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Standard Sample Storage Conditions Have an Impact on Inferred Microbiome Composition and Antimicrobial Resistance Patterns

Microbiology spectrum, 2021-10, Vol.9 (2), p.e0138721-e0138721

2021

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Impact of Host DNA and Sequencing Depth on the Taxonomic Resolution of Whole Metagenome Sequencing for Microbiome Analysis

Frontiers in microbiology, 2019, Vol.10, p.1277-1277

2019

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An improved method for utilizing high‐throughput amplicon sequencing to determine the diets of insectivorous animals

Molecular ecology resources, 2019-01, Vol.19 (1), p.176-190

2019

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Parsing ecological signal from noise in next generation amplicon sequencing

The New phytologist, 2015-03, Vol.205 (4), p.1389-1393

2015

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Denoising the Denoisers: an independent evaluation of microbiome sequence error-correction approaches

PeerJ (San Francisco, CA), 2018-08, Vol.6, p.e5364-e5364, Article e5364

2018

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Optimized metabarcoding with Pacific biosciences enables semi-quantitative analysis of fungal communities

The New phytologist, 2020-11, Vol.228 (3), p.1149-1158

2020

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Primer, Pipelines, Parameters: Issues in 16S rRNA Gene Sequencing

mSphere, 2021-02, Vol.6 (1)

2021

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Ultra-deep, long-read nanopore sequencing of mock microbial community standards

Gigascience, 2019-05, Vol.8 (5)

2019

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Fishing in the Soup - Pathogen Detection in Food Safety Using Metabarcoding and Metagenomic Sequencing

Frontiers in microbiology, 2019-08, Vol.10, p.1805-1805

2019

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The Endophytic Mycobiome of European Ash and Sycamore Maple Leaves - Geographic Patterns, Host Specificity and Influence of Ash Dieback

Frontiers in microbiology, 2018-10, Vol.9, p.2345-2345

2018

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Mycobiome Sequencing and Analysis Applied to Fungal Community Profiling of the Lower Respiratory Tract During Fungal Pathogenesis

Frontiers in microbiology, 2019-03, Vol.10, p.512-512

2019

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Assessment of current taxonomic assignment strategies for metabarcoding eukaryotes

Molecular ecology resources, 2021-10, Vol.21 (7), p.2190-2203

2021

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Comparison of 16S rRNA Gene Based Microbial Profiling Using Five Next-Generation Sequencers and Various Primers

Frontiers in microbiology, 2021-10, Vol.12, p.715500-715500

2021

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Genomic GC-Content Affects the Accuracy of 16S rRNA Gene Sequencing Based Microbial Profiling due to PCR Bias

Frontiers in microbiology, 2017-10, Vol.8, p.1934

2017

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Relating target fish DNA concentration to community composition analysis in freshwater fish via metabarcoding

The Science of the total environment, 2024-06, Vol.927, p.172281-172281, Article 172281

2024

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Evaluating Established Methods for Rumen 16S rRNA Amplicon Sequencing With Mock Microbial Populations

Frontiers in microbiology, 2018-06, Vol.9, p.1365-1365

2018

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A comparison of six DNA extraction protocols for 16S, ITS and shotgun metagenomic sequencing of microbial communities

BioTechniques, 2022-06, Vol.73 (1), p.34-46

2022

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Predator preferences shape the diets of arthropodivorous bats more than quantitative local prey abundance

Molecular ecology, 2021-02, Vol.30 (3), p.855-873

2021

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Evaluation of taxonomic classification and profiling methods for long-read shotgun metagenomic sequencing datasets

BMC bioinformatics, 2022-12, Vol.23 (1), p.541-541, Article 541

2022

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The newest Oxford Nanopore R10.4.1 full-length 16S rRNA sequencing enables the accurate resolution of species-level microbial community profiling

Applied and environmental microbiology, 2023-10, Vol.89 (10), p.1-e0060523

2023

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More Is Not Always Better: Evaluation of 1D and 2D-LC-MS/MS Methods for Metaproteomics

Frontiers in microbiology, 2019-02, Vol.10, p.238-238

2019

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Exploring the accuracy of amplicon‐based internal transcribed spacer markers for a fungal community

Molecular ecology resources, 2020-01, Vol.20 (1), p.170-184

2020

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Long‐read DNA metabarcoding of ribosomal RNA in the analysis of fungi from aquatic environments

Molecular ecology resources, 2018-11, Vol.18 (6), p.1500-1514

2018

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A fungal mock community control for amplicon sequencing experiments

Molecular ecology resources, 2018-05, Vol.18 (3), p.541-556

Bakker, Matthew G.

2018

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Evaluation of DNA extraction methods and direct PCR in metabarcoding of mock and marine bacterial communities

Frontiers in microbiology, 2023-04, Vol.14, p.1151907-1151907

2023

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Standard Sample Storage Conditions Have an Impact on Inferred Microbiome Composition and Antimicrobial Resistance Patterns

Impact of Host DNA and Sequencing Depth on the Taxonomic Resolution of Whole Metagenome Sequencing for Microbiome Analysis

An improved method for utilizing high‐throughput amplicon sequencing to determine the diets of insectivorous animals

Parsing ecological signal from noise in next generation amplicon sequencing

Denoising the Denoisers: an independent evaluation of microbiome sequence error-correction approaches

Optimized metabarcoding with Pacific biosciences enables semi-quantitative analysis of fungal communities

Primer, Pipelines, Parameters: Issues in 16S rRNA Gene Sequencing

Ultra-deep, long-read nanopore sequencing of mock microbial community standards

Fishing in the Soup - Pathogen Detection in Food Safety Using Metabarcoding and Metagenomic Sequencing

The Endophytic Mycobiome of European Ash and Sycamore Maple Leaves - Geographic Patterns, Host Specificity and Influence of Ash Dieback

Mycobiome Sequencing and Analysis Applied to Fungal Community Profiling of the Lower Respiratory Tract During Fungal Pathogenesis

Assessment of current taxonomic assignment strategies for metabarcoding eukaryotes

Comparison of 16S rRNA Gene Based Microbial Profiling Using Five Next-Generation Sequencers and Various Primers

Genomic GC-Content Affects the Accuracy of 16S rRNA Gene Sequencing Based Microbial Profiling due to PCR Bias

Relating target fish DNA concentration to community composition analysis in freshwater fish via metabarcoding

Evaluating Established Methods for Rumen 16S rRNA Amplicon Sequencing With Mock Microbial Populations

A comparison of six DNA extraction protocols for 16S, ITS and shotgun metagenomic sequencing of microbial communities

Predator preferences shape the diets of arthropodivorous bats more than quantitative local prey abundance

Evaluation of taxonomic classification and profiling methods for long-read shotgun metagenomic sequencing datasets

The newest Oxford Nanopore R10.4.1 full-length 16S rRNA sequencing enables the accurate resolution of species-level microbial community profiling

More Is Not Always Better: Evaluation of 1D and 2D-LC-MS/MS Methods for Metaproteomics

Exploring the accuracy of amplicon‐based internal transcribed spacer markers for a fungal community

Long‐read DNA metabarcoding of ribosomal RNA in the analysis of fungi from aquatic environments

A fungal mock community control for amplicon sequencing experiments

Evaluation of DNA extraction methods and direct PCR in metabarcoding of mock and marine bacterial communities

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