Expanding the view on the evolution of the nematode dauer signalling pathways: refinement through gene gain and pathway co-option

ETE 3: Reconstruction, Analysis, and Visualization of Phylogenomic Data

(2016) Jaime Huerta-Cepas et al.   MOLECULAR BIOLOGY AND EVOLUTION

Regulation of Life Cycle Checkpoints and Developmental Activation of Infective Larvae in Strongyloides stercoralis by Dafachronic Acid

(2016) Mennatallah M. Y. Albarqi et al.   PLoS Pathogens

The cytochrome P450 family in the parasitic nematode Haemonchus contortus

(2015) Roz Laing et al.   INTERNATIONAL JOURNAL FOR PARASITOLOGY

Genetic blueprint of the zoonotic pathogen Toxocara canis

(2015) Xing-Quan Zhu et al.   Nature Communications

Figmop: a profile HMM to identify genes and bypass troublesome gene models in draft genomes

(2014) David M. Curran et al.   BIOINFORMATICS

Kablammo: an interactive, web-based BLAST results visualizer

(2014) J. A. Wintersinger et al.   BIOINFORMATICS

Assessment and refinement of eukaryotic gene structure prediction with gene-structure-aware multiple protein sequence alignment

(2014) Osamu Gotoh et al.   BMC BIOINFORMATICS

Hc-daf-2 encodes an insulin-like receptor kinase in the barber’s pole worm, Haemonchus contortus, and restores partial dauer regulation

(2014) Facai Li et al.   INTERNATIONAL JOURNAL FOR PARASITOLOGY

Dynamics of Copy Number Variation in Host Races of the Pea Aphid

(2014) Ludovic Duvaux et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genome and transcriptome of the porcine whipworm Trichuris suis

(2014) Aaron R Jex et al.   NATURE GENETICS

Genome of the human hookworm Necator americanus

(2014) Yat T Tang et al.   NATURE GENETICS

Fast and sensitive protein alignment using DIAMOND

(2014) Benjamin Buchfink et al.   NATURE METHODS

The evolution of parasitism in Nematoda

(2014) MARK BLAXTER et al.   PARASITOLOGY

The genome of Romanomermis culicivorax: revealing fundamental changes in the core developmental genetic toolkit in Nematoda

(2013) Philipp H Schiffer et al.   BMC GENOMICS

The Draft Genome and Transcriptome of Panagrellus redivivus Are Shaped by the Harsh Demands of a Free-Living Lifestyle

(2013) J. Srinivasan et al.   GENETICS

The dauer hypothesis and the evolution of parasitism: 20years on and still going strong

(2013) Matt Crook   INTERNATIONAL JOURNAL FOR PARASITOLOGY

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

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

Genomics of Loa loa, a Wolbachia-free filarial parasite of humans

(2013) Christopher A Desjardins et al.   NATURE GENETICS

A Lover and a Fighter: The Genome Sequence of an Entomopathogenic Nematode Heterorhabditis bacteriophora

(2013) Xiaodong Bai et al.   PLoS One

Using Existing Drugs as Leads for Broad Spectrum Anthelmintics Targeting Protein Kinases

(2013) Christina M. Taylor et al.   PLoS Pathogens

The genome and transcriptome of Haemonchus contortus, a key model parasite for drug and vaccine discovery

(2013) Roz Laing et al.   GENOME BIOLOGY

The genome and developmental transcriptome of the strongylid nematode Haemonchus contortus

(2013) Erich M Schwarz et al.   GENOME BIOLOGY

Physiological function, expression pattern, and transcriptional regulation of a Caenorhabditis elegans insulin-like peptide, INS-18

(2012) Yohei Matsunaga et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data

(2012) M. Kearse et al.   BIOINFORMATICS

ACaenorhabditis elegansInsulin-Like Peptide, INS-17: Its Physiological Function and Expression Pattern

(2012) Yohei MATSUNAGA et al.   BIOSCIENCE BIOTECHNOLOGY AND BIOCHEMISTRY

Silencing of Germline-Expressed Genes by DNA Elimination in Somatic Cells

(2012) Jianbin Wang et al.   DEVELOPMENTAL CELL

Benchmarking spliced alignment programs including Spaln2, an extended version of Spaln that incorporates additional species-specific features

(2012) Hiroaki Iwata et al.   NUCLEIC ACIDS RESEARCH

Strongyloides stercoralis age-1: A Potential Regulator of Infective Larval Development in a Parasitic Nematode

(2012) Jonathan D. Stoltzfus et al.   PLoS One

Aging Uncouples Heritability and Expression-QTL in Caenorhabditis elegans

(2012) Ana Viñuela et al.   G3-Genes Genomes Genetics

ProtTest 3: fast selection of best-fit models of protein evolution

(2011) Diego Darriba et al.   BIOINFORMATICS

Structural Conservation of Ligand Binding Reveals a Bile Acid-like Signaling Pathway in Nematodes

(2011) Xiaoyong Zhi et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Parallel evolution of domesticated Caenorhabditis species targets pheromone receptor genes

(2011) Patrick T. McGrath et al.   NATURE

Ascaris suum draft genome

(2011) Aaron R. Jex et al.   NATURE

The draft genome of the parasitic nematode Trichinella spiralis

(2011) Makedonka Mitreva et al.   NATURE GENETICS

WormBase 2012: more genomes, more data, new website

(2011) K. Yook et al.   NUCLEIC ACIDS RESEARCH

An inconvenient truth: Global worming and anthelmintic resistance

(2011) Ray M. Kaplan et al.   VETERINARY PARASITOLOGY

The Evolutionarily Conserved Longevity Determinants HCF-1 and SIR-2.1/SIRT1 Collaborate to Regulate DAF-16/FOXO

(2011) Gizem Rizki et al.   PLoS Genetics

Genomic Insights into the Origin of Parasitism in the Emerging Plant Pathogen Bursaphelenchus xylophilus

(2011) Taisei Kikuchi et al.   PLoS Pathogens

TreeGraph 2: Combining and visualizing evidence from different phylogenetic analyses

(2010) Ben C Stöver et al.   BMC BIOINFORMATICS

Gene copy-number polymorphism in nature

(2010) D. R. Schrider et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

How did parasitic worms evolve?

(2009) Mark E. Viney   BIOESSAYS

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

Massively parallel sequencing of the polyadenylated transcriptome of C. elegans

(2009) L. W. Hillier et al.   GENOME RESEARCH

Structural and functional characterisation of the fork head transcription factor-encoding gene, Hc-daf-16, from the parasitic nematode Haemonchus contortus (Strongylida)

(2009) Min Hu et al.   INTERNATIONAL JOURNAL FOR PARASITOLOGY

A phylogenetic tree of nematodes based on about 1200 full-length small subunit ribosomal DNA sequences

(2009) Hanny van Megen et al.   NEMATOLOGY

daf-7-related TGF-β homologues from Trichostrongyloid nematodes show contrasting life-cycle expression patterns

(2009) H. J. McSORLEY et al.   PARASITOLOGY

Identification of the nuclear receptor DAF-12 as a therapeutic target in parasitic nematodes

(2009) Z. Wang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Morphogenesis of Strongyloides stercoralis Infective Larvae Requires the DAF-16 Ortholog FKTF-1

(2009) Michelle L. Castelletto et al.   PLoS Pathogens

A Conserved Endocrine Mechanism Controls the Formation of Dauer and Infective Larvae in Nematodes

(2008) Akira Ogawa et al.   CURRENT BIOLOGY

genBlastA: Enabling BLAST to identify homologous gene sequences

(2008) R. She et al.   GENOME RESEARCH

Molecular cloning and DNA binding characterization of DAF-16 orthologs from Ancylostoma hookworms

(2008) Xin Gao et al.   INTERNATIONAL JOURNAL FOR PARASITOLOGY

The Pristionchus pacificus genome provides a unique perspective on nematode lifestyle and parasitism

(2008) Christoph Dieterich et al.   NATURE GENETICS

Sequence and genetic map of Meloidogyne hapla: A compact nematode genome for plant parasitism

(2008) C. H. Opperman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

On the Extent and Origins of Genic Novelty in the Phylum Nematoda

(2008) James Wasmuth et al.   PLoS Neglected Tropical Diseases