DOI: 10.25387/g3.28528646.v1
title: Supplemental Material for Kriete and Scott, 2025

description: <strong>S3 Data.xlsx.</strong> This .xlsx file contains 32 tabs, consisting of transcriptome sample metadata, read mapping statistics, raw and normalized read counts, lists of differentially expressed genes (DEGs) for each experimental group, and lists of enriched Gene Ontology (GO) terms associated with the DEGs in each experimental group.

 <strong>RNAseq statistics</strong>: Lists the number of reads mapped to different types of transcripts overall and, for each sample, the number and percentage of reads uniquely mapped to the genome.
 <strong>Metadata:</strong> This tab contains the transcriptome sample metadata, formatted for importation into R.
 <strong>Raw read counts:</strong> This tab displays the raw read counts for each transcriptome sample.
 <strong>Normalized (DESeq2) read counts</strong>: This tab displays the normalized (via DESeq2) read counts for each sample.
 <strong>DEGs G3 DOX L:</strong> This tab displays the DEGs identified in G3 DOX larvae samples relative to the control group of G3 H2O larvae samples. Genes are annotated using names from the Ensembl genome database for L. cuprina (https://biit.cs.ut.ee/gprofiler/convert). Genes are ordered by log2 fold change (lowest to highest). Only statistically significant genes are displayed (adjusted p-value &lt; 0.05). Genes with low read counts (&lt;5 in majority of samples) were excluded.
 <strong>DEGs G3 ATC L:</strong> This tab displays the DEGs identified in G3 ATC larvae samples relative to the control group of G3 H2O larvae samples. 
 <strong>DEGs G4 DOX L:</strong> This tab displays the DEGs identified in G4 DOX larvae samples relative to the control group of G4 H2O larvae samples. 
 <strong>DEGs G4 ATC L:</strong> This tab displays the DEGs identified in G4 ATC larvae samples relative to the control group of G4 H2O larvae samples. 
 <strong>DEGs G3 DOX AM:</strong> This tab displays the DEGs identified in G3 DOX adult male samples relative to the control group of G3 H2O adult male samples. 
 <strong>DEGs G3 ATC AM:</strong> This tab displays the DEGs identified in G3 ATC adult male samples relative to the control group of G3 H2O adult male samples. 
 <strong>DEGs G4 DOX AM:</strong> This tab displays the DEGs identified in G4 DOX adult male samples relative to the control group of G4 H2O adult male samples. 
 <strong>DEGs G4 ATC AM:</strong> This tab displays the DEGs identified in G4 ATC adult male samples relative to the control group of G4 H2O adult male samples. 
 <strong>DEGs G3 DOX AF:</strong> This tab displays the DEGs identified in G3 DOX adult female samples relative to the control group of G3 H2O adult female samples. 
 <strong>DEGs G3 ATC AF:</strong> This tab displays the DEGs identified in G3 ATC adult female samples relative to the control group of G3 H2O adult female samples. 
 <strong>DEGs G4 DOX AF:</strong> This tab displays the DEGs identified in G4 DOX adult female samples relative to the control group of G4 H2O adult female samples. 
 <strong>DEGs G4 ATC AF:</strong> This tab displays the DEGs identified in G4 ATC adult female samples relative to the control group of G4 H2O adult female samples. 
 <strong>Enriched GO terms G3 DOX L</strong>: This tab displays the enriched GO terms associated with the DEGs in G3 DOX larvae samples relative to the control group of G3 H2O larvae samples. Enriched GO terms are ordered by adjusted p-value (lowest to highest). Only significantly enriched terms are displayed (adjusted p-value &lt; 0.05, Benjamini-Hochberg correction for multiple comparisons).        
 <strong>Enriched GO terms G3 ATC L</strong>: This tab displays the enriched GO terms associated with the DEGs in G3 ATC larvae samples relative to the control group of G3 H2O larvae samples. 
 <strong>Enriched GO terms G4 DOX L</strong>: This tab displays the enriched GO terms associated with the DEGs in G4 DOX larvae samples relative to the control group of G4 H2O larvae samples.     
 <strong>Enriched GO terms G4 ATC L</strong>: This tab displays the enriched GO terms associated with the DEGs in G4 ATC larvae samples relative to the control group of G4 H2O larvae samples.     
 <strong>Enriched GO terms G3 DOX AM</strong>: This tab displays the enriched GO terms associated with the DEGs in G3 DOX adult male samples relative to the control group of G3 H2O adult male samples. 
 <strong>Enriched GO terms G3 ATC AM</strong>: This tab displays the enriched GO terms associated with the DEGs in G3 ATC adult male samples relative to the control group of G3 H2O adult male samples. 
 <strong>Enriched GO terms G3 DOX AF</strong>: This tab displays the enriched GO terms associated with the DEGs in G3 DOX adult female samples relative to the control group of G3 H2O adult female samples.  
 <strong>Enriched GO terms G3 ATC AF</strong>: This tab displays the enriched GO terms associated with the DEGs in G3 ATC adult female samples relative to the control group of G3 H2O adult female samples.   
 <strong>Enriched GO terms G4 DOX AM</strong>: This tab displays the enriched GO terms associated with the DEGs in G4 DOX adult male samples relative to the control group of G4 H2O adult male samples. 
 <strong>Enriched GO terms G4 ATC AM</strong>: This tab displays the enriched GO terms associated with the DEGs in G4 ATC adult male samples relative to the control group of G4 H2O adult male samples. 
 <strong>Enriched GO terms G4 DOX AF</strong>: This tab displays the enriched GO terms associated with the DEGs in G4 DOX adult female samples relative to the control group of G4 H2O adult female samples.    
 <strong>Enriched GO terms G4 ATC AF</strong>: This tab displays the enriched GO terms associated with the DEGs in G4 ATC adult female samples relative to the control group of G4 H2O adult female samples.    
 <strong>Enriched GO terms upreg DOX G3 L</strong>: This tab displays the enriched GO terms associated with the set of upregulated DEGs in G3 DOX larvae samples relative to the control group of G3 H2O larvae samples. 
 <strong>Enriched GO terms downreg DOX G3 L</strong>: This tab displays the enriched GO terms associated with the set of downregulated DEGs in G3 DOX larvae samples relative to the control group of G3 H2O larvae samples. 
 <strong>Enriched GO terms upreg ATC G3 L</strong>: This tab displays the enriched GO terms associated with the set of upregulated DEGs in G3 ATC larvae samples relative to the control group of G3 H2O larvae samples. 
 <strong>Enriched GO terms downreg ATC G3 L</strong>: This tab displays the enriched GO terms associated with the set of downregulated DEGs in G3 ATC larvae samples relative to the control group of G3 H2O larvae samples.