ReadMe for Population transcriptomics in Daphnia: the role of thermal selection Maike Herrmann, Suda Parimala Ravindran, Klaus Schwenk and Mathilde Cordellier 2017-10-18 This readme file describes the data files and supplementary files accompanying the above publication. For any further queries please contact m.herrmann@ozayr.com The following files are included: 1) "SI_1.xlsx" Table S1: List of references providing temperature-relevant reference candidate genes in arthropods. Table S2: Reference candidate gene IDs or gene product IDs. Table S3: Number of variants per sample before and after SNP filtering. Table S4: Number of variant sites per transcript. Table S5: Transition/Transversion (Ts/Tv) ratio values calculated for each sample. Table S6: Nucleotide diversity (p) calculated for each site within population. Table S7: Homozygous/Heterozygous ratio calculated per variant site. Table S8: Allele frequency values calculated for each allele in the variant site. 2) "SI_2.xlsx" Table S9: Overview of sequencing and mapping results for the 24 clonal lines Table S10: Raw read counts used as an input for the differential expression analysis Table S11: Result of the pairwise contrast analysis conducted in DESeq2, column headers for each pairwise comparison. baseMean: the base mean over all rows, log2FoldChange: log2 fold change between samples, lfcSE: standard error, stat: Wald statistic, pvalue: Wald test pvalue, padj: Wald test p-value after Benjamini-Hochberg correction. 3) "SI_3.xlsx" Table S12: Overview OrthoMCL orthogroup assignment. Table S13: List of CGT orthogroups and reference candidate genes. Table S14: List of GO terms corresponding to outliers, highly divergent and distinctively expressed CGTs. Table S15: Gene ontology terms (biological process) associated to distinctively expressed candidate gene transcripts (DE). Table S16: Gene ontology terms (cellular component) associated to distinctively expressed candidate gene transcripts (DE). Table S17: Overview of transcripts and orthogroups shared among datasets. Table S18: Results of Mood's median tests. Table S19: ‘heme-’ or ‘hemoglobin’ associated CGTs. 4) "SI_4.fasta" fasta file containing amino acid sequence translations of D. galeata transcripts and the reference candidate genes 5) "Fig_S1.png" Figure S1: sample to sample distances heat map created with DESeq2, based on read counts after regularized-logarithm transformation. Each row/column corresponds to a single biological replicate.