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2019
Genomic and metagenomic insights into the microbial community of a thermal spring
Microbiome
2019
Wastewater used for urban agriculture in West Africa as a reservoir for antibacterial resistance dissemination
Environmental Research
2019
Comparison of chemical composition and airborne bacterial community structure in PM2.5 during haze and non-haze days in the winter in Guilin, China
Science of The Total Environment
2019
The neuroactive potential of the human gut microbiota in quality of life and depression
Nature Microbiology
2019
Microbial life beyond the grave: 16S rRNA gene-based metagenomic analysis of bacteria diversity and their functional profiles in cemetery environments
Science of The Total Environment
2019
Deep-Sea Biofilms, Historic Shipwreck Preservation and the Deepwater Horizon Spill
Frontiers in Marine Science
2019
The immune-modulation and gut microbiome structure modification associated with long-term dietary supplementation of Lactobacillus rhamnosus using 16S rRNA sequencing analysis
Journal of Functional Foods
2019
Systematic survey of non-retroviral virus-like elements in eukaryotic genomes
Virus Research
2019
Effects of Panax ginseng polysaccharides on the gut microbiota in mice with antibiotic-associated diarrhea
International Journal of Biological Macromolecules
2019
Extensive Unexplored Human Microbiome Diversity Revealed by Over 150,000 Genomes from Metagenomes Spanning Age, Geography, and Lifestyle
Cell
2019
Oil-Spill Triggered Shift in Indigenous Microbial Structure and Functional Dynamics in Different Marine Environmental Matrices
Scientific Reports
2019
Intestinal epithelial N-acylphosphatidylethanolamine phospholipase D links dietary fat to metabolic adaptations in obesity and steatosis
Nature Communications
2018
Characterization of microbial community structure and metabolic potential using Illumina MiSeq platform during the black garlic processing
Food Research International
2018
A year in the life of a thrombolite: comparative metatranscriptomics reveals dynamic metabolic changes over diel and seasonal cycles
Environmental Microbiology
2018
Effects of Graphene on Bacterial Community Diversity and Soil Environments of Haplic Cambisols in Northeast China
Forests
2018
Mesophilic Sporeformers Identified in Whey Powder by Using Shotgun Metagenomic Sequencing
Applied and Environmental Microbiology
2018
Effects of wine-cap Stropharia cultivation on soil nutrients and bacterial communities in forestlands of northern China
PeerJ
2018
A Community-Based Culture Collection for Targeting Novel Plant Growth-Promoting Bacteria from the Sugarcane Microbiome
Frontiers in Plant Science
2018
A Fréchet tree distance measure to compare phylogeographic spread paths across trees
Scientific Reports
2018
Comparison of Microbiota in Patients Treated by Surgery or Chemotherapy by 16S rRNA Sequencing Reveals Potential Biomarkers for Colorectal Cancer Therapy
Frontiers in Microbiology
2018
Differentiated surface fungal communities at point of harvest on apple fruits from rural and peri-urban orchards
Scientific Reports
2018
Assembly of 913 microbial genomes from metagenomic sequencing of the cow rumen
Nature Communications
2018
Sex-specific associations of infants’ gut microbiome with arsenic exposure in a US population
Scientific Reports
2018
Gut Microbial Dysbiosis in Indian Children with Autism Spectrum Disorders
Microbial Ecology
2018
Phylogenomic Mining of the Mints Reveals Multiple Mechanisms Contributing to the Evolution of Chemical Diversity in Lamiaceae
Molecular Plant
2018
The relationship between transmission time and clustering methods in Mycobacterium tuberculosis epidemiology
EBioMedicine
2018
Novel Insights into Selection for Antibiotic Resistance in Complex Microbial Communities
mBio
2018
Genomic Characterization of Sulphite Reducing Bacteria Isolated From the Dairy Production Chain
Frontiers in Microbiology
2018
Population Genomics
2018
Metagenomic Analysis of Bacteria, Fungi, Bacteriophages, and Helminths in the Gut of Giant Pandas
Frontiers in Microbiology
2018
Characterization of a microbial community developing during refrigerated storage of vacuum packed Yao meat, a Chinese traditional food
LWT
2018
Mother-to-Infant Microbial Transmission from Different Body Sites Shapes the Developing Infant Gut Microbiome
Cell Host & Microbe
2018
Succession of embryonic and the intestinal bacterial communities of Atlantic salmon (Salmo salar ) reveals stage-specific microbial signatures
MicrobiologyOpen
2018
Shifts in prokaryotic communities under forest and grassland within a tropical mosaic landscape
Applied Soil Ecology
2018
Bipartite interactions, antibiotic production and biosynthetic potential of the Arabidopsis leaf microbiome
Nature Microbiology
2018
HiMAP: Robust phylogenomics from highly multiplexed amplicon sequencing
Molecular Ecology Resources
2018
High-Glucose or -Fructose Diet Cause Changes of the Gut Microbiota and Metabolic Disorders in Mice without Body Weight Change
Nutrients
2018
Fecal microbiota in the female prairie vole (Microtus ochrogaster)
PLOS ONE
2018
MAGpy: a reproducible pipeline for the downstream analysis of metagenome-assembled genomes (MAGs)
Bioinformatics
2018
Pilot investigation on formation of 2,4,6-trichloroanisole via microbial O-methylation of 2,4,6-trichlorophenol in drinking water distribution system: An insight into microbial mechanism
Water Research
2018
Accounting for Bacterial Overlap Between Raw Water Communities and Contaminating Sources Improves the Accuracy of Signature-Based Microbial Source Tracking
Frontiers in Microbiology
2018
Microbial composition of spoiled industrial-scale Sichuan paocai and characteristics of the microorganisms responsible for paocai spoilage
International Journal of Food Microbiology
2018
The ecology and diversity of microbial eukaryotes in geothermal springs
The ISME Journal
2018
Diversity and Proliferation of Metallo-β-Lactamases: a Clarion Call for Clinically Effective Metallo-β-Lactamase Inhibitors
Applied and Environmental Microbiology
2018
US Immigration Westernizes the Human Gut Microbiome
Cell
2018
A two-stage microbial association mapping framework with advanced FDR control
Microbiome
2018
Elucidation of the bacterial communities associated with the harmful microalgae Alexandrium tamarense and Cochlodinium polykrikoides using nanopore sequencing
Scientific Reports
2018
ASaiM: a Galaxy-based framework to analyze microbiota data
GigaScience
2018
A global atlas of the dominant bacteria found in soil
Science
2018
DNA-SIP based genome-centric metagenomics identifies key long-chain fatty acid-degrading populations in anaerobic digesters with different feeding frequencies
The ISME Journal
2018
Cervicovaginal microbiota composition correlates with the acquisition of high-risk human papillomavirus types
International Journal of Cancer
2018
Genome-resolved metagenomics of sugarcane vinasse bacteria
Biotechnology for Biofuels
2018
Airway microbial metagenomics
Microbes and Infection
2018
Metagenomic analysis of the bacterial communities and their functional profiles in water and sediments of the Apies River, South Africa, as a function of land use
Science of The Total Environment
2018
Effects of Baicalein on Cortical Proinflammatory Cytokines and the Intestinal Microbiome in Senescence Accelerated Mouse Prone 8
ACS Chemical Neuroscience
2018
Microorganism's adaptation of Crucian carp may closely relate to its living environments
MicrobiologyOpen
2018
Profiling microbial strains in urban environments using metagenomic sequencing data
Biology Direct
2017
Regulation of life span by the gut microbiota in the short-lived African turquoise killifish
eLife
2017
Community structure of the gut microbiota in sympatric species of wild Drosophila
Ecology Letters
2017
Shotgun metagenomics, from sampling to analysis
Nature Biotechnology
2017
Studying Vertical Microbiome Transmission from Mothers to Infants by Strain-Level Metagenomic Profiling
mSystems
2017
Experimental metagenomics and ribosomal profiling of the human skin microbiome
Experimental Dermatology
2017
Effects of Actinomycete Secondary Metabolites on Sediment Microbial Communities
Applied and Environmental Microbiology
2017
A Distinctive and Host-Restricted Gut Microbiota in Populations of a Cactophilic Drosophila Species
Applied and Environmental Microbiology
2017
Microbiomic differences in tumor and paired-normal tissue in head and neck squamous cell carcinomas
Genome Medicine
2017
Diversity and Biomineralization Potential of the Epilithic Bacterial Communities Inhabiting the Oldest Public Stone Monument of Cluj-Napoca (Transylvania, Romania)
Frontiers in Microbiology
2017
Bacterial diversity in goat milk from the Guanzhong area of China
Journal of Dairy Science
2017
Soil classification predicts differences in prokaryotic communities across a range of geographically distant soils once pH is accounted for
Scientific Reports
2017
Metaproteogenomics Reveals Taxonomic and Functional Changes between Cecal and Fecal Microbiota in Mouse
Frontiers in Microbiology
2017
Genome reduction in an abundant and ubiquitous soil bacterium ‘Candidatus Udaeobacter copiosus’
Nature Microbiology
2017
Microbial strain-level population structure and genetic diversity from metagenomes
Genome Research
2017
MetaMLST: multi-locus strain-level bacterial typing from metagenomic samples
Nucleic Acids Research
2017
Metagenomic Analysis of the Gut Microbiome of the Common Black Slug Arion ater in Search of Novel Lignocellulose Degrading Enzymes
Frontiers in Microbiology
2017
Potential and active functions in the gut microbiota of a healthy human cohort
Microbiome
2017
Parallel evolution of non-homologous isofunctional enzymes in methionine biosynthesis
Nature Chemical Biology
2017
A comprehensive analysis of breast cancer microbiota and host gene expression
PLOS ONE
2017
Metagenomic insight into the microbial networks and metabolic mechanism in anaerobic digesters for food waste by incorporating activated carbon
Scientific Reports
2017
Two cultivated legume plants reveal the enrichment process of the microbiome in the rhizocompartments
Molecular Ecology
2017
Unexplored diversity and strain-level structure of the skin microbiome associated with psoriasis
npj Biofilms and Microbiomes
2017
Bacterial community composition in the gut content of Lampetra japonica revealed by 16S rRNA gene pyrosequencing
PLOS ONE
2017
Computational profiling of the gut–brain axis: microflora dysbiosis insights to neurological disorders
Briefings in Bioinformatics
2017
Methods in Molecular Biology
2017
A model for paired-multinomial data and its application to analysis of data on a taxonomic tree
Biometrics
2017
Bioinformatic Approaches Including Predictive Metagenomic Profiling Reveal Characteristics of Bacterial Response to Petroleum Hydrocarbon Contamination in Diverse Environments
Scientific Reports
2017
Leading role of TBP in the Establishment of Complexity in Eukaryotic Transcription Initiation Systems
Cell Reports
2017
A comprehensive evaluation of the sl1p pipeline for 16S rRNA gene sequencing analysis
Microbiome
2017
Unveiling microbial interactions in stratified mat communities from a warm saline shallow pond
Environmental Microbiology
2017
A pilot study demonstrating the altered gut microbiota functionality in stable adults with Cystic Fibrosis
Scientific Reports
2017
Genomic characterization of Nontuberculous Mycobacteria
Scientific Reports
2017
Metaproteomic analysis of microbiota in the fermented fish, Siniperca chuatsi
LWT
2017
Immunomodulatory Activities of a Fungal Protein Extracted from Hericium erinaceus through Regulating the Gut Microbiota
Frontiers in Immunology
2017
Drought Stress Results in a Compartment-Specific Restructuring of the Rice Root-Associated Microbiomes
mBio
2017
Analysis and comparison of the wolf microbiome under different environmental factors using three different data of Next Generation Sequencing
Scientific Reports
2017
Metagenomic Analysis of Hot Springs in Central India Reveals Hydrocarbon Degrading Thermophiles and Pathways Essential for Survival in Extreme Environments
Frontiers in Microbiology
2017
Soil biochar amendment affects the diversity of nosZ transcripts: Implications for N2O formation
Scientific Reports
2017
Longitudinal sampling of the lung microbiota in individuals with cystic fibrosis
PLOS ONE
2017
Inheritance and Establishment of Gut Microbiota in Chickens
Frontiers in Microbiology
2017
Cxcr2 signaling and the microbiome suppress inflammation, bile duct injury, and the phenotype of experimental biliary atresia
PLOS ONE
2017
Hypersaline sapropels act as hotspots for microbial dark matter
Scientific Reports
2017
Response of gut health and microbiota to sulfide exposure in Pacific white shrimp Litopenaeus vannamei
Fish & Shellfish Immunology
2017
Elucidating Substrate Promiscuity within the FabI Enzyme Family
ACS Chemical Biology
2016
Bacterial Diversity and Community Structure of Supragingival Plaques in Adults with Dental Health or Caries Revealed by 16S Pyrosequencing
Frontiers in Microbiology
2016
Effect of Saccharomyces boulardii and Mode of Delivery on the Early Development of the Gut Microbial Community in Preterm Infants
PLOS ONE
2016
The reproductive tracts of two malaria vectors are populated by a core microbiome and by gender- and swarm-enriched microbial biomarkers
Scientific Reports
2016
Species-specific diversity of novel bacterial lineages and differential abundance of predicted pathways for toxic compound degradation in scorpion gut microbiota
Environmental Microbiology
2016
ETE 3: Reconstruction, Analysis, and Visualization of Phylogenomic Data
Molecular Biology and Evolution
2016
Microbial Succession and Flavor Production in the Fermented Dairy Beverage Kefir
mSystems
2016
Multiplex amplicon sequencing for microbe identification in community-based culture collections
Scientific Reports
2016
Modulation of gut microbiota dysbioses in type 2 diabetic patients by macrobiotic Ma-Pi 2 diet
British Journal of Nutrition
2016
Proton pump inhibitors affect the gut microbiome
Gut
2016
Capturing the diversity of the human gut microbiota through culture-enriched molecular profiling
Genome Medicine
2016
Urban Transit System Microbial Communities Differ by Surface Type and Interaction with Humans and the Environment
mSystems
2016
The ecologist's field guide to sequence-based identification of biodiversity
Methods in Ecology and Evolution
2016
IMNGS: A comprehensive open resource of processed 16S rRNA microbial profiles for ecology and diversity studies
Scientific Reports
2016
Comparative analysis of bacterial diversity in the rhizosphere of tomato by culture-dependent and -independent approaches
Journal of Microbiology
2016
The Effects of LW-AFC on Intestinal Microbiome in Senescence-Accelerated Mouse Prone 8 Strain, a Mouse Model of Alzheimer’s Disease
Journal of Alzheimer's Disease
2016
Interactive tree of life (iTOL) v3: an online tool for the display and annotation of phylogenetic and other trees
Nucleic Acids Research
2016
Transition from freshwater to seawater reshapes the skin-associated microbiota of Atlantic salmon
Scientific Reports
2016
Uncovering oral Neisseria tropism and persistence using metagenomic sequencing
Nature Microbiology
2016
Generation of genome-scale metabolic reconstructions for 773 members of the human gut microbiota
Nature Biotechnology
2015
The effect of excess copper on growth and physiology of important food crops: a review
Environmental Science and Pollution Research
2015
High-Specificity Targeted Functional Profiling in Microbial Communities with ShortBRED
PLOS Computational Biology
2015
Gut Microbiome: Westernization and the Disappearance of Intestinal Diversity
Current Biology
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