Diversity, spatial distribution and activity of fungi in freshwater ecosystems

Flooding Duration Affects the Structure of Terrestrial and Aquatic Microbial Eukaryotic Communities

(2017) Oliver Röhl et al.   MICROBIAL ECOLOGY

Early diverging lineages within Cryptomycota and Chytridiomycota dominate the fungal communities in ice-covered lakes of the McMurdo Dry Valleys, Antarctica

(2017) Keilor Rojas-Jimenez et al.   Scientific Reports

Enumeration of Parasitic Chytrid Zoospores in the Columbia River via Quantitative PCR

(2016) Michelle A. Maier et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Aquatic fungi: targeting the forgotten in microbial ecology

(2016) Hans-Peter Grossart et al.   CURRENT OPINION IN MICROBIOLOGY

Chytrids dominate arctic marine fungal communities

(2016) B. T. Hassett et al.   ENVIRONMENTAL MICROBIOLOGY

Global biogeography of marine fungi is shaped by the environment

(2016) Kaho H. Tisthammer et al.   Fungal Ecology

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

Diversity and Dynamics of Active Small Microbial Eukaryotes in the Anoxic Zone of a Freshwater Meromictic Lake (Pavin, France)

(2016) Cécile Lepère et al.   Frontiers in Microbiology

Novel chytrid lineages dominate fungal sequences in diverse marine and freshwater habitats

(2016) André M. Comeau et al.   Scientific Reports

Microsporidia: Eukaryotic Intracellular Parasites Shaped by Gene Loss and Horizontal Gene Transfers

(2015) Nicolas Corradi   Annual Review of Microbiology

Classification of marine Ascomycota, Basidiomycota, Blastocladiomycota and Chytridiomycota

(2015) E. B. Gareth Jones et al.   FUNGAL DIVERSITY

PCR primers for assessing community structure of aquatic fungi including Chytridiomycota and Cryptomycota

(2015) Nobuyoshi Ishii et al.   Fungal Ecology

Surveying the biodiversity of the Cryptomycota using a targeted PCR approach

(2015) Katherine L. Lazarus et al.   Fungal Ecology

Marked seasonality and high spatial variability of protist communities in shallow freshwater systems

(2015) Marianne Simon et al.   ISME Journal

Diversity and Distribution of Aquatic Fungal Communities in the Ny-Ålesund Region, Svalbard (High Arctic)

(2015) Tao Zhang et al.   MICROBIAL ECOLOGY

Formalizing the definition of meta-analysis inMolecular Ecology

(2015) Althea A. ArchMiller et al.   MOLECULAR ECOLOGY

Evidence for an active rare biosphere within freshwater protists community

(2015) Didier Debroas et al.   MOLECULAR ECOLOGY

Molecular diversity and distribution of marine fungi across 130 European environmental samples

(2015) Thomas A. Richards et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Changes in bacterial and eukaryotic communities during sewage decomposition in Mississippi river water

(2015) Asja Korajkic et al.   WATER RESEARCH

Novel basal, fungal lineages from freshwater phytoplankton and lake samples

(2015) Seiji Ishida et al.   Environmental Microbiology Reports

Temporal dynamics of activeArchaeain oxygen-depleted zones of two deep lakes

(2015) Mylène Hugoni et al.   Environmental Microbiology Reports

In situassociations between marine photosynthetic picoeukaryotes and potential parasites - a role for fungi?

(2015) Cécile Lepère et al.   Environmental Microbiology Reports

Identification of Habitat-Specific Biomes of Aquatic Fungal Communities Using a Comprehensive Nearly Full-Length 18S rRNA Dataset Enriched with Contextual Data

(2015) Katrin Panzer et al.   PLoS One

Complex communities of small protists and unexpected occurrence of typical marine lineages in shallow freshwater systems

(2014) Marianne Simon et al.   ENVIRONMENTAL MICROBIOLOGY

Effects of light and prey availability on Arctic freshwater protist communities examined by high-throughput DNA and RNA sequencing

(2014) Sophie Charvet et al.   FEMS MICROBIOLOGY ECOLOGY

Stream-dwelling fungal decomposer communities along a gradient of eutrophication unraveled by 454 pyrosequencing

(2014) S. Duarte et al.   FUNGAL DIVERSITY

Terrigenous micromycetes in freshwater ecosystems (review)

(2014) L. V. Voronin   Inland Water Biology

Picoeukaryote Plankton Composition off West Spitsbergen at the Entrance to the Arctic Ocean

(2014) Estelle S. Kilias et al.   JOURNAL OF EUKARYOTIC MICROBIOLOGY

Distribution and Diversity of Planktonic Fungi in the West Pacific Warm Pool

(2014) Xin Wang et al.   PLoS One

Genomic characterization of three unique Dehalococcoides that respire on persistent polychlorinated biphenyls

(2014) S. Wang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Deciphering the presence and activity of fungal communities in marine sediments using a model estuarine system

(2013) G Burgaud et al.   AQUATIC MICROBIAL ECOLOGY

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

Seasonal dynamics of free-living tintinnid ciliate communities revealed by environmental sequences from the North-West Mediterranean Sea

(2013) Charles Bachy et al.   FEMS MICROBIOLOGY ECOLOGY

Geographic distance and ecosystem size determine the distribution of smallest protists in lacustrine ecosystems

(2013) Cécile Lepère et al.   FEMS MICROBIOLOGY ECOLOGY

Mycology should be recognized as a field in biology at eye level with other major disciplines – a memorandum

(2013) Gerhard Rambold et al.   MYCOLOGICAL PROGRESS

UPARSE: highly accurate OTU sequences from microbial amplicon reads

(2013) Robert C Edgar   NATURE METHODS

MycoCosm portal: gearing up for 1000 fungal genomes

(2013) Igor V. Grigoriev et al.   NUCLEIC ACIDS RESEARCH

Deep Sequencing of Subseafloor Eukaryotic rRNA Reveals Active Fungi across Marine Subsurface Provinces

(2013) William Orsi et al.   PLoS One

Phylogenetic Affiliation of SSU rRNA Genes Generated by Massively Parallel Sequencing: New Insights into the Freshwater Protist Diversity

(2013) Najwa Taib et al.   PLoS One

Pyrosequencing assessment of prokaryotic and eukaryotic diversity in biofilm communities from a French river

(2013) Geneviève Bricheux et al.   MicrobiologyOpen

Short-term dynamics of diversity patterns: evidence of continual reassembly within lacustrine small eukaryotes

(2012) Jean-François Mangot et al.   ENVIRONMENTAL MICROBIOLOGY

Fungal under-representation is (slowly) diminishing in the life sciences

(2012) Marco Pautasso   Fungal 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

What we know and don’t know about Earth's missing biodiversity

(2012) Brett R. Scheffers et al.   TRENDS IN ECOLOGY & EVOLUTION

Pyrosequencing analysis of the protist communities in a High Arctic meromictic lake: DNA preservation and change

(2012) Sophie Charvet et al.   Frontiers in Microbiology

The Fungi: 1, 2, 3 … 5.1 million species?

(2011) Meredith Blackwell   AMERICAN JOURNAL OF BOTANY

Marine Fungi: Their Ecology and Molecular Diversity

(2011) Thomas A. Richards et al.   Annual Review of Marine Science

UCHIME improves sensitivity and speed of chimera detection

(2011) Robert C. Edgar et al.   BIOINFORMATICS

Molecular evidence that deep-branching fungi are major fungal components in deep-sea methane cold-seep sediments

(2011) Takahiko Nagahama et al.   ENVIRONMENTAL MICROBIOLOGY

Exploring and quantifying fungal diversity in freshwater lake ecosystems using rDNA cloning/sequencing and SSU tag pyrosequencing

(2011) Sébastien Monchy et al.   ENVIRONMENTAL MICROBIOLOGY

Multiple markers pyrosequencing reveals highly diverse and host-specific fungal communities on the mangrove trees Avicennia marina and Rhizophora stylosa

(2011) Yonathan Arfi et al.   FEMS MICROBIOLOGY ECOLOGY

Discovery of novel intermediate forms redefines the fungal tree of life

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

Plastid 16S rRNA Gene Diversity among Eukaryotic Picophytoplankton Sorted by Flow Cytometry from the South Pacific Ocean

(2011) Xiao Li Shi et al.   PLoS One

How Many Species Are There on Earth and in the Ocean?

(2011) Camilo Mora et al.   PLOS BIOLOGY

Three reasons to re-evaluate fungal diversity ‘on Earth and in the ocean’

(2011) David Bass et al.   Fungal Biology Reviews

Diversity and functions of microscopic fungi: a missing component in pelagic food webs

(2010) Marlène Jobard et al.   AQUATIC SCIENCES

Picante: R tools for integrating phylogenies and ecology

(2010) S. W. Kembel et al.   BIOINFORMATICS

PANGEA: pipeline for analysis of next generation amplicons

(2010) Adriana Giongo et al.   ISME Journal

Contrasting seasonal niche separation between rare and abundant taxa conceals the extent of protist diversity

(2010) VIOLA NOLTE et al.   MOLECULAR ECOLOGY

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

(2010) Morgan N. Price et al.   PLoS One

Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample

(2010) J. G. Caporaso et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Molecular systematics of the marine Dothideomycetes

(2010) S. Suetrong et al.   STUDIES IN MYCOLOGY

The molecular phylogeny of freshwater Dothideomycetes

(2010) C.A. Shearer et al.   STUDIES IN MYCOLOGY

Community Structure and Dynamics of Small Eukaryotes Targeted by New Oligonucleotide Probes: New Insight into the Lacustrine Microbial Food Web

(2009) J.-F. Mangot et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Fungal Diversity in Deep-Sea Hydrothermal Ecosystems

(2009) T. Le Calvez et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Occurrence and coexistence of arbuscular mycorrhizal fungi and dark septate fungi in aquatic macrophytes in a tropical river–floodplain system

(2009) Josy Fraccaro de Marins et al.   AQUATIC BOTANY

Fungi in lake ecosystems

(2009) CM Wurzbacher et al.   AQUATIC MICROBIAL ECOLOGY

RAMI: a tool for identification and characterization of phylogenetic clusters in microbial communities

(2009) Thomas Pommier et al.   BIOINFORMATICS

Molecular characterization of the spatial diversity and novel lineages of mycoplankton in Hawaiian coastal waters

(2009) Zheng Gao et al.   ISME Journal

Fungi evolved right on track

(2009) Robert Lücking et al.   MYCOLOGIA

Phylogenetic Resolution and Quantifying the Phylogenetic Diversity and Dispersion of Communities

(2009) Nathan G. Swenson   PLoS One

Infrequent marine–freshwater transitions in the microbial world

(2009) Ramiro Logares et al.   TRENDS IN MICROBIOLOGY

Unveiling new microbial eukaryotes in the surface ocean

(2008) Ramon Massana et al.   CURRENT OPINION IN MICROBIOLOGY

Accurate taxonomy assignments from 16S rRNA sequences produced by highly parallel pyrosequencers

(2008) Z. Liu et al.   NUCLEIC ACIDS RESEARCH

The ecology of chytrids in aquatic ecosystems: roles in food web dynamics

(2008) Frank H. Gleason et al.   Fungal Biology Reviews