Current Insight into Culture-Dependent and Culture-Independent Methods in Discovering Ascomycetous Taxa

Aerobiological study of bacterial and fungal community composition in the atmosphere of Mexico City throughout an annual cycle

(2021) María del Carmen Calderón-Ezquerro et al.   ENVIRONMENTAL POLLUTION

Insight into the Systematics of Microfungi Colonizing Dead Woody Twigs of Dodonaea viscosa in Honghe (China)

(2021) Dhanushka N. Wanasinghe et al.   Journal of Fungi

Perspectives and Benefits of High-Throughput Long-Read Sequencing in Microbial Ecology

(2021) Leho Tedersoo et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

A comparative analysis of drinking water employing metagenomics

(2020) Kyle D. Brumfield et al.   PLoS One

Rediscovering an old foe: Optimised molecular methods for DNA extraction and sequencing applications for fungarium specimens of powdery mildew (Erysiphales)

(2020) Reannon L. Smith et al.   PLoS One

Deciphering taxonomic and functional diversity of fungi as potential bioindicators within confluence stretch of Ganges and Yamuna Rivers, impacted by anthropogenic activities

(2020) Rachel Samson et al.   CHEMOSPHERE

Identifying the ‘unidentified’ fungi: a global-scale long-read third-generation sequencing approach

(2020) Leho Tedersoo et al.   FUNGAL DIVERSITY

Amplicon-Based Next-Generation Sequencing for Detection of Fungi in Formalin-Fixed, Paraffin-Embedded Tissues: Correlation with Histopathology and Clinical Applications

(2020) Paige M.K. Larkin et al.   JOURNAL OF MOLECULAR DIAGNOSTICS

In vitro resynthesis of lichenization reveals the genetic background of symbiosis-specific fungal-algal interaction in Usnea hakonensis

(2020) Mieko Kono et al.   BMC GENOMICS

The numbers of fungi: is the descriptive curve flattening?

(2020) Kevin D. Hyde et al.   FUNGAL DIVERSITY

Effect of Host, Environment and Fungal Growth on Fungal Leaf Endophyte Communities in Taiwan

(2020) Yu-Ling Huang   Journal of Fungi

Illuminating type collections of nectriaceous fungi in Saccardo's fungarium

(2020) N. Forin et al.   PERSOONIA

Molecular data from up to 130‐year‐old herbarium specimens do not support the presence of cherry powdery mildew in Australia

(2020) Reannon L. Smith et al.   PLANT PATHOLOGY

Characteristics of Phomopsis juglandina (Sacc.) Hohn. Associated with Dieback of Walnut in the Climatic Conditions of Southern Romania

(2020) Cristina Mihaescu et al.   Agronomy-Basel

The Taxon Hypothesis Paradigm—On the Unambiguous Detection and Communication of Taxa

(2020) Urmas Kõljalg et al.   Microorganisms

The Neglected Marine Fungi, Sensu stricto, and Their Isolation for Natural Products’ Discovery

(2019) David Overy et al.   Marine Drugs

Rubroshiraia gen. nov., a second hypocrellin-producing genus in Shiraiaceae (Pleosporales)

(2019) Dong-Qin Dai et al.   MycoKeys

Diversity and bioactivities of fungal endophytes from Distylium chinense, a rare waterlogging tolerant plant endemic to the Three Gorges Reservoir

(2019) Xiaoxiang Duan et al.   BMC MICROBIOLOGY

Can we use environmental DNA as holotypes?

(2018) Sinang Hongsanan et al.   FUNGAL DIVERSITY

Direct comparison of culture-dependent and culture-independent molecular approaches reveal the diversity of fungal endophytic communities in stems of grapevine (Vitis vinifera)

(2018) Asha J. Dissanayake et al.   FUNGAL DIVERSITY

Identification of fungi in shotgun metagenomics datasets

(2018) Paul D. Donovan et al.   PLoS One

The genome and microbiome of a dikaryotic fungus (Inocybe terrigena , Inocybaceae) revealed by metagenomics

(2018) Mohammad Bahram et al.   Environmental Microbiology Reports

Fungal Biodiversity and Their Role in Soil Health

(2018) Magdalena Frąc et al.   Frontiers in Microbiology

Identification of endophytic fungi from leaves of Pandanaceae based on their morphotypes and DNA sequence data from southern Thailand

(2018) Saowaluck Tibpromma et al.   MycoKeys

New light on names and naming of dark taxa

(2018) Martin Ryberg et al.   MycoKeys

Formal description of sequence-based voucherless Fungi: promises and pitfalls, and how to resolve them

(2018) Robert Lücking et al.   IMA Fungus

Ten reasons why a sequence-based nomenclature is not useful for fungi anytime soon

(2018) Marco Thines et al.   IMA Fungus

Structure and function of the global topsoil microbiome

(2018) Mohammad Bahram et al.   NATURE

Endophytic fungal community of Dysphania ambrosioides from two heavy metal-contaminated sites: evaluated by culture-dependent and culture-independent approaches

(2018) Shobhika Parmar et al.   Microbial Biotechnology

Method for Isolation and Enumeration of Fungi Developing in Marine Sediments

(2018) E. N. Bubnova et al.   MICROBIOLOGY

Mycobiome diversity: high-throughput sequencing and identification of fungi

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

A novel proof of concept for capturing the diversity of endophytic fungi preserved in herbarium specimens

(2018) Barnabas H. Daru et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

PipeCraft: Flexible open-source toolkit for bioinformatics analysis of custom high-throughput amplicon sequencing data

(2017) Sten Anslan et al.   Molecular Ecology Resources

In situ cultivation of previously uncultivable microorganisms using the ichip

(2017) Brittany Berdy et al.   Nature Protocols

Soil fungal diversity in natural grasslands of the Tibetan Plateau: associations with plant diversity and productivity

(2017) Teng Yang et al.   NEW PHYTOLOGIST

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

(2017) Leho Tedersoo et al.   Microbiome

Diversity of endophytic mycobiota of tropical tree Tectona grandis Linn.f.: Spatiotemporal and tissue type effects

(2017) Dheeraj K Singh et al.   Scientific Reports

Hawksworthiomyces gen. nov. (Ophiostomatales), illustrates the urgency for a decision on how to name novel taxa known only from environmental nucleic acid sequences (ENAS)

(2016) Z. Wilhelm de Beer et al.   Fungal Biology

Discovery of dark matter fungi in aquatic ecosystems demands a reappraisal of the phylogeny and ecology of zoosporic fungi

(2016) Hans-Peter Grossart et al.   Fungal Ecology

Ectomycorrhizal fungal diversity and saprotrophic fungal diversity are linked to different tree community attributes in a field-based tree experiment

(2016) Nhu H. Nguyen et al.   MOLECULAR ECOLOGY

DNA barcoding and taxonomy: dark taxa and dark texts

(2016) Roderic D. M. Page   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Digital identifiers for fungal species

(2016) U. Kõljalg et al.   SCIENCE

Decoupling function and taxonomy in the global ocean microbiome

(2016) S. Louca et al.   SCIENCE

(308–310) Proposals to permit DNA sequence data to serve as types of names of fungi

(2016) David L. Hawksworth et al.   TAXON

Fungal communities from the calcareous deep-sea sediments in the Southwest India Ridge revealed by Illumina sequencing technology

(2016) Likui Zhang et al.   WORLD JOURNAL OF MICROBIOLOGY & BIOTECHNOLOGY

Genomics and metagenomics technologies to recover ribosomal DNA and single-copy genes from old fruit-body and ectomycorrhiza specimens

(2016) Leho Tedersoo et al.   MycoKeys

Fungal communities in sediments of subtropical Chinese seas as estimated by DNA metabarcoding

(2016) Wei Li et al.   Scientific Reports

Sesquiterpene derivatives from cultured lichen mycobionts of Diorygma sp.

(2015) T Tanahashi et al.   PLANTA MEDICA

PIPITS: an automated pipeline for analyses of fungal internal transcribed spacer sequences from the Illumina sequencing platform

(2015) Hyun S. Gweon et al.   Methods in Ecology and Evolution

The Road to Metagenomics: From Microbiology to DNA Sequencing Technologies and Bioinformatics

(2015) Alejandra Escobar-Zepeda et al.   Frontiers in Genetics

Archaeorhizomyces borealis sp. nov. and a sequence-based classification of related soil fungal species

(2014) Audrius Menkis et al.   Fungal Biology

Naming and outline of Dothideomycetes–2014 including proposals for the protection or suppression of generic names

(2014) Nalin N. Wijayawardene et al.   FUNGAL DIVERSITY

Epitypification and neotypification: guidelines with appropriate and inappropriate examples

(2014) Hiran A. Ariyawansa et al.   FUNGAL DIVERSITY

High Fungal Diversity and Abundance Recovered in the Deep-Sea Sediments of the Pacific Ocean

(2014) Wei Xu et al.   MICROBIAL ECOLOGY

Introducing the Consolidated Species Concept to resolve species in the Teratosphaeriaceae

(2014) W. Quaedvlieg et al.   PERSOONIA

Global diversity and geography of soil fungi

(2014) L. Tedersoo et al.   SCIENCE

Ten years of next-generation sequencing technology

(2014) Erwin L. van Dijk et al.   TRENDS IN GENETICS

Phylogenetic detection of novel Cryptomycota in an Iowa (United States) aquifer and from previously collected marine and freshwater targeted high-throughput sequencing sets

(2013) Joshua A. Livermore et al.   ENVIRONMENTAL MICROBIOLOGY

Viability of ectomycorrhizal fungi following cryopreservation

(2013) Charlotte Crahay et al.   Fungal Biology

Towards a unified paradigm for sequence-based identification of fungi

(2013) Urmas Kõljalg et al.   MOLECULAR ECOLOGY

Fungal systematics: is a new age of enlightenment at hand?

(2013) David S. Hibbett et al.   NATURE REVIEWS MICROBIOLOGY

CloVR-ITS: Automated internal transcribed spacer amplicon sequence analysis pipeline for the characterization of fungal microbiota

(2013) James Robert White et al.   Microbiome

Global species numbers of fungi: are tropical studies and molecular approaches contributing to a more robust estimate?

(2012) D. L. Hawksworth   BIODIVERSITY AND CONSERVATION

Fungal palaeodiversity revealed using high-throughput metabarcoding of ancient DNA from arctic permafrost

(2012) Eva Bellemain et al.   ENVIRONMENTAL MICROBIOLOGY

Next-generation sequencing technologies for environmental DNA research

(2012) SHADI SHOKRALLA et al.   MOLECULAR ECOLOGY

The Colletotrichum acutatum species complex

(2012) U. Damm et al.   STUDIES IN MYCOLOGY

Managing and coping with names of pleomorphic fungi in a period of transition

(2012) David L. Hawksworth   IMA Fungus

Whole-genome amplification (WGA) of marine photosynthetic eukaryote populations

(2011) Cécile Lepere et al.   FEMS MICROBIOLOGY ECOLOGY

The genus Phomopsis: biology, applications, species concepts and names of common phytopathogens

(2011) Dhanushka Udayanga et al.   FUNGAL DIVERSITY

Bioactivity and genetic diversity of endophytic fungi in Rhododendron tomentosum Harmaja

(2011) Mysore V. Tejesvi et al.   FUNGAL DIVERSITY

Discovery of novel intermediate forms redefines the fungal tree of life

(2011) Meredith D. M. Jones et al.   NATURE

The sequence read archive: explosive growth of sequencing data

(2011) Y. Kodama et al.   NUCLEIC ACIDS RESEARCH

Archaeorhizomycetes: Unearthing an Ancient Class of Ubiquitous Soil Fungi

(2011) A. Rosling et al.   SCIENCE

Evolutionary informatics: unifying knowledge about the diversity of life

(2011) Cynthia S. Parr et al.   TRENDS IN ECOLOGY & EVOLUTION

Progress in molecular and morphological taxon discovery in Fungi and options for formal classification of environmental sequences

(2011) David S. Hibbett et al.   Fungal Biology Reviews

How to describe a new fungal species

(2011) Keith A. Seifert et al.   IMA Fungus

Validation and justification of the phylum name Cryptomycota phyl. nov.

(2011) Meredith D.M. Jones et al.   IMA Fungus

Use of Ichip for High-Throughput In Situ Cultivation of "Uncultivable" Microbial Species

(2010) D. Nichols et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Culture collections, the new herbaria for fungal pathogens

(2010) Kamel A. Abd-Elsalam et al.   FUNGAL DIVERSITY

Fungal Community Analysis in the Deep-Sea Sediments of the Central Indian Basin by Culture-Independent Approach

(2010) Purnima Singh et al.   MICROBIAL ECOLOGY

Massively parallel 454-sequencing of fungal communities inQuercusspp. ectomycorrhizas indicates seasonal dynamics in urban and rural sites

(2010) ARI JUMPPONEN et al.   MOLECULAR ECOLOGY

Périgord black truffle genome uncovers evolutionary origins and mechanisms of symbiosis

(2010) Francis Martin et al.   NATURE

454 Pyrosequencing and Sanger sequencing of tropical mycorrhizal fungi provide similar results but reveal substantial methodological biases

(2010) Leho Tedersoo et al.   NEW PHYTOLOGIST

The Sequence Read Archive

(2010) R. Leinonen et al.   NUCLEIC ACIDS RESEARCH

Herbaria are a major frontier for species discovery

(2010) D. P. Bebber et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Primer on Metagenomics

(2010) John C. Wooley et al.   PLoS Computational Biology

Characterization of the Oral Fungal Microbiome (Mycobiome) in Healthy Individuals

(2010) Mahmoud A. Ghannoum et al.   PLoS Pathogens

Progress towards DNA barcoding of fungi

(2009) KEITH A. SEIFERT   Molecular Ecology Resources

Massively parallel 454 sequencing indicates hyperdiverse fungal communities in temperateQuercus macrocarpaphyllosphere

(2009) A. Jumpponen et al.   NEW PHYTOLOGIST

Large-scale parallel 454 sequencing reveals host ecological group specificity of arbuscular mycorrhizal fungi in a boreonemoral forest

(2009) M. Öpik et al.   NEW PHYTOLOGIST

Novel species of Mycosphaerellaceae and Teratosphaeriaceae

(2009) P.W. Crous et al.   PERSOONIA

The rhizosphere zoo: An overview of plant-associated communities of microorganisms, including phages, bacteria, archaea, and fungi, and of some of their structuring factors

(2009) M. Buée et al.   PLANT AND SOIL

Human gut microbiota in obesity and after gastric bypass

(2009) H. Zhang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Next-generation DNA sequencing

(2008) Jay Shendure et al.   NATURE BIOTECHNOLOGY

How to know unknown fungi: the role of a herbarium

(2008) Patrick M. Brock et al.   NEW PHYTOLOGIST

Comparative Analysis of Human Gut Microbiota by Barcoded Pyrosequencing

(2008) Anders F. Andersson et al.   PLoS One