Phylogenomics provides a robust topology of the major cnidarian lineages and insights on the origins of key organismal traits

Universal target-enrichment baits for anthozoan (Cnidaria) phylogenomics: New approaches to long-standing problems

(2017) Andrea M. Quattrini et al.   Molecular Ecology Resources

Three Cambrian fossils assembled into an extinct body plan of cnidarian affinity

(2017) Qiang Ou et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Contentious relationships in phylogenomic studies can be driven by a handful of genes

(2017) Xing-Xing Shen et al.   Nature Ecology & Evolution

Succession of generations is still the general paradigm for scyphozoan life cycles

(2016) André C Morandini et al.   BULLETIN OF MARINE SCIENCE

The Transcriptome of the ZoanthidProtopalythoa variabilis(Cnidaria, Anthozoa) Predicts a Basal Repertoire of Toxin-like and Venom-Auxiliary Polypeptides

(2016) Chen Huang et al.   Genome Biology and Evolution

PartitionFinder 2: New Methods for Selecting Partitioned Models of Evolution for Molecular and Morphological Phylogenetic Analyses

(2016) Robert Lanfear et al.   MOLECULAR BIOLOGY AND EVOLUTION

Monophyly of Anthozoa (Cnidaria): why do nuclear and mitochondrial phylogenies disagree?

(2016) Marine Pratlong et al.   ZOOLOGICA SCRIPTA

Systematics of stalked jellyfishes (Cnidaria: Staurozoa)

(2016) Lucília S. Miranda et al.   PeerJ

Comparative internal anatomy of Staurozoa (Cnidaria), with functional and evolutionary inferences

(2016) Lucília S. Miranda et al.   PeerJ

Evaluation of BLAST-based edge-weighting metrics used for homology inference with the Markov Clustering algorithm

(2015) Theodore R. Gibbons et al.   BMC BIOINFORMATICS

Extracting phylogenetic signal and accounting for bias in whole-genome data sets supports the Ctenophora as sister to remaining Metazoa

(2015) Marek L. Borowiec et al.   BMC GENOMICS

The Road To Cnidaria: History of Phylogeny of the Myxozoa

(2015) Jonathan Foox et al.   JOURNAL OF PARASITOLOGY

Drifting in the oceans: Isarachnanthus nocturnus (Cnidaria, Ceriantharia, Arachnactidae), an anthozoan with an extended planktonic stage

(2015) Sérgio N. Stampar et al.   MARINE BIOLOGY

Genomic insights into the evolutionary origin of Myxozoa within Cnidaria

(2015) E. Sally Chang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Phylogenomic Analyses Support Traditional Relationships within Cnidaria

(2015) Felipe Zapata et al.   PLoS One

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

InterProScan 5: genome-scale protein function classification

(2014) P. Jones et al.   BIOINFORMATICS

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

(2014) Alexandros Stamatakis   BIOINFORMATICS

Efficient de novo assembly of highly heterozygous genomes from whole-genome shotgun short reads

(2014) Rei Kajitani et al.   GENOME RESEARCH

Fast-Evolving Mitochondrial DNA in Ceriantharia: A Reflection of Hexacorallia Paraphyly?

(2014) Sérgio N. Stampar et al.   PLoS One

Hidden among Sea Anemones: The First Comprehensive Phylogenetic Reconstruction of the Order Actiniaria (Cnidaria, Anthozoa, Hexacorallia) Reveals a Novel Group of Hexacorals

(2014) Estefanía Rodríguez et al.   PLoS One

PNAS Plus: From the Cover: Predictable transcriptome evolution in the convergent and complex bioluminescent organs of squid

(2014) M. S. Pankey et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The engine of the reef: photobiology of the coral–algal symbiosis

(2014) Melissa S. Roth   Frontiers in Microbiology

Agalma: an automated phylogenomics workflow

(2013) Casey W Dunn et al.   BMC BIOINFORMATICS

Cnidarian phylogenetic relationships as revealed by mitogenomics

(2013) Ehsan Kayal et al.   BMC EVOLUTIONARY BIOLOGY

PhyloTreePruner: A Phylogenetic Tree-Based Approach for selection of Orthologous sequences for phylogenomics

(2013) Kevin M. Kocot et al.   Evolutionary Bioinformatics

Internal anatomy ofHaliclystus antarcticus(Cnidaria, Staurozoa) with a discussion on histological features used in staurozoan taxonomy

(2013) Lucília S. Miranda et al.   JOURNAL OF MORPHOLOGY

De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis

(2013) Brian J Haas et al.   Nature Protocols

Identifying Hidden Rate Changes in the Evolution of a Binary Morphological Character: The Evolution of Plant Habit in Campanulid Angiosperms

(2013) Jeremy M. Beaulieu et al.   SYSTEMATIC BIOLOGY

PhyloBayes MPI: Phylogenetic Reconstruction with Infinite Mixtures of Profiles in a Parallel Environment

(2013) Nicolas Lartillot et al.   SYSTEMATIC BIOLOGY

Insights into bilaterian evolution from three spiralian genomes

(2012) Oleg Simakov et al.   NATURE

Development and myogenesis of the vermiform Buddenbrockia (Myxozoa) and implications for cnidarian body plan evolution

(2012) Alexander Gruhl et al.   EvoDevo

The ancient evolutionary origins of Scleractinia revealed by azooxanthellate corals

(2011) Jarosław Stolarski et al.   BMC EVOLUTIONARY BIOLOGY

Estimation of divergence times in cnidarian evolution based on mitochondrial protein-coding genes and the fossil record

(2011) Eunji Park et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

REVIGO Summarizes and Visualizes Long Lists of Gene Ontology Terms

(2011) Fran Supek et al.   PLoS One

phytools: an R package for phylogenetic comparative biology (and other things)

(2011) Liam J. Revell   Methods in Ecology and Evolution

Molecular Phylogenetic Insights into the Evolution of Octocorallia: A Review

(2010) C. S. McFadden et al.   INTEGRATIVE AND COMPARATIVE BIOLOGY

Character Evolution in Hydrozoa (phylum Cnidaria)

(2010) Paulyn Cartwright et al.   INTEGRATIVE AND COMPARATIVE BIOLOGY

On the origin and evolution of the lower Metazoa

(2010) Luitfried V. Salvini-Plawen   JOURNAL OF ZOOLOGICAL SYSTEMATICS AND EVOLUTIONARY RESEARCH

Repeated loss of coloniality and symbiosis in scleractinian corals

(2010) M. S. Barbeitos et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Siphonophores

(2009) Casey Dunn   CURRENT BIOLOGY

Phylogenomic analyses support the monophyly of Excavata and resolve relationships among eukaryotic "supergroups"

(2009) V. Hampl et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Molecular Phylogenetics of Thecata (Hydrozoa, Cnidaria) Reveals Long-Term Maintenance of Life History Traits despite High Frequency of Recent Character Changes

(2009) Lucas Leclère et al.   SYSTEMATIC BIOLOGY

Phyutility: a phyloinformatics tool for trees, alignments and molecular data

(2008) S. A. Smith et al.   BIOINFORMATICS

Using native and syntenically mapped cDNA alignments to improve de novo gene finding

(2008) Mario Stanke et al.   BIOINFORMATICS

Phylogenetic placement of the enigmatic parasite, Polypodium hydriforme, within the Phylum Cnidaria

(2008) Nathaniel M Evans et al.   BMC EVOLUTIONARY BIOLOGY

Phylogenetics of Trachylina (Cnidaria: Hydrozoa) with new insights on the evolution of some problematical taxa

(2008) Allen G. Collins et al.   JOURNAL OF THE MARINE BIOLOGICAL ASSOCIATION OF THE UNITED KINGDOM

Phylogenetics of Hydroidolina (Hydrozoa: Cnidaria)

(2008) Paulyn Cartwright et al.   JOURNAL OF THE MARINE BIOLOGICAL ASSOCIATION OF THE UNITED KINGDOM

Broad phylogenomic sampling improves resolution of the animal tree of life

(2008) Casey W. Dunn et al.   NATURE