CellCycle Perez-Posada et al., 2019

Supporting information files S1-S19, and Video 1, for the manuscript
Perez-Posada et al. 2020 entitled "'Cell cycle transcriptomics
of Capsaspora provides insights into the evolution of
cyclin-CDK machinery".
We
characterized the periodic transcriptional program of Capsaspora
in two independent cultures (Video 1), retrieving around 800 periodic
genes (Supporting files
S4 and S5). This dataset was further analyzed by comparative genomics
and phylogenies; Supporting file S6 are the significant GeneOntology
enrichments of each cluster of periodic genes. Supporting files
S12 and S13 are cell cycle regulators in human with known periodic
orthologs in Capsaspora; Supporting file S14 is the gene
age enrichment/depletion analysis of Capsaspora
cell cycle gene clusters. Validation
of expression of some genes with qPCR can be found in file S11.

Supporting
File
S8 contains the list of species used in comparative analyses. File S2
contains the human and yeast sequences used as queries to retrieve
MTOC orthologs in Capsaspora and other unicellular holozoans,
and Figure S3 is the list of BLAST matches in Capsapora and
other unicellular holozoans. File S7 contains the fasta
sequences of cyclins and CDKS used in the pylogenetic trees,
with the updated
sequence of the re-annotated Capsaspora CDK1/2/3 also
found in File S10. Files S15 describes the procedure used to retrieve
gene identifiers for periodic genes of human, yeasts and plant
datasets; as well as pipeline parameters to call for periodic genes
in our reanalysis. Files S16 and S17 contain the metrics of shared
periodic orthogroups between pairs of species. Files 18 and 19 show
the GO enriched terms, for each species, of the genes conserved in
the core set of periodic orthogroups, as well as the identity of the
Capsaspora genes belonging to those orthogroups.