Functional diversity of microbial eukaryotes in a meromictic lake: Coupling between metatranscriptomic and a trait‐based approach

Trophic strategies explain the ocean niches of small eukaryotic phytoplankton

(2023) Kyle F. Edwards et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

The Mixoplankton Database (MDB): Diversity of photo‐phago‐trophic plankton in form, function, and distribution across the global ocean

(2023) Aditee Mitra et al.   JOURNAL OF EUKARYOTIC MICROBIOLOGY

Temporal variations of Microsporidia diversity and discovery of new host–parasite interactions in a lake ecosystem

(2022) Marina Chauvet et al.   ENVIRONMENTAL MICROBIOLOGY

Light‐dependent niche differentiation in two mixotrophic bacterivores

(2022) Robert Fischer et al.   Environmental Microbiology Reports

A cellular and molecular atlas reveals the basis of chytrid development

(2022) Davis Laundon et al.   eLife

Seasonality of parasitic and saprotrophic zoosporic fungi: linking sequence data to ecological traits

(2022) Silke Van den Wyngaert et al.   ISME Journal

FreshOmics : A manually curated and standardized –omics database for investigating freshwater microbiomes

(2022) Corinne Biderre‐Petit et al.   Molecular Ecology Resources

Targeting the Malaria Parasite cGMP-Dependent Protein Kinase to Develop New Drugs

(2021) David A. Baker et al.   Frontiers in Microbiology

Parasites, pathogens, and other symbionts of copepods

(2021) David Bass et al.   TRENDS IN PARASITOLOGY

Chytrid fungi

(2020) Edgar M. Medina et al.   CURRENT BIOLOGY

Metatranscriptomics From a Small Aquatic System: Microeukaryotic Community Functions Through the Diurnal Cycle

(2020) Stephanie Trench-Fiol et al.   Frontiers in Microbiology

MetaEuk—sensitive, high-throughput gene discovery, and annotation for large-scale eukaryotic metagenomics

(2020) Eli Levy Karin et al.   Microbiome

Apoptosis inducing factor and mitochondrial NADH dehydrogenases: redox-controlled gear boxes to switch between mitochondrial biogenesis and cell death

(2020) Johannes M. Herrmann et al.   BIOLOGICAL CHEMISTRY

Community-Level Responses to Iron Availability in Open Ocean Planktonic Ecosystems

(2019) Luigi Caputi et al.   GLOBAL BIOGEOCHEMICAL CYCLES

Diversity, spatial distribution and activity of fungi in freshwater ecosystems

(2019) Cécile Lepère et al.   PeerJ

Coupling between taxonomic and functional diversity in protistan coastal communities

(2019) Pierre Ramond et al.   ENVIRONMENTAL MICROBIOLOGY

Mixotrophic protists and a new paradigm for marine ecology: where does plankton research go now?

(2019) Kevin J Flynn et al.   JOURNAL OF PLANKTON RESEARCH

Contrasting mixotrophic lifestyles reveal different ecological niches in two closely related marine protists

(2019) Susanne Wilken et al.   JOURNAL OF PHYCOLOGY

Thermally coupled dark-anoxia incubation: A platform technology to induce auto-fermentation and thus cell-wall thinning in both nitrogen-replete and nitrogen-deplete Nannochloropsis slurries

(2019) Ronald Halim et al.   BIORESOURCE TECHNOLOGY

The Indispensable Role of Histone Methyltransferase PoDot1 in Extracellular Glycoside Hydrolase Biosynthesis of Penicillium oxalicum

(2019) Yanan Li et al.   Frontiers in Microbiology

Shifting metabolic priorities among key protistan taxa within and below the euphotic zone

(2018) Sarah K. Hu et al.   ENVIRONMENTAL MICROBIOLOGY

A global ocean atlas of eukaryotic genes

(2018) Quentin Carradec et al.   Nature Communications

Comparison of sterol and fatty acid profiles of chytrids and their hosts reveals trophic upgrading of nutritionally inadequate phytoplankton by fungal parasites

(2018) Mélanie Gerphagnon et al.   ENVIRONMENTAL MICROBIOLOGY

Modelling mixotrophic functional diversity and implications for ecosystem function

(2018) Suzana GonÇalves Leles et al.   JOURNAL OF PLANKTON RESEARCH

Re-assembly, quality evaluation, and annotation of 678 microbial eukaryotic reference transcriptomes

(2018) Lisa K Johnson et al.   GigaScience

MMseqs2 enables sensitive protein sequence searching for the analysis of massive data sets

(2017) Martin Steinegger et al.   NATURE BIOTECHNOLOGY

Normalization and microbial differential abundance strategies depend upon data characteristics

(2017) Sophie Weiss et al.   Microbiome

Perturbation of redox balance after thioredoxin reductase deficiency interrupts autophagy-lysosomal degradation pathway and enhances cell death in nutritionally stressed SH-SY5Y cells

(2016) Pandian Nagakannan et al.   FREE RADICAL BIOLOGY AND MEDICINE

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

DADA2: High-resolution sample inference from Illumina amplicon data

(2016) Benjamin J Callahan et al.   NATURE METHODS

How many dimensions are needed to accurately assess functional diversity? A pragmatic approach for assessing the quality of functional spaces

(2015) Eva Maire et al.   GLOBAL ECOLOGY AND BIOGEOGRAPHY

KEGG as a reference resource for gene and protein annotation

(2015) Minoru Kanehisa et al.   NUCLEIC ACIDS RESEARCH

Role of Arabidopsis AtPI4Kγ3, a type II phosphoinositide 4-kinase, in abiotic stress responses and floral transition

(2015) Salina Akhter et al.   PLANT BIOTECHNOLOGY JOURNAL

Rethinking the marine carbon cycle: Factoring in the multifarious lifestyles of microbes

(2015) A. Z. Worden et al.   SCIENCE

FactoMineR: AnRPackage for Multivariate Analysis

(2015) Sébastien Lê et al.   Journal of Statistical Software

Terrigenous micromycetes in freshwater ecosystems (review)

(2014) L. V. Voronin   Inland Water Biology

Genomes and gene expression across light and productivity gradients in eastern subtropical Pacific microbial communities

(2014) Chris L Dupont et al.   ISME Journal

The Marine Microbial Eukaryote Transcriptome Sequencing Project (MMETSP): Illuminating the Functional Diversity of Eukaryotic Life in the Oceans through Transcriptome Sequencing

(2014) Patrick J. Keeling et al.   PLOS BIOLOGY

In situinteractions between photosynthetic picoeukaryotes and bacterioplankton in the Atlantic Ocean: evidence for mixotrophy

(2013) Manuela Hartmann et al.   Environmental Microbiology Reports

Anaerobic energy metabolism in unicellular photosynthetic eukaryotes

(2012) Ariane Atteia et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS

Associating microbiome composition with environmental covariates using generalized UniFrac distances

(2012) Jun Chen et al.   BIOINFORMATICS

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

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

The Protist Ribosomal Reference database (PR2): a catalog of unicellular eukaryote Small Sub-Unit rRNA sequences with curated taxonomy

(2012) Laure Guillou et al.   NUCLEIC ACIDS RESEARCH

Characterization of recombinant Beta vulgaris 4,5-DOPA-extradiol-dioxygenase active in the biosynthesis of betalains

(2012) Fernando Gandía-Herrero et al.   PLANTA

AntiFam: a tool to help identify spurious ORFs in protein annotation

(2012) R. Y. Eberhardt et al.   Database-The Journal of Biological Databases and Curation

Accelerated Profile HMM Searches

(2011) Sean R. Eddy   PLoS Computational Biology

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

Comparative day/night metatranscriptomic analysis of microbial communities in the North Pacific subtropical gyre

(2009) Rachel S. Poretsky et al.   ENVIRONMENTAL MICROBIOLOGY

Life cycle and molecular phylogeny of the dinoflagellates Chytriodinium and Dissodinium, ectoparasites of copepod eggs

(2009) Fernando Gómez et al.   EUROPEAN JOURNAL OF PROTISTOLOGY

Trait-Based Community Ecology of Phytoplankton

(2008) Elena Litchman et al.   Annual Review of Ecology Evolution and Systematics