Extreme genome diversity in the hyper-prevalent parasitic eukaryote Blastocystis

Inter- and intra-subtype variation of Blastocystis subtypes isolated from diarrheic and non-diarrheic patients in Iran

(2017) Atefe Alinaghizade et al.   INFECTION GENETICS AND EVOLUTION

Subtyping of Blastocystis sp. isolated from symptomatic and asymptomatic individuals in Makkah, Saudi Arabia

(2017) Raafat T. Mohamed et al.   Parasites & Vectors

Shedding light on the expansion and diversification of the Cdc48 protein family during the rise of the eukaryotic cell

(2016) Nickias Kienle et al.   BMC EVOLUTIONARY BIOLOGY

Peroxisomes in parasitic protists

(2016) Toni Gabaldón et al.   MOLECULAR AND BIOCHEMICAL PARASITOLOGY

The Apoptotic Effect of Ursolic Acid on SK-Hep-1 Cells is Regulated by the PI3K/Akt, p38 and JNK MAPK Signaling Pathways

(2016) Wan-Ling Chuang et al.   MOLECULES

Blastocystis phylogeny among various isolates from humans to insects

(2016) Hisao Yoshikawa et al.   PARASITOLOGY INTERNATIONAL

Pathogenic mechanisms in Blastocystis spp. — Interpreting results from in vitro and in vivo studies

(2016) Sitara S.R. Ajjampur et al.   PARASITOLOGY INTERNATIONAL

Current status of Blastocystis: A personal view

(2016) C. Rune Stensvold et al.   PARASITOLOGY INTERNATIONAL

Plasmodium falciparum Rab1A Localizes to Rhoptries in Schizonts

(2016) David Morse et al.   PLoS One

The TopoVIB-Like protein family is required for meiotic DNA double-strand break formation

(2016) T. Robert et al.   SCIENCE

Comparison of faecal microbiota in Blastocystis-positive and Blastocystis-negative irritable bowel syndrome patients

(2016) Robyn Nagel et al.   Microbiome

Colonization with the enteric protozoa Blastocystis is associated with increased diversity of human gut bacterial microbiota

(2016) Christophe Audebert et al.   Scientific Reports

BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs

(2015) Felipe A. Simão et al.   BIOINFORMATICS

Spatiotemporal regulation of the anaphase-promoting complex in mitosis

(2015) Sushama Sivakumar et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Diversity and origins of anaerobic metabolism in mitochondria and related organelles

(2015) Courtney W. Stairs et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Identification of Horizontally-transferred Genomic Islands and Genome Segmentation Points by Using the GC Profile Method

(2014) Ren Zhang et al.   CURRENT GENOMICS

The microbial eukaryoteBlastocystisis a prevalent and diverse member of the healthy human gut microbiota

(2014) Pauline D. Scanlan et al.   FEMS MICROBIOLOGY ECOLOGY

A Large Number of Nuclear Genes in the Human Parasite Blastocystis Require mRNA Polyadenylation to Create Functional Termination Codons

(2014) Vladimír Klimeš et al.   Genome Biology and Evolution

Bacterial collagen-like proteins that form triple-helical structures

(2014) Zhuoxin Yu et al.   JOURNAL OF STRUCTURAL BIOLOGY

Molecular architecture and mechanism of the anaphase-promoting complex

(2014) Leifu Chang et al.   NATURE

Expression and Evolution of the Non-Canonically Translated Yeast Mitochondrial Acetyl-CoA Carboxylase Hfa1p

(2014) Fumi Suomi et al.   PLoS One

Blastocystis Is Associated with Decrease of Fecal Microbiota Protective Bacteria: Comparative Analysis between Patients with Irritable Bowel Syndrome and Control Subjects

(2014) Céline Nourrisson et al.   PLoS One

Missing Pieces of an Ancient Puzzle: Evolution of the Eukaryotic Membrane-Trafficking System

(2014) A. Schlacht et al.   Cold Spring Harbor Perspectives in Biology

Update on the pathogenic potential and treatment options for Blastocystis sp

(2014) Tamalee Roberts et al.   Gut Pathogens

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

Intra-Subtype Variation in Enteroadhesion Accounts for Differences in Epithelial Barrier Disruption and Is Associated with Metronidazole Resistance in Blastocystis Subtype-7

(2014) Zhaona Wu et al.   PLoS Neglected Tropical Diseases

The mitochondrial Ras-related GTPase Miro: views from inside and outside the metazoan kingdom

(2014) Shohei Yamaoka et al.   Frontiers in Plant Science

Variable geographic distribution of Blastocystis subtypes and its potential implications

(2013) Mohammed A. Alfellani et al.   ACTA TROPICA

nhmmer: DNA homology search with profile HMMs

(2013) T. J. Wheeler et al.   BIOINFORMATICS

Infernal 1.1: 100-fold faster RNA homology searches

(2013) E. P. Nawrocki et al.   BIOINFORMATICS

Draft Assembly of the Symbiodinium minutum Nuclear Genome Reveals Dinoflagellate Gene Structure

(2013) Eiichi Shoguchi et al.   CURRENT BIOLOGY

Cryptic organelle homology in apicomplexan parasites: insights from evolutionary cell biology

(2013) Christen M Klinger et al.   CURRENT OPINION IN MICROBIOLOGY

MEROPS: the database of proteolytic enzymes, their substrates and inhibitors

(2013) Neil D. Rawlings et al.   NUCLEIC ACIDS RESEARCH

The cytochrome P450 genesis locus: the origin and evolution of animal cytochrome P450s

(2013) D. R. Nelson et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Blastocystis: getting to grips with our guileful guest

(2013) Pauline D. Scanlan et al.   TRENDS IN PARASITOLOGY

Genome of the red alga Porphyridium purpureum

(2013) Debashish Bhattacharya et al.   Nature Communications

An Overexpression Screen of Toxoplasma gondii Rab-GTPases Reveals Distinct Transport Routes to the Micronemes

(2013) Katrin Kremer et al.   PLoS Pathogens

The TvLEGU-1, a Legumain-Like Cysteine Proteinase, Plays a Key Role inTrichomonas vaginalisCytoadherence

(2013) Francisco Javier Rendón-Gandarilla et al.   Biomed Research International

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Origin and evolution of spliceosomal introns

(2012) Igor B Rogozin et al.   Biology Direct

Biochemistry and Evolution of Anaerobic Energy Metabolism in Eukaryotes

(2012) M. Muller et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

The genome of flax (Linum usitatissimum) assembledde novofrom short shotgun sequence reads

(2012) Zhiwen Wang et al.   PLANT JOURNAL

The significant other: splicing by the minor spliceosome

(2012) Janne J. Turunen et al.   Wiley Interdisciplinary Reviews-RNA

Confutation of the existence of sequence-conserved cytochrome P450 enzymes in Plasmodium falciparum

(2011) Raewadee Wisedpanichkij et al.   ACTA TROPICA

Conservation of ciliary proteins in plants with no cilia

(2011) Matthew E Hodges et al.   BMC PLANT BIOLOGY

Chromosome and gene copy number variation allow major structural change between species and strains of Leishmania

(2011) M. B. Rogers et al.   GENOME RESEARCH

The evolution of glycogen and starch metabolism in eukaryotes gives molecular clues to understand the establishment of plastid endosymbiosis

(2011) Steven Ball et al.   JOURNAL OF EXPERIMENTAL BOTANY

Full-length transcriptome assembly from RNA-Seq data without a reference genome

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

MitoMiner: a data warehouse for mitochondrial proteomics data

(2011) A. C. Smith et al.   NUCLEIC ACIDS RESEARCH

GenomeView: a next-generation genome browser

(2011) T. Abeel et al.   NUCLEIC ACIDS RESEARCH

A Single Peroxisomal Targeting Signal Mediates Matrix Protein Import in Diatoms

(2011) Nicola H. Gonzalez et al.   PLoS One

Folate Production by Probiotic Bacteria

(2011) Maddalena Rossi et al.   Nutrients

Genome sequence of the stramenopile Blastocystis, a human anaerobic parasite

(2011) France Denoeud et al.   GENOME BIOLOGY

Scaffolding pre-assembled contigs using SSPACE

(2010) Marten Boetzer et al.   BIOINFORMATICS

Genome analysis and comparative genomics of a Giardia intestinalis assemblage E isolate

(2010) Jon Jerlström-Hultqvist et al.   BMC GENOMICS

The Ras related GTPase Miro is not required for mitochondrial transport in Dictyostelium discoideum

(2010) Georgia Vlahou et al.   EUROPEAN JOURNAL OF CELL BIOLOGY

Ray: Simultaneous Assembly of Reads from a Mix of High-Throughput Sequencing Technologies

(2010) Sébastien Boisvert et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Central and storage carbon metabolism of the brown alga Ectocarpus siliculosus: insights into the origin and evolution of storage carbohydrates in Eukaryotes

(2010) Gurvan Michel et al.   NEW PHYTOLOGIST

CDD: a Conserved Domain Database for the functional annotation of proteins

(2010) A. Marchler-Bauer et al.   NUCLEIC ACIDS RESEARCH

Peroxisome diversity and evolution

(2010) T. Gabaldon   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

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

New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0

(2010) Stéphane Guindon et al.   SYSTEMATIC BIOLOGY

PhyloBayes 3: a Bayesian software package for phylogenetic reconstruction and molecular dating

(2009) Nicolas Lartillot et al.   BIOINFORMATICS

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

The Cytochrome P450 Engineering Database: integration of biochemical properties

(2009) Demet Sirim et al.   BMC BIOCHEMISTRY

Endoplasmic Reticulum-Associated Secretory Proteins Sec20p, Sec39p, and Dsl1p Are Involved in Peroxisome Biogenesis

(2009) Ryan J. Perry et al.   EUKARYOTIC CELL

The RAB Family GTPase Rab1A fromPlasmodium falciparumDefines a Unique Paralog Shared by Chromalveolates and Rhizaria

(2009) MAREK ELIAS et al.   JOURNAL OF EUKARYOTIC MICROBIOLOGY

Comparative Testing of DNA Segmentation Algorithms Using Benchmark Simulations

(2009) Eran Elhaik et al.   MOLECULAR BIOLOGY AND EVOLUTION

EuPathDB: a portal to eukaryotic pathogen databases

(2009) Cristina Aurrecoechea et al.   NUCLEIC ACIDS RESEARCH

A Complex Cell Division Machinery Was Present in the Last Common Ancestor of Eukaryotes

(2009) Laura Eme et al.   PLoS One

Trehalose Metabolism and Signaling

(2008) Matthew J. Paul et al.   Annual Review of Plant Biology

Organelles in Blastocystis that Blur the Distinction between Mitochondria and Hydrogenosomes

(2008) Alexandra Stechmann et al.   CURRENT BIOLOGY

PclA, a pneumococcal collagen-like protein with selected strain distribution, contributes to adherence and invasion of host cells

(2008) Gavin K. Paterson et al.   FEMS MICROBIOLOGY LETTERS

An Entamoeba histolytica rhomboid protease with atypical specificity cleaves a surface lectin involved in phagocytosis and immune evasion

(2008) L. A. Baxt et al.   GENES & DEVELOPMENT

Complete circular DNA in the mitochondria-like organelles of Blastocystis hominis

(2008) Ivan Wawrzyniak et al.   INTERNATIONAL JOURNAL FOR PARASITOLOGY

Identification of the First Prokaryotic Collagen Sequence Motif That Mediates Binding to Human Collagen Receptors, Integrins α2β1and α11β1

(2008) Clayton C. Caswell et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Biochemical characterization of a mitochondrial-like organelle from Blastocystis sp. subtype 7

(2008) Y. Lantsman et al.   MICROBIOLOGY-SGM

Analysis of Two Genomes from the Mitochondrion-Like Organelle of the Intestinal Parasite Blastocystis: Complete Sequences, Gene Content, and Genome Organization

(2008) V. Perez-Brocal et al.   MOLECULAR BIOLOGY AND EVOLUTION

jModelTest: Phylogenetic Model Averaging

(2008) D. Posada   MOLECULAR BIOLOGY AND EVOLUTION

An Improved General Amino Acid Replacement Matrix

(2008) S. Q. Le et al.   MOLECULAR BIOLOGY AND EVOLUTION

The Carbohydrate-Active EnZymes database (CAZy): an expert resource for Glycogenomics

(2008) B. L. Cantarel et al.   NUCLEIC ACIDS RESEARCH

An Expanded Inventory of Conserved Meiotic Genes Provides Evidence for Sex in Trichomonas vaginalis

(2008) Shehre-Banoo Malik et al.   PLoS One

A Probabilistic Model of Local Sequence Alignment That Simplifies Statistical Significance Estimation

(2008) Sean R. Eddy   PLoS Computational Biology