New phylogenomic data support the monophyly of Lophophorata and an Ectoproct-Phoronid clade and indicate that Polyzoa and Kryptrochozoa are caused by systematic bias

The Impact of Paralogy on Phylogenomic Studies – A Case Study on Annelid Relationships

(2013) Torsten H. Struck   PLoS One

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

(2013) Nicolas Lartillot et al.   SYSTEMATIC BIOLOGY

Development of the nervous system in Phoronopsis harmeri (Lophotrochozoa, Phoronida) reveals both deuterostome- and trochozoan-like features

(2012) Elena Temereva et al.   BMC EVOLUTIONARY BIOLOGY

Impact of Missing Data on Phylogenies Inferred from Empirical Phylogenomic Data Sets

(2012) Béatrice Roure et al.   MOLECULAR BIOLOGY AND EVOLUTION

The complete mitochondrial genome of Flustra foliacea (Ectoprocta, Cheilostomata) - compositional bias affects phylogenetic analyses of lophotrochozoan relationships

(2011) Maximilian P Nesnidal et al.   BMC GENOMICS

Molecular paleobiological insights into the origin of the Brachiopoda

(2011) Erik A. Sperling et al.   EVOLUTION & DEVELOPMENT

Myoanatomy and serotonergic nervous system of plumatellid and fredericellid phylactolaemata (lophotrochozoa, ectoprocta)

(2011) Thomas Schwaha et al.   JOURNAL OF MORPHOLOGY

Complete mitochondrial genome of Tubulipora flabellaris (Bryozoa: Stenolaemata): The first representative from the class Stenolaemata with unique gene order

(2011) Ming'an Sun et al.   Marine Genomics

A Consistent Phylogenetic Backbone for the Fungi

(2011) I. Ebersberger et al.   MOLECULAR BIOLOGY AND EVOLUTION

MEGA5: Molecular Evolutionary Genetics Analysis Using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods

(2011) K. Tamura et al.   MOLECULAR BIOLOGY AND EVOLUTION

Radical instability and spurious branch support by likelihood when applied to matrices with non-random distributions of missing data

(2011) Mark P. Simmons   MOLECULAR PHYLOGENETICS AND EVOLUTION

A molecular phylogeny of bryozoans

(2011) Andrea Waeschenbach et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Resolving Difficult Phylogenetic Questions: Why More Sequences Are Not Enough

(2011) Hervé Philippe et al.   PLOS BIOLOGY

Neuromuscular development inNovocrania anomala: evidence for the presence of serotonin and a spiralian-like apical organ in lecithotrophic brachiopod larvae

(2010) Andreas Altenburger et al.   EVOLUTION & DEVELOPMENT

Parametric and non-parametric masking of randomness in sequence alignments can be improved and leads to better resolved trees

(2010) Patrick Kück et al.   Frontiers in Zoology

A Twist in Time--The Evolution of Spiral Cleavage in the Light of Animal Phylogeny

(2010) A. Hejnol   INTEGRATIVE AND COMPARATIVE BIOLOGY

How Many Bootstrap Replicates Are Necessary?

(2010) Nicholas D. Pattengale et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Compositional Heterogeneity and Phylogenomic Inference of Metazoan Relationships

(2010) M. P. Nesnidal et al.   MOLECULAR BIOLOGY AND EVOLUTION

Phylogenetic relationships within the lophophorate lineages (Ectoprocta, Brachiopoda and Phoronida)

(2010) Bernhard Hausdorf et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

HaMStR: Profile hidden markov model based search for orthologs in ESTs

(2009) Ingo Ebersberger et al.   BMC EVOLUTIONARY BIOLOGY

Complete mitochondrial genome of Bugula neritina (Bryozoa, Gymnolaemata, Cheilostomata): phylogenetic position of Bryozoa and phylogeny of lophophorates within the Lophotrochozoa

(2009) Kuem Jang et al.   BMC GENOMICS

The complete mitochondrial genome of Watersipora subtorquata (Bryozoa, Gymnolaemata, Ctenostomata) with phylogenetic consideration of Bryozoa

(2009) Ming'an Sun et al.   GENE

Bilaterian Phylogeny: A Broad Sampling of 13 Nuclear Genes Provides a New Lophotrochozoa Phylogeny and Supports a Paraphyletic Basal Acoelomorpha

(2009) J. Paps et al.   MOLECULAR BIOLOGY AND EVOLUTION

Support for the monophyletic origin of Gnathifera from phylogenomics

(2009) Alexander Witek et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Nearly complete rRNA genes assembled from across the metazoan animals: Effects of more taxa, a structure-based alignment, and paired-sites evolutionary models on phylogeny reconstruction

(2009) Jon Mallatt et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

A Monte Carlo Approach Successfully Identifies Randomness in Multiple Sequence Alignments : A More Objective Means of Data Exclusion

(2009) Bernhard Misof et al.   SYSTEMATIC BIOLOGY

The Effect of Ambiguous Data on Phylogenetic Estimates Obtained by Maximum Likelihood and Bayesian Inference

(2009) Alan R. Lemmon et al.   SYSTEMATIC BIOLOGY

EST based phylogenomics of Syndermata questions monophyly of Eurotatoria

(2008) Alexander Witek et al.   BMC EVOLUTIONARY BIOLOGY

Recent developments in the MAFFT multiple sequence alignment program

(2008) K. Katoh et al.   BRIEFINGS IN BIOINFORMATICS

Phylogenetic Position of Nemertea Derived from Phylogenomic Data

(2008) T. H. Struck et al.   MOLECULAR BIOLOGY AND EVOLUTION

An Improved General Amino Acid Replacement Matrix

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

Broad phylogenomic sampling improves resolution of the animal tree of life

(2008) Casey W. Dunn et al.   NATURE

A Rapid Bootstrap Algorithm for the RAxML Web Servers

(2008) Alexandros Stamatakis et al.   SYSTEMATIC BIOLOGY

Multigene analysis of lophophorate and chaetognath phylogenetic relationships

(2007) Martin Helmkampf et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION