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2018
Metagenomics
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
Development and preliminary validation of a multi-trophic metabarcoding biotic index for monitoring benthic organic enrichment
Ecological Indicators
2018
Environment and host identity structure communities of green algal symbionts in lichens
New Phytologist
2018
Seasonal and annual variation in fungal communities associated with epigeic springtails (Collembola spp.) in boreal forests
Soil Biology and Biochemistry
2018
Metagenomics
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
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
2017
Amplicon-Based Sequencing of Soil Fungi from Wood Preservative Test Sites
Frontiers in Microbiology
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
Evaluating hybridization capture with RAD probes as a tool for museum genomics with historical bird specimens
Ecology and Evolution
2017
Spatial distribution of environmental DNA in a nearshore marine habitat
PeerJ
2017
Biosolids and conservation tillage: Impacts on soil fungal communities in dryland wheat-fallow cropping systems
Soil Biology and Biochemistry
2017
Treatment of biofilms in bacterial vaginosis by an amphoteric tenside pessary-clinical study and microbiota analysis
Microbiome
2017
DESMAN: a new tool for de novo extraction of strains from metagenomes
Genome Biology
2017
MG-RAST version 4—lessons learned from a decade of low-budget ultra-high-throughput metagenome analysis
Briefings in Bioinformatics
2017
Exploring deep-water coral communities using environmental DNA
Deep Sea Research Part II: Topical Studies in Oceanography
2017
Environmental DNA reveals tropical shark diversity in contrasting levels of anthropogenic impact
Scientific Reports
2017
Primary and heterotrophic productivity relate to multikingdom diversity in a hypersaline mat
FEMS Microbiology Ecology
2017
Spatiotemporal analysis of microbial community dynamics during seasonal stratification events in a freshwater lake (Grand Lake, OK, USA)
PLOS ONE
2017
The Gut Microbiota of Healthy Chilean Subjects Reveals a High Abundance of the Phylum Verrucomicrobia
Frontiers in Microbiology
2017
Ferrihydrite-associated organic matter (OM) stimulates reduction by <i>Shewanella oneidensis</i> MR-1 and a complex microbial consortia
Biogeosciences
2017
MAPseq: highly efficient k-mer search with confidence estimates, for rRNA sequence analysis
Bioinformatics
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
Algorithm for post-clustering curation of DNA amplicon data yields reliable biodiversity estimates
Nature Communications
2017
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Phytobiomes
2017
Microbial population profile during ripening of Protected Designation of Origin (PDO) Silter cheese, produced with and without autochthonous starter culture
LWT - Food Science and Technology
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
Molecular and Microscopic Insights into the Formation of Soil Organic Matter in a Red Pine Rhizosphere
Soils
2017
Computational profiling of the gut–brain axis: microflora dysbiosis insights to neurological disorders
Briefings in Bioinformatics
2017
Customized workflow development and data modularization concepts for RNA-Sequencing and metatranscriptome experiments
Journal of Biotechnology
2017
Fungal diversity and potential tree pathogens in decaying logs and stumps
Forest Ecology and Management
2017
Discovery of numerous novel small genes in the intergenic regions of the Escherichia coli O157:H7 Sakai genome
PLOS ONE
2017
Effect of membrane material chemistry and properties on biofouling susceptibility during milk and cheese whey ultrafiltration
Journal of Membrane Science
2017
Algorithms for Next-Generation Sequencing Data
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
Impact of land-use change and soil organic carbon quality on microbial diversity in soils across Europe
FEMS Microbiology Ecology
2017
Elevation in tropical sky islands as the common driver in structuring genes and communities of freshwater organisms
Scientific Reports
2017
Genomic characterization of Nontuberculous Mycobacteria
Scientific Reports
2017
Grape microbiome as a reliable and persistent signature of field origin and environmental conditions in Cannonau wine production
PLOS ONE
2017
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
2017
Conflicting phylogenomic signals reveal a pattern of reticulate evolution in a recent high-Andean diversification (Asteraceae: Astereae: Diplostephium )
New Phytologist
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
Biogeography at the limits of life: Do extremophilic microbial communities show biogeographical regionalization?
Global Ecology and Biogeography
2017
Development of biocathode during repeated cycles of bioelectrochemical conversion of carbon dioxide to methane
Bioresource Technology
2017
The impact of artificial surfaces on marine bacterial and eukaryotic biofouling assemblages: A high-throughput sequencing analysis
Marine Environmental Research
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
Environmental DNA metabarcoding: Transforming how we survey animal and plant communities
Molecular Ecology
2017
Parasites dominate hyperdiverse soil protist communities in Neotropical rainforests
Nature Ecology & Evolution
2017
Delimitation of evolutionary units in Cuvier’s dwarf caiman, Paleosuchus palpebrosus (Cuvier, 1807): insights from conservation of a broadly distributed species
Conservation Genetics
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
ITSoneDB: a comprehensive collection of eukaryotic ribosomal RNA Internal Transcribed Spacer 1 (ITS1) sequences
Nucleic Acids Research
2017
Location, Root Proximity, and Glyphosate-Use History Modulate the Effects of Glyphosate on Fungal Community Networks of Wheat
Microbial Ecology
2017
Gut microbiome modulates response to anti–PD-1 immunotherapy in melanoma patients
Science
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
Yeasts dominate soil fungal communities in three lowland Neotropical rainforests
Environmental Microbiology Reports
2017
A communal catalogue reveals Earth’s multiscale microbial diversity
Nature
2017
Host conservatism, geography, and elevation in the evolution of a Neotropical moth radiation
Evolution
2017
Mirnovo: genome-free prediction of microRNAs from small RNA sequencing data and single-cells using decision forests
Nucleic Acids Research
2017
Environmental drivers of a microbial genomic transition zone in the ocean’s interior
Nature Microbiology
2017
PrimerMiner : an r package for development and in silico validation of DNA metabarcoding primers
Methods in Ecology and Evolution
2017
Open the SterivexTM casing: An easy and effective way to improve DNA extraction yields
Limnology and Oceanography: Methods
2017
16S rRNA gene sequencing and healthy reference ranges for 28 clinically relevant microbial taxa from the human gut microbiome
PLOS ONE
2017
Disease Suppressive Soils: New Insights from the Soil Microbiome
Phytopathology
2017
Habitat- and soil-related drivers of the root-associated fungal community of Quercus suber in the Northern Moroccan forest
PLOS ONE
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
Disentangling higher trophic level interactions in the cabbage aphid food web using high-throughput DNA sequencing
Metabarcoding and Metagenomics
2017
The Fungal Frontier: A Comparative Analysis of Methods Used in the Study of the Human Gut Mycobiome
Frontiers in Microbiology
2017
Body fluid prediction from microbial patterns for forensic application
Forensic Science International: Genetics
2017
Wanted dead or alive? Using metabarcoding of environmental DNA and RNA to distinguish living assemblages for biosecurity applications
PLOS ONE
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
The creation and selection of mutations resistant to a gene drive over multiple generations in the malaria mosquito
PLOS Genetics
2017
The microbiota of water buffalo milk during mastitis
PLOS ONE
2017
Isolation of Cultivation-Resistant Oomycetes, First Detected as Amplicon Sequences, from Roots of Herbicide-Terminated Winter Rye
Phytobiomes
2017
From Vineyard Soil to Wine Fermentation: Microbiome Approximations to Explain the “terroir” Concept
Frontiers in Microbiology
2017
FRAGMATIC: in silico locus prediction and its utility in optimizing ddRADseq projects
Conservation Genetics Resources
2017
Functional structure of the bromeliad tank microbiome is strongly shaped by local geochemical conditions
Environmental Microbiology
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
The Protistan Microbiome of Grassland Soil: Diversity in the Mesoscale
Protist
2017
Resolving neutral and deterministic contributions to genomic structure in Syntrichia ruralis (Bryophyta, Pottiaceae) informs propagule sourcing for dryland restoration
Conservation Genetics
2017
A combined sequence and structure based method for discovering enriched motifs in RNA from in vivo binding data
Methods
2017
Comparative metagenomics of hydrocarbon and methane seeps of the Gulf of Mexico
Scientific Reports
2017
From data to knowledge: The future of multi-omics data analysis for the rhizosphere
Rhizosphere
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
A Metagenomic and in Silico Functional Prediction of Gut Microbiota Profiles May Concur in Discovering New Cystic Fibrosis Patient-Targeted Probiotics
Nutrients
2017
Enterotype May Drive the Dietary-Associated Cardiometabolic Risk Factors
Frontiers in Cellular and Infection Microbiology
2017
PALADIN: protein alignment for functional profiling whole metagenome shotgun data
Bioinformatics
2017
MATAM: reconstruction of phylogenetic marker genes from short sequencing reads in metagenomes
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
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
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
Uracil Accumulation and Mutagenesis Dominated by Cytosine Deamination in CpG Dinucleotides in Mice Lacking UNG and SMUG1
Scientific Reports
2017
Fungi associated with mesophotic macroalgae from the ‘Au‘au Channel, west Maui are differentiated by host and overlap terrestrial communities
PeerJ
2017
Novel ITS1 Fungal Primers for Characterization of the Mycobiome
mSphere
2017
Metagenome sequence clustering with hash-based canopies
Journal of Bioinformatics and Computational Biology
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
A metagenomic-based, cross-seasonal picture of fungal consortia associated with Italian soils subjected to different agricultural managements
Fungal Ecology
2017
Arthropod and oligochaete assemblages from grasslands of the southern Kenai Peninsula, Alaska
Biodiversity Data Journal
2017
Combining NCBI and BOLD databases for OTU assignment in metabarcoding and metagenomic datasets: The BOLD_NCBI _Merger
Metabarcoding and Metagenomics
2017
Foliar microbiome transplants confer disease resistance in a critically-endangered plant
PeerJ
2017
Ulva biomass as a co-substrate for stable anaerobic digestion of spent coffee grounds in continuous mode
Bioresource Technology
2017
Microbes and associated soluble and volatile chemicals on periodically wet household surfaces
Microbiome
2017
A novel ultra high-throughput 16S rRNA gene amplicon sequencing library preparation method for the Illumina HiSeq platform
Microbiome
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
Diversity and Cyclical Seasonal Transitions in the Bacterial Community in a Large and Deep Perialpine Lake
Microbial Ecology
2016
Production of individualized V gene databases reveals high levels of immunoglobulin genetic diversity
Nature Communications