unpredictable but scales with museum occurrences in a species-rich clade of Australian lizards
Proceedings of the Royal Society B: Biological Sciences
2017
Wanted dead or alive? Using metabarcoding of environmental DNA and RNA to distinguish living assemblages for biosecurity applications
PLOS ONE
2017
A New Niche for Anoxygenic Phototrophs as Endoliths
Applied and Environmental Microbiology
2017
From Vineyard Soil to Wine Fermentation: Microbiome Approximations to Explain the “terroir” Concept
Frontiers in Microbiology
2017
The creation and selection of mutations resistant to a gene drive over multiple generations in the malaria mosquito
PLOS Genetics
2017
Isolation of Cultivation-Resistant Oomycetes, First Detected as Amplicon Sequences, from Roots of Herbicide-Terminated Winter Rye
Phytobiomes
2017
Biogeography at the limits of life: Do extremophilic microbial communities show biogeographical regionalization?
Global Ecology and Biogeography
2017
Identification of Secondary Metabolite Gene Clusters in the Pseudovibrio Genus Reveals Encouraging Biosynthetic Potential toward the Production of Novel Bioactive Compounds
Frontiers in Microbiology
2017
Customized workflow development and data modularization concepts for RNA-Sequencing and metatranscriptome experiments
Journal of Biotechnology
2017
A combined sequence and structure based method for discovering enriched motifs in RNA from in vivo binding data
Methods
2017
From data to knowledge: The future of multi-omics data analysis for the rhizosphere
Rhizosphere
2017
Algorithm for post-clustering curation of DNA amplicon data yields reliable biodiversity estimates
Nature Communications
2017
Microbial Composition Predicts Genital Tract Inflammation and Persistent Bacterial Vaginosis in South African Adolescent Females
Infection and Immunity
2017
Effects of bio-based residue amendments on greenhouse gas emission from agricultural soil are stronger than effects of soil type with different microbial community composition
GCB Bioenergy
2017
Metabarcoding monitoring analysis: the pros and cons of using co-extracted environmental DNA and RNA data to assess offshore oil production impacts on benthic communities
PeerJ
2017
Full Issue PDF
Phytobiomes
2017
Circadian rhythm disruption impairs tissue homeostasis and exacerbates chronic inflammation in the intestine
The FASEB Journal
2017
Development of biocathode during repeated cycles of bioelectrochemical conversion of carbon dioxide to methane
Bioresource Technology
2017
Fungi associated with mesophotic macroalgae from the ‘Au‘au Channel, west Maui are differentiated by host and overlap terrestrial communities
PeerJ
2017
Diazotroph Community Characterization via a High-Throughput nifH Amplicon Sequencing and Analysis Pipeline
Applied and Environmental Microbiology
2017
Uracil Accumulation and Mutagenesis Dominated by Cytosine Deamination in CpG Dinucleotides in Mice Lacking UNG and SMUG1
Scientific Reports
2017
PALADIN: protein alignment for functional profiling whole metagenome shotgun data
Bioinformatics
2017
The parabasalid symbiont community of Heterotermes aureus : Molecular and morphological characterization of four new species and reestablishment of the genus Cononympha
European Journal of Protistology
2017
Lactococcus lactis Diversity in Undefined Mixed Dairy Starter Cultures as Revealed by Comparative Genome Analyses and Targeted Amplicon Sequencing of epsD
Applied and Environmental Microbiology
2017
Assessment of biodegradation potential at a site contaminated by a mixture of BTEX, chlorinated pollutants and pharmaceuticals using passive sampling methods – Case study
Science of The Total Environment
2017
Yeasts dominate soil fungal communities in three lowland Neotropical rainforests
Environmental Microbiology Reports
2017
Microbial population profile during ripening of Protected Designation of Origin (PDO) Silter cheese, produced with and without autochthonous starter culture
LWT
2017
Computational profiling of the gut–brain axis: microflora dysbiosis insights to neurological disorders
Briefings in Bioinformatics
2017
Environmental DNA reveals tropical shark diversity in contrasting levels of anthropogenic impact
Scientific Reports
2017
Do dams also stop frogs? Assessing population connectivity of coastal tailed frogs (Ascaphus truei) in the North Cascades National Park Service Complex
Conservation Genetics
2017
Foliar microbiome transplants confer disease resistance in a critically-endangered plant
PeerJ
2017
Metagenome sequence clustering with hash-based canopies
Journal of Bioinformatics and Computational Biology
2017
DESMAN: a new tool for de novo extraction of strains from metagenomes
Genome Biology
2017
Combining NCBI and BOLD databases for OTU assignment in metabarcoding and metagenomic datasets: The BOLD_NCBI _Merger
Metabarcoding and Metagenomics
2017
Arthropod and oligochaete assemblages from grasslands of the southern Kenai Peninsula, Alaska
Biodiversity Data Journal
2017
A metagenomic-based, cross-seasonal picture of fungal consortia associated with Italian soils subjected to different agricultural managements
Fungal Ecology
2017
Primary and heterotrophic productivity relate to multikingdom diversity in a hypersaline mat
FEMS Microbiology Ecology
2017
Treatment of biofilms in bacterial vaginosis by an amphoteric tenside pessary-clinical study and microbiota analysis
Microbiome
2017
The Microbial Ecosystem Distinguishes Chronically Diseased Tissue from Adjacent Tissue in the Sigmoid Colon of Chronic, Recurrent Diverticulitis Patients
Scientific Reports
2017
Diet Composition and Variability of Wild Octopus vulgaris and Alloteuthis media (Cephalopoda) Paralarvae: a Metagenomic Approach
Frontiers in Physiology
2017
Spatiotemporal analysis of microbial community dynamics during seasonal stratification events in a freshwater lake (Grand Lake, OK, USA)
PLOS ONE
2017
Comparative metagenomics of hydrocarbon and methane seeps of the Gulf of Mexico
Scientific Reports
2017
Biosolids and conservation tillage: Impacts on soil fungal communities in dryland wheat-fallow cropping systems
Soil Biology and Biochemistry
2017
Evaluating hybridization capture with RAD probes as a tool for museum genomics with historical bird specimens
Ecology and Evolution
2017
A novel ultra high-throughput 16S rRNA gene amplicon sequencing library preparation method for the Illumina HiSeq platform
Microbiome
2016
Production of individualized V gene databases reveals high levels of immunoglobulin genetic diversity
Nature Communications