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2019
Identification of Microbial Profiles in Heavy-Metal-Contaminated Soil from Full-Length 16S rRNA Reads Sequenced by a PacBio System
Microorganisms
2019
Dysbiosis and Variation in Predicted Functions of the Granulation Tissue Microbiome in HPV Positive and Negative Severe Chronic Periodontitis
BioMed Research International
2019
Understanding and overcoming the pitfalls and biases of next-generation sequencing (NGS) methods for use in the routine clinical microbiological diagnostic laboratory
European Journal of Clinical Microbiology & Infectious Diseases
2019
Relative Performance of MinION (Oxford Nanopore Technologies) versus Sequel (Pacific Biosciences) Third-Generation Sequencing Instruments in Identification of Agricultural and Forest Fungal Pathogens
Applied and Environmental Microbiology
2019
Identification of Initial Colonizing Bacteria in Dental Plaques from Young Adults Using Full-Length 16S rRNA Gene Sequencing
mSystems
2019
Confident phylogenetic identification of uncultured prokaryotes through long read amplicon sequencing of the 16S‐ITS‐23S rRNA operon
Environmental Microbiology
2019
Management of abdominal aortic prosthetic graft and endograft infections. A multidisciplinary update
Journal of Infection and Chemotherapy
2019
High-throughput amplicon sequencing of the full-length 16S rRNA gene with single-nucleotide resolution
Nucleic Acids Research
2019
Synergetic alginate conversion by a microbial consortium of hydrolytic bacteria and methanogens
Water Research
2019
Host and Non-host ‘Whistle Stops’ for Psyllids: Molecular Gut Content Analysis by High-Throughput Sequencing Reveals Landscape-Level Movements of Psylloidea (Hemiptera)
Environmental Entomology
2019
Invited review: Application of meta-omics to understand the dynamic nature of the rumen microbiome and how it responds to diet in ruminants
animal
2019
Generating amplicon reads for microbial community assessment with next‐generation sequencing
Journal of Applied Microbiology
2019
Towards PacBio‐based pan‐eukaryote metabarcoding using full‐length ITS sequences
Environmental Microbiology Reports
2019
Xylitol and sorbitol effects on the microbiome of saliva and plaque
Journal of Oral Microbiology
2019
A novel metabarcoding approach to investigate Fusarium species composition in soil and plant samples
FEMS Microbiology Ecology
2019
PacBio amplicon sequencing for metabarcoding of mixed DNA samples from lichen herbarium specimens
MycoKeys
2019
Modulation of Metabolome and Bacterial Community in Whole Crop Corn Silage by Inoculating Homofermentative Lactobacillus plantarum and Heterofermentative Lactobacillus buchneri
Frontiers in Microbiology
2019
Combining the 5.8S and ITS2 to improve classification of fungi
Methods in Ecology and Evolution
2019
Long-read amplicon denoising
Nucleic Acids Research
2019
“Delineating bacterial community structure of rhizosphere metagenome from Kansal Forest”
Ecological Genetics and Genomics
2019
Comparative evaluation of three archaeal primer pairs for exploring archaeal communities in deep-sea sediments and permafrost soils
Extremophiles
2019
Microbial community and fermentation characteristic of Italian ryegrass silage prepared with corn stover and lactic acid bacteria
Bioresource Technology
2019
Newly designed 16S rRNA metabarcoding primers amplify diverse and novel archaeal taxa from the environment
Environmental Microbiology Reports
2018
Anthropogenic N deposition increases soil C storage by reducing the relative abundance of lignolytic fungi
Ecological Monographs
2018
Learning Materials in Biosciences
2018
Forensic Ecogenomics
2018
Studying microbial functionality within the gut ecosystem by systems biology
Genes & Nutrition
2018
Benchmarking taxonomic assignments based on 16S rRNA gene profiling of the microbiota from commonly sampled environments
GigaScience
2018
Species-level bacterial community profiling of the healthy sinonasal microbiome using Pacific Biosciences sequencing of full-length 16S rRNA genes
Microbiome
2018
Anaerobic Utilization of Hydrocarbons, Oils, and Lipids
2018
Evaluation of different 16S rRNA gene V regions for exploring bacterial diversity in a eutrophic freshwater lake
Science of The Total Environment
2018
Progress of analytical tools and techniques for human gut microbiome research
Journal of Microbiology
2018
TaxAss: Leveraging a Custom Freshwater Database Achieves Fine-Scale Taxonomic Resolution
mSphere
2018
Probing promise versus performance in longer read fungal metabarcoding
New Phytologist
2018
Precision Medicine
2018
Melanization of mycorrhizal fungal necromass structures microbial decomposer communities
Journal of Ecology
2018
Advances in Plant Ecophysiology Techniques
2018
Metagenomics
2018
NanoAmpli-Seq: a workflow for amplicon sequencing for mixed microbial communities on the nanopore sequencing platform
GigaScience
2018
Deciphering Endodontic Microbial Communities by Next-generation Sequencing
Journal of Endodontics
2018
Studying the human oral microbiome: challenges and the evolution of solutions
Australian Dental Journal
2018
A Sequel to Sanger: amplicon sequencing that scales
BMC Genomics
2018
The effects of sequencing platforms on phylogenetic resolution in 16 S rRNA gene profiling of human feces
Scientific Data
2018
The Madness of Microbiome: Attempting To Find Consensus “Best Practice” for 16S Microbiome Studies
Applied and Environmental Microbiology
2018
Elucidation of the bacterial communities associated with the harmful microalgae Alexandrium tamarense and Cochlodinium polykrikoides using nanopore sequencing
Scientific Reports
2018
PacBio metabarcoding of Fungi and other eukaryotes: errors, biases and perspectives
New Phytologist
2018
Long-read DNA metabarcoding of ribosomal RNA in the analysis of fungi from aquatic environments
Molecular Ecology Resources
2018
Rapid virulence prediction and identification of Newcastle disease virus genotypes using third-generation sequencing
Virology Journal
2018
Precise Fecal Microbiome of the Herbivorous Tibetan Antelope Inhabiting High-Altitude Alpine Plateau
Frontiers in Microbiology
2018
Analysis of sequencing strategies and tools for taxonomic annotation: Defining standards for progressive metagenomics
Scientific Reports
2018
Dynamics of acute Montipora white syndrome: bacterial communities of healthy and diseased M. capitata colonies during and after a disease outbreak
Microbiology
2017
Complete genome sequences of Clostridium perfringens Del1 strain isolated from chickens affected by necrotic enteritis
Gut Pathogens
2017
Morphological and genetic diversity of Beaufort Sea diatoms with high contributions from theChaetoceros neogracilisspecies complex
Journal of Phycology
2017
Community Profiling of Fusarium in Combination with Other Plant-Associated Fungi in Different Crop Species Using SMRT Sequencing
Frontiers in Plant Science
2017
Optimizing methods and dodging pitfalls in microbiome research
Microbiome
2017
Replacing Sanger with Next Generation Sequencing to improve coverage and quality of reference DNA barcodes for plants
Scientific Reports
2017
microclass: an R-package for 16S taxonomy classification
BMC Bioinformatics
2017
Long-range PCR allows sequencing of mitochondrial genomes from environmental DNA
Methods in Ecology and Evolution
2017
Diversity and Activity of Alternative Nitrogenases in Sequenced Genomes and Coastal Environments
Frontiers in Microbiology
2017
NIAID, NIEHS, NHLBI, and MCAN Workshop Report: The indoor environment and childhood asthma—implications for home environmental intervention in asthma prevention and management
Journal of Allergy and Clinical Immunology
2017
Analysing Microbial Community Composition through Amplicon Sequencing: From Sampling to Hypothesis Testing
Frontiers in Microbiology
2017
Disease Suppressive Soils: New Insights from the Soil Microbiome
Phytopathology
2017
From Vineyard Soil to Wine Fermentation: Microbiome Approximations to Explain the “terroir” Concept
Frontiers in Microbiology
2017
Preprinting Microbiology
mBio
2017
Assessment of variation in microbial community amplicon sequencing by the Microbiome Quality Control (MBQC) project consortium
Nature Biotechnology
2017
Rumen Microbiome, Probiotics, and Fermentation Additives
Veterinary Clinics of North America: Food Animal Practice
2017
Multi-locus and long amplicon sequencing approach to study microbial diversity at species level using the MinION™ portable nanopore sequencer
GigaScience
2017
Metataxonomics reveal vultures as a reservoir for Clostridium perfringens
Emerging Microbes & Infections
2017
A Robust Framework for Microbial Archaeology
Annual Review of Genomics and Human Genetics
2017
Saliva and tooth biofilm bacterial microbiota in adolescents in a low caries community
Scientific Reports
2017
An Introductory “How-to” Guide for Incorporating Microbiome Research into Integrative and Comparative Biology
Integrative and Comparative Biology
2017
Soil DNA metabarcoding and high-throughput sequencing as a forensic tool: considerations, potential limitations and recommendations
FEMS Microbiology Ecology
2017
A quantitative SMRT cell sequencing method for ribosomal amplicons
Journal of Microbiological Methods
2016
High-resolution community profiling of arbuscular mycorrhizal fungi
New Phytologist
2016
Sequence variation in nuclear ribosomal small subunit, internal transcribed spacer and large subunit regions ofRhizophagus irregularisandGigaspora margaritais high and isolate-dependent
Molecular Ecology
2016
Multiplex amplicon sequencing for microbe identification in community-based culture collections
Scientific Reports
2016
Using PacBio Long-Read High-Throughput Microbial Gene Amplicon Sequencing To Evaluate Infant Formula Safety
Journal of Agricultural and Food Chemistry
2016
Intricacies of assessing the human microbiome in epidemiologic studies
Annals of Epidemiology
2016
Considerations For Optimizing Microbiome Analysis Using a Marker Gene
Frontiers in Nutrition
2016
A method for high precision sequencing of near full-length 16S rRNA genes on an Illumina MiSeq
PeerJ
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