Progressive and Biased Divergent Evolution Underpins the Origin and Diversification of Peridinin Dinoflagellate Plastids

Diversity of transcripts and transcript processing forms in plastids of the dinoflagellate alga Karenia mikimotoi

(2016) Richard G. Dorrell et al.   PLANT MOLECULAR BIOLOGY

NanoCAGE-XL and CapFilter: an approach to genome wide identification of high confidence transcription start sites

(2015) Jason S. Cumbie et al.   BMC GENOMICS

A RESTful API for Access to Phylogenetic Tools via the CIPRES Science Gateway

(2015) Mark A. Miller et al.   Evolutionary Bioinformatics

Plastid proteome prediction for diatoms and other algae with secondary plastids of the red lineage

(2015) Ansgar Gruber et al.   PLANT JOURNAL

Integration of plastids with their hosts: Lessons learned from dinoflagellates

(2015) Richard G. Dorrell et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Eukaryotic plankton diversity in the sunlit ocean

(2015) C. de Vargas et al.   SCIENCE

Updating algal evolutionary relationships through plastid genome sequencing: did alveolate plastids emerge through endosymbiosis of an ochrophyte?

(2015) Tereza Ševčíková et al.   Scientific Reports

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

(2014) Alexandros Stamatakis   BIOINFORMATICS

Massive Gene Transfer and Extensive RNA Editing of a Symbiotic Dinoflagellate Plastid Genome

(2014) Sutada Mungpakdee et al.   Genome Biology and Evolution

Brandtodiniumgen. nov. andB. nutriculacomb. Nov. (Dinophyceae), a dinoflagellate commonly found in symbiosis with polycystine radiolarians

(2014) Ian Probert et al.   JOURNAL OF PHYCOLOGY

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

Evolution of Chloroplast Transcript Processing in Plasmodium and Its Chromerid Algal Relatives

(2014) Richard G. Dorrell et al.   PLoS Genetics

Multi-gene analysis ofSymbiodiniumdinoflagellates: a perspective on rarity, symbiosis, and evolution

(2014) Xavier Pochon et al.   PeerJ

The ATP synthase: the understood, the uncertain and the unknown

(2013) John E. Walker   BIOCHEMICAL SOCIETY TRANSACTIONS

Colponemids Represent Multiple Ancient Alveolate Lineages

(2013) Jan Janouškovec et al.   CURRENT BIOLOGY

Split Photosystem Protein, Linear-Mapping Topology, and Growth of Structural Complexity in the Plastid Genome of Chromera velia

(2013) Jan Janouškovec et al.   MOLECULAR BIOLOGY AND EVOLUTION

DAMBE5: A Comprehensive Software Package for Data Analysis in Molecular Biology and Evolution

(2013) Xuhua Xia   MOLECULAR BIOLOGY AND EVOLUTION

Dinoflagellate phylogeny revisited: Using ribosomal proteins to resolve deep branching dinoflagellate clades

(2013) Tsvetan R. Bachvaroff et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Proteomic Amino-Termini Profiling Reveals Targeting Information for Protein Import into Complex Plastids

(2013) Pitter F. Huesgen et al.   PLoS One

The Chloroplast Genome of a Symbiodinium sp. Clade C3 Isolate

(2013) Adrian C. Barbrook et al.   PROTIST

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

(2012) M. Kearse et al.   BIOINFORMATICS

Loss of Nucleosomal DNA Condensation Coincides with Appearance of a Novel Nuclear Protein in Dinoflagellates

(2012) Sebastian G. Gornik et al.   CURRENT BIOLOGY

RY-Coding and Non-Homogeneous Models Can Ameliorate the Maximum-Likelihood Inferences from Nucleotide Sequence Data with Parallel Compositional Heterogeneity

(2012) Sohta A. Ishikawa et al.   Evolutionary Bioinformatics

Polyuridylylation and processing of transcripts from multiple gene minicircles in chloroplasts of the dinoflagellate Amphidinium carterae

(2012) Adrian C. Barbrook et al.   PLANT MOLECULAR BIOLOGY

Functional remodeling of RNA processing in replacement chloroplasts by pathways retained from their predecessors

(2012) R. G. Dorrell et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

An Analysis of Dinoflagellate Metabolism Using EST Data

(2012) Erin R. Butterfield et al.   PROTIST

Multiple microalgal partners in symbiosis with the acantharian Acanthochiasma sp. (Radiolaria)

(2012) Johan Decelle et al.   SYMBIOSIS

MrBayes 3.2: Efficient Bayesian Phylogenetic Inference and Model Choice Across a Large Model Space

(2012) Fredrik Ronquist et al.   SYSTEMATIC BIOLOGY

Changes in marine dinoflagellate and diatom abundance under climate change

(2012) Stephanie L. Hinder et al.   Nature Climate Change

Evidence for Horizontal Gene Transfer from Bacteroidetes Bacteria to Dinoflagellate Minicircles

(2011) Krzysztof Moszczyński et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genomic understanding of dinoflagellates

(2011) Senjie Lin   RESEARCH IN MICROBIOLOGY

A Method for Inferring the Rate of Evolution of Homologous Characters that Can Potentially Improve Phylogenetic Inference, Resolve Deep Divergence and Correct Systematic Biases

(2011) Carla A. Cummins et al.   SYSTEMATIC BIOLOGY

Dinoflagellate Genome Evolution

(2010) Jennifer H. Wisecaver et al.   Annual Review of Microbiology

OCEAN CLIMATE CHANGE, PHYTOPLANKTON COMMUNITY RESPONSES, AND HARMFUL ALGAL BLOOMS: A FORMIDABLE PREDICTIVE CHALLENGE

(2010) Gustaaf M. Hallegraeff   JOURNAL OF PHYCOLOGY

Dynamics of Actin Evolution in Dinoflagellates

(2010) Sunju Kim et al.   MOLECULAR BIOLOGY AND EVOLUTION

The endosymbiotic origin, diversification and fate of plastids

(2010) P. J. Keeling   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Dinoflagellate Phylogeny as Inferred from Heat Shock Protein 90 and Ribosomal Gene Sequences

(2010) Mona Hoppenrath et al.   PLoS One

A common red algal origin of the apicomplexan, dinoflagellate, and heterokont plastids

(2010) J. Janouskovec et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Pelagodinium gen. nov. and P. béii comb. nov., a Dinoflagellate Symbiont of Planktonic Foraminifera

(2010) Raffaele Siano et al.   PROTIST

KaKs_Calculator 2.0: A Toolkit Incorporating Gamma-Series Methods and Sliding Window Strategies

(2010) Dapeng Wang et al.   GENOMICS PROTEOMICS & BIOINFORMATICS

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

(2009) Nicolas Lartillot et al.   BIOINFORMATICS

Substitutional editing of Heterocapsa triquetra chloroplast transcripts and a folding model for its divergent chloroplast 16S rRNA

(2009) Yunkun Dang et al.   GENE

The remarkable chloroplast genome of dinoflagellates

(2008) C. J. Howe et al.   JOURNAL OF EXPERIMENTAL BOTANY

The Phaeodactylum genome reveals the evolutionary history of diatom genomes

(2008) Chris Bowler et al.   NATURE

A photosynthetic alveolate closely related to apicomplexan parasites

(2008) Robert B. Moore et al.   NATURE

The ancestral symbiont sensor kinase CSK links photosynthesis with gene expression in chloroplasts

(2008) S. Puthiyaveetil et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Enhanced photoprotection pathways in symbiotic dinoflagellates of shallow-water corals and other cnidarians

(2008) J. M. Reynolds et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Identification of an alternative translation initiation site for the Pantoea ananatis lycopene cyclase (crtY) gene in E. coli and its evolutionary conservation

(2007) Sung-Woo Kim et al.   PROTEIN EXPRESSION AND PURIFICATION