DOI: 10.5061/dryad.6447n78
title: Data from: Genetics of a de novo origin of undifferentiated multicellularity

description: The evolution of multicellularity was a major transition in evolution and
 set the stage for unprecedented increases in complexity, especially in
 land plants and animals. Here we explore the genetics underlying a de novo
 origin of multicellularity in a microbial evolution experiment carried out
 on the green alga Chlamydomonas reinhardtii. We show that large-scale
 changes in gene expression underlie the transition to a multicellular life
 cycle. Among these, changes to genes involved in cell cycle and
 reproductive processes were overrepresented, as were changes to C.
 reinhardtii-specific and volvocine-specific genes. These results suggest
 that the genetic basis for the experimental evolution of multicellularity
 in C. reinhardtii has both lineage-specific and shared features, and that
 the shared features have more in common with C. reinhardtii’s relatives
 among the volvocine algae than with other multicellular green algae or
 land plants.
description: Herron_RNA-Seq_FPKMs_03hFragments Per Kilobase of transcript per Million mapped reads for strains CC-125 and WRC01 at 3 hours post-inoculation in the RNA-Seq experiment.Herron_RNA-Seq_FPKMs_06hFragments Per Kilobase of transcript per Million mapped reads for strains CC-125 and WRC01 at 6 hours post-inoculation in the RNA-Seq experiment.Herron_RNA-Seq_FPKMs_09hFragments Per Kilobase of transcript per Million mapped reads for strains CC-125 and WRC01 at 9 hours post-inoculation in the RNA-Seq experiment.Herron_RNA-Seq_FPKMs_12hFragments Per Kilobase of transcript per Million mapped reads for strains CC-125 and WRC01 at 12 hours post-inoculation in the RNA-Seq experiment.Herron_RNA-Seq_FPKMs_48hFragments Per Kilobase of transcript per Million mapped reads for strains CC-125 and WRC01 at 48 hours post-inoculation in the RNA-Seq experiment.Herron_BSA_unis_variantsVariants detected in the bulked segregant analysis for the unicellular pool. Variant call format file (vcf) produced by freeBayes v0.9.15 (https://github.com/ekg/freebayes). Parameters used in freeBayes and output column contents are described in commented lines in the file.Herron_BSA_multis_variantsVariants detected in the bulked segregant analysis for the multicellular pool. Variant call format file (vcf) produced by freeBayes v0.9.15 (https://github.com/ekg/freebayes). Parameters used in freeBayes and output column contents are described in commented lines in the file.Herron_phylostrata_genomeLists the results of the phylostratigraphy analysis for all genes in the Chlamydomonas reinhardtii reference genome version 5.5.Herron_phylostrata_codePython code used to perform the phylostratigraphy analysis.Herron_RNA-Seq_DiffExp_03hGenes that are significantly differentially expressed at 3 hours post-inoculation.Herron_RNA-Seq_DiffExp_06hGenes that are significantly differentially expressed at 6 hours post-inoculation.Herron_RNA-Seq_DiffExp_09hGenes that are significantly differentially expressed at 9 hours post-inoculation.Herron_RNA-Seq_DiffExp_12hGenes that are significantly differentially expressed at 12 hours post-inoculation.Herron_RNA-Seq_DiffExp_48hGenes that are significantly differentially expressed at 48 hours post-inoculation.Herron_biological_functions_genomeLists biological functions of genes in the Chlamydomonas reinhardtii reference genome v5.5.READMEREADME file describing contents of the other files.