Optimisation and Benchmarking of Targeted Amplicon Sequencing for Mycobiome Analysis of Respiratory Specimens

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

(2019) Lisa R. McTaggart et al.   Frontiers in Microbiology

Functional effects of the microbiota in chronic respiratory disease

(2019) Kurtis F Budden et al.   Lancet Respiratory Medicine

DNA extraction and amplicon production strategies deeply inf luence the outcome of gut mycobiome studies

(2019) Alessandra Frau et al.   Scientific Reports

A European ECMM‐ESCMID survey on goals and practices for mycobiota characterization using Next Generation Sequencing

(2019) Jean‐Pierre Gangneux et al.   MYCOSES

IMMUNOLOGICAL COROLLARY OF THE PULMONARY MYCOBIOME IN BRONCHIECTASIS: THE CAMEB STUDY

(2018) Micheál Mac Aogáin et al.   EUROPEAN RESPIRATORY JOURNAL

Geographic variation in the aetiology, epidemiology and microbiology of bronchiectasis

(2018) Ravishankar Chandrasekaran et al.   BMC Pulmonary Medicine

Development of the Human Mycobiome over the First Month of Life and across Body Sites

(2018) Tonya L. Ward et al.   mSystems

Evaluation of the ribosomal DNA internal transcribed spacer (ITS), specifically ITS1 and ITS2, for the analysis of fungal diversity by deep sequencing

(2018) Rui-Heng Yang et al.   PLoS One

Great differences in performance and outcome of high-throughput sequencing data analysis platforms for fungal metabarcoding

(2018) Sten Anslan et al.   MycoKeys

Mycobiome diversity: high-throughput sequencing and identification of fungi

(2018) R. Henrik Nilsson et al.   NATURE REVIEWS MICROBIOLOGY

Simple statistical identification and removal of contaminant sequences in marker-gene and metagenomics data

(2018) Nicole M. Davis et al.   Microbiome

Corticosteroid treatment is associated with increased filamentous fungal burden in allergic fungal disease

(2017) Marcin G. Fraczek et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

Aspergillus Species in Bronchiectasis: Challenges in the Cystic Fibrosis and Non-cystic Fibrosis Airways

(2017) Sanjay H. Chotirmall et al.   MYCOPATHOLOGIA

Microbiomes in respiratory health and disease: An Asia-Pacific perspective

(2017) Sanjay H. Chotirmall et al.   RESPIROLOGY

Critical Issues in Mycobiota Analysis

(2017) Bettina Halwachs et al.   Frontiers in Microbiology

Fungal ITS1 Deep-Sequencing Strategies to Reconstruct the Composition of a 26-Species Community and Evaluation of the Gut Mycobiota of Healthy Japanese Individuals

(2017) Daisuke Motooka et al.   Frontiers in Microbiology

Novel soil-inhabiting clades fill gaps in the fungal tree of life

(2017) Leho Tedersoo et al.   Microbiome

Stop neglecting fungi

(2017)   Nature Microbiology

Novel ITS1 Fungal Primers for Characterization of the Mycobiome

(2017) Mykhaylo Usyk et al.   mSphere

Evaluating the Impact of DNA Extraction Method on the Representation of Human Oral Bacterial and Fungal Communities

(2017) Anna Vesty et al.   PLoS One

Longitudinal assessment of sputum microbiome by sequencing of the 16S rRNA gene in non-cystic fibrosis bronchiectasis patients

(2017) Michael J. Cox et al.   PLoS One

The Microbiome and the Respiratory Tract

(2016) Robert P. Dickson et al.   Annual Review of Physiology

FUNGuild: An open annotation tool for parsing fungal community datasets by ecological guild

(2016) Nhu H. Nguyen et al.   Fungal Ecology

The Lung Microbiome, Immunity, and the Pathogenesis of Chronic Lung Disease

(2016) David N. O’Dwyer et al.   JOURNAL OF IMMUNOLOGY

Fungal identification biases in microbiome projects

(2016) Leho Tedersoo et al.   Environmental Microbiology Reports

The lung mycobiome in the next-generation sequencing era

(2016) Laura Tipton et al.   Virulence

The lung mycobiome: an emerging field of the human respiratory microbiome

(2015) Linh D. N. Nguyen et al.   Frontiers in Microbiology

Complementary Amplicon-Based Genomic Approaches for the Study of Fungal Communities in Humans

(2015) Timothy Heisel et al.   PLoS One

Fungal community analysis by high-throughput sequencing of amplified markers - a user's guide

(2013) Björn D. Lindahl et al.   NEW PHYTOLOGIST

Meeting Report: Fungal ITS Workshop (October 2012)

(2013) Scott T. Bates et al.   Standards in Genomic Sciences

New primers to amplify the fungal ITS2 region - evaluation by 454-sequencing of artificial and natural communities

(2012) Katarina Ihrmark et al.   FEMS MICROBIOLOGY ECOLOGY

Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for Fungi

(2012) C. L. Schoch et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Current state and perspectives of fungal DNA barcoding and rapid identification procedures

(2010) Dominik Begerow et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

ITS as an environmental DNA barcode for fungi: an in silico approach reveals potential PCR biases

(2010) Eva Bellemain et al.   BMC MICROBIOLOGY

The ITS2 Database III—sequences and structures for phylogeny

(2009) Christian Koetschan et al.   NUCLEIC ACIDS RESEARCH

Is there a molecular key to the level of “biological species” in eukaryotes? A DNA guide

(2008) Annette W. Coleman   MOLECULAR PHYLOGENETICS AND EVOLUTION