Investigation of heterotrophs reveals new insights in dinoflagellate evolution

Dinoflagellates are diverse and ecologically important protists characterized by many morphological and molecular traits that set them apart from other eukaryotes. These features include, but are not limited to, massive genomes organized using bacterially-derived histone-like proteins (HLPs) and dinoflagellate viral nucleoproteins (DVNP) rather than histones, and a complex history of photobiology with many independent losses of photosynthesis, numerous cases of serial secondary and tertiary plastid gains, and the presence of horizontally acquired bacterial rhodopsins and type II RuBisCo. Elucidating how this all evolved depends on knowing the phylogenetic relationships between dinoflagellate lineages. Half of these species are heterotrophic, but existing molecular data is strongly biased toward the photosynthetic dinoflagellates due to their amenability to cultivation and prevalence in culture collections. These biases make it impossible to interpret the evolution of photosynthesis, but..., , , # Investigation of heterotrophs reveals new insights in dinoflagellate evolution

[https://doi.org/10.5061/dryad.x95x69prq](https://doi.org/10.5061/dryad.x95x69prq)

Dryad-stored material consists of:

A zipped folder containing all peptide single cell transcriptome assemblies:

     peptide_transcriptome_assemblies.zip

A zipped folder containing *.contree files that can be viewed in FigTree v.1.4.4 (free download at https://github.com/rambaut/figtree/releases):

     gene_collections_and_trees.zip

A zipped excel file of plastid targeting extensions on isoprenoid transcripts, and spliced leader sequences in Dinophysis acuminata:

     supplementary_spreadsheet.zip

A zipped fasta file of the concatenated alignment used to make the multi-protein phylogeny:

     concatenated_multiprotein_alignment.fasta.zip

A zipped folder containing videos of all cells:

     videos.zip

## Description of the data and file structure

Peptide assemblies of all transcriptomes have been made availabl...