Coprophilic amoebae and flagellates, including Guttulinopsis, Rosculus and Helkesimastix, characterise a divergent and diverse rhizarian radiation and contribute to a large diversity of faecal-associated protists

Differences in soil micro-eukaryotic communities over soil pH gradients are strongly driven by parasites and saprotrophs

(2016) A. Ö. C. Dupont et al.   ENVIRONMENTAL MICROBIOLOGY

Placing Environmental Next-Generation Sequencing Amplicons from Microbial Eukaryotes into a Phylogenetic Context

(2014) Micah Dunthorn et al.   MOLECULAR BIOLOGY AND EVOLUTION

Lineage-specific molecular probing reveals novel diversity and ecological partitioning of haplosporidians

(2013) Hanna Hartikainen et al.   ISME Journal

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

UPARSE: highly accurate OTU sequences from microbial amplicon reads

(2013) Robert C Edgar   NATURE METHODS

Altered Protozoan and Bacterial Communities and Survival of Escherichia coli O157:H7 in Monensin-Treated Wastewater from a Dairy Lagoon

(2013) Subbarao V. Ravva et al.   PLoS One

Evolution of Archamoebae: Morphological and Molecular Evidence for Pelobionts Including Rhizomastix, Entamoeba, Iodamoeba, and Endolimax

(2013) Eliška Ptáčková et al.   PROTIST

Aggregative Multicellularity Evolved Independently in the Eukaryotic Supergroup Rhizaria

(2012) Matthew W. Brown et al.   CURRENT BIOLOGY

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

Reticulamoeba Is a Long-Branched Granofilosean (Cercozoa) That Is Missing from Sequence Databases

(2012) David Bass et al.   PLoS One

Phylogenetic and Morphological Diversity of Novel Soil Cercomonad Species with a Description of Two New Genera (Nucleocercomonas and Metabolomonas)

(2012) Marian Brabender et al.   PROTIST

Quality control and preprocessing of metagenomic datasets

(2011) R. Schmieder et al.   BIOINFORMATICS

FLASH: fast length adjustment of short reads to improve genome assemblies

(2011) T. Magoc et al.   BIOINFORMATICS

ScripTree: scripting phylogenetic graphics

(2010) François Chevenet et al.   BIOINFORMATICS

Rhizomastix biflagellata sp. nov., a new amoeboflagellate of uncertain phylogenetic position isolated from frogs

(2010) Ivan Cepicka   EUROPEAN JOURNAL OF PROTISTOLOGY

A Morphologically Simple Species of Acrasis (Heterolobosea, Excavata), Acrasis helenhemmesae n. sp.

(2010) MATTHEW W. BROWN et al.   JOURNAL OF EUKARYOTIC MICROBIOLOGY

Multiple marker parallel tag environmental DNA sequencing reveals a highly complex eukaryotic community in marine anoxic water

(2010) THORSTEN STOECK et al.   MOLECULAR ECOLOGY

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

“Slime Molds” among the Tubulinea (Amoebozoa): Molecular Systematics and Taxonomy of Copromyxa

(2010) Matthew W. Brown et al.   PROTIST

Untangling the Phylogeny of Amoeboid Protists

(2009) JAN PAWLOWSKI et al.   JOURNAL OF EUKARYOTIC MICROBIOLOGY

Helkesimastix marina n. sp. (Cercozoa: Sainouroidea superfam. n.) a Gliding Zooflagellate of Novel Ultrastructure and Unusual Ciliary Behaviour

(2009) Thomas Cavalier-Smith et al.   PROTIST

Phylogeny, Taxonomy, and Astounding Genetic Diversity of Glissomonadida ord. nov., The Dominant Gliding Zooflagellates in Soil (Protozoa: Cercozoa)

(2009) Alexis T. Howe et al.   PROTIST

Phylogeny and Classification of Cercomonadida (Protozoa, Cercozoa): Cercomonas, Eocercomonas, Paracercomonas, and Cavernomonas gen. nov.

(2009) David Bass et al.   PROTIST

Morphology and Phylogeny of Sainouron acronematica sp. n. and the Ultrastructural Unity of Cercozoa

(2008) Thomas Cavalier-Smith et al.   PROTIST

A Rapid Bootstrap Algorithm for the RAxML Web Servers

(2008) Alexandros Stamatakis et al.   SYSTEMATIC BIOLOGY