On the reversibility of parasitism: adaptation to a free-living lifestyle via gene acquisitions in the diplomonad Trepomonas sp. PC1

Kinetoplastid Phylogenomics Reveals the Evolutionary Innovations Associated with the Origins of Parasitism

(2016) Andrew P. Jackson et al.   CURRENT BIOLOGY

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

(2015) Felipe A. Simão et al.   BIOINFORMATICS

Adaptive Horizontal Gene Transfers between Multiple Cheese-Associated Fungi

(2015) Jeanne Ropars et al.   CURRENT BIOLOGY

Horizontal gene transfer: building the web of life

(2015) Shannon M. Soucy et al.   NATURE REVIEWS GENETICS

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

The evolution of parasitism in Nematoda

(2014) MARK BLAXTER et al.   PARASITOLOGY

Horizontal gene transfer in the acquisition of novel traits by metazoans

(2014) Luis Boto   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

The Genome of Spironucleus salmonicida Highlights a Fish Pathogen Adapted to Fluctuating Environments

(2014) Feifei Xu et al.   PLoS Genetics

A bioinformatic analysis of ribonucleotide reductase genes in phage genomes and metagenomes

(2013) Bhakti Dwivedi et al.   BMC EVOLUTIONARY BIOLOGY

Fortifying the wall: synthesis, regulation and degradation of bacterial peptidoglycan

(2013) Solmaz Sobhanifar et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

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

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

Pfam: the protein families database

(2013) Robert D. Finn et al.   NUCLEIC ACIDS RESEARCH

Evolution of parasitism along convergent lines: from ecology to genomics

(2013) ROBERT POULIN et al.   PARASITOLOGY

Interdomain lateral gene transfer of an essential ferrochelatase gene in human parasitic nematodes

(2013) B. Wu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Is Permanent Parasitism Reversible?—Critical Evidence from Early Evolution of House Dust Mites

(2013) Pavel B. Klimov et al.   SYSTEMATIC BIOLOGY

Hosts, parasites, and horizontal gene transfer

(2013) Bhagya K. Wijayawardena et al.   TRENDS IN PARASITOLOGY

Patterns of prokaryotic lateral gene transfers affecting parasitic microbial eukaryotes

(2013) Cecilia Alsmark et al.   GENOME BIOLOGY

Lateral transfer of tetrahymanol-synthesizing genes has allowed multiple diverse eukaryote lineages to independently adapt to environments without oxygen

(2012) Kiyotaka Takishita et al.   Biology Direct

Bactericidal/permeability increasing protein: A multifaceted protein with functions beyond LPS neutralization

(2012) Arjun Balakrishnan et al.   Innate Immunity

The Revised Classification of Eukaryotes

(2012) Sina M. Adl et al.   JOURNAL OF EUKARYOTIC MICROBIOLOGY

The SILVA ribosomal RNA gene database project: improved data processing and web-based tools

(2012) Christian Quast et al.   NUCLEIC ACIDS RESEARCH

Contribution of Lateral Gene Transfers to the Genome Composition and Parasitic Ability of Root-Knot Nematodes

(2012) Julien Paganini et al.   PLoS One

Multigene Phylogenies of Diverse Carpediemonas-like Organisms Identify the Closest Relatives of ‘Amitochondriate’ Diplomonads and Retortamonads

(2012) Kiyotaka Takishita et al.   PROTIST

Widespread impact of horizontal gene transfer on plant colonization of land

(2012) Jipei Yue et al.   Nature Communications

The Genome of the Obligate Intracellular Parasite Trachipleistophora hominis: New Insights into Microsporidian Genome Dynamics and Reductive Evolution

(2012) Eva Heinz et al.   PLoS Pathogens

Quality control and preprocessing of metagenomic datasets

(2011) R. Schmieder et al.   BIOINFORMATICS

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

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

Peptidoglycan recognition proteins kill bacteria by activating protein-sensing two-component systems

(2011) Des Raj Kashyap et al.   NATURE MEDICINE

Reorganizing the protein space at the Universal Protein Resource (UniProt)

(2011)   NUCLEIC ACIDS RESEARCH

Increased Sampling Reveals Novel Lineages of Entamoeba: Consequences of Genetic Diversity and Host Specificity for Taxonomy and Molecular Detection

(2011) C. Rune Stensvold et al.   PROTIST

Are pathogenic bacteria just looking for food? Metabolism and microbial pathogenesis

(2011) Laurence Rohmer et al.   TRENDS IN MICROBIOLOGY

Accelerated Profile HMM Searches

(2011) Sean R. Eddy   PLoS Computational Biology

BMGE (Block Mapping and Gathering with Entropy): a new software for selection of phylogenetic informative regions from multiple sequence alignments

(2010) Alexis Criscuolo et al.   BMC EVOLUTIONARY BIOLOGY

Cryptic Diversity of Free-Living Parabasalids, Pseudotrichomonas keilini and Lacusteria cypriaca n. g., n. sp., as Inferred from Small Subunit rDNA Sequences

(2010) NAOJI YUBUKI et al.   JOURNAL OF EUKARYOTIC MICROBIOLOGY

Pathogen Entrapment by Transglutaminase—A Conserved Early Innate Immune Mechanism

(2010) Zhi Wang et al.   PLoS Pathogens

Gene Transfer and Diversification of Microbial Eukaryotes

(2009) Jan O. Andersson   Annual Review of Microbiology

RNRdb, a curated database of the universal enzyme family ribonucleotide reductase, reveals a high level of misannotation in sequences deposited to Genbank

(2009) Daniel Lundin et al.   BMC GENOMICS

Variation in Giardia: towards a taxonomic revision of the genus

(2009) Paul T. Monis et al.   TRENDS IN PARASITOLOGY

Draft Genome Sequencing of Giardia intestinalis Assemblage B Isolate GS: Is Human Giardiasis Caused by Two Different Species?

(2009) Oscar Franzén et al.   PLoS Pathogens

Molecular phylogeny of diplomonads and enteromonads based on SSU rRNA, alpha-tubulin and HSP90 genes: Implications for the evolutionary history of the double karyomastigont of diplomonads

(2008) Martin Kolisko et al.   BMC EVOLUTIONARY BIOLOGY

Genome-wide transcriptional changes induced by phagocytosis or growth on bacteria in Dictyostelium

(2008) Alessio Sillo et al.   BMC GENOMICS

Molecular epidemiology of giardiasis

(2008) Simone M. Cacciò et al.   MOLECULAR AND BIOCHEMICAL PARASITOLOGY