DOI: 10.5061/dryad.j9kd51cj9
title: Data for: A predominant role of genotypic variation in both expression of sperm competition genes and paternity success in Drosophila melanogaster

description: The study focuses on investigating the impact of both environmental and
 genotypic variations on the expression of sperm competition genes and
 relative paternity success (i.e. second male paternity; P2) in Drosophila
 melanogaster. To address this, the research leverages the Drosophila
 Genetic Reference Panel (DGRP) inbred lines and introduces manipulation of
 developmental population density, specifically larval density. This
 experimental design allows for the examination of the effects of genotype,
 environment, and potential genotype-environment interactions (GEI) on the
 expression of seminal fluid genes, namely Sex Peptide, Acp36DE, and CG9997
 and sperm competitiveness. In light of the observed genotypic influence on
 genes' expression, a genome-wide association study (GWAS) was also
 conducted for Sex Peptide and Acp36DE.
description: Data sets are uploaded as text files.
description: Data: A predominant role of genotypic variation in both expression of
 sperm competition genes and paternity success in Drosophila melanogaster
 \*\*\*\*\* Data text file "Patlar\_Civetta\_PaternityData"
 \*\*\*\*\* Column A: Female ID: Individual ID assigned for each individual
 female used in the experiment Column B: FemaleBot: The ID of replicates of
 bottles where virgin females were collected Column C: MaleID: Individual
 ID assigned for each individual male used in the experiment Column D:
 BSCcode: ID assigned to Drosophila Reference Panel Lines by Bloomingtoon
 Stock Center Column E: DGRPcode: ID assigned to Drosophila Reference Panel
 Lines by publisher\*\~ Column F: Replicate: Replicate ID for Block -
 Environment combinations Column G: Block: Block ID for experiment blocks
 Column H: Env: Larval treatment levels as different environments (Low: Low
 larval density, High: High larval density) Column I: seen: The first
 mating activity between couples were observed by watching (y) or not
 observed by watching (n). Column J: secmate: The second mating was watched
 and seen (y) or not seen meaning second mating did not occur (n). Column
 K: Vial1: The number off offspring counted from Vial 1. Column L: gfp2:
 The number of gfp offpsing counted in Vial 2. Column M: nogfp2: The number
 of wild type offpsing conted ion Vial 2. Column N: gfp3: The number of gfp
 offpsing counted in Vial 3. Column O: nogfp3: The number of wild type
 offpsing conted ion Vial 3. Column P: gfp: Total number of gfp offspring
 from Vial 2 and 3. Column Q: nogfp: Total number of wild type offspring
 from Vial 2 and 3. Column R: paternity: The ratio of the number of wild
 type offsping to the total number of wild type and gfp offpsing from Vial
 2 and 3. \*\~ Mackay, T., Richards, S., Stone, E. et al. The Drosophila
 melanogaster Genetic Reference Panel. Nature 482, 173–178 (2012).
 https://doi.org/10.1038/nature10811 \*\*\*\*\* Data text file
 "Patlar\_Civetta\_data\_Acp36de" and
 "Patlar\_Civetta\_data\_SP" \*\*\*\*\* Two text files consist of
 Genome Wide Association Study results (gwas.top.annot) obtained through
 DGRP2 website\~ for gene Acp26DE and Sex Peptide (SP). Column 1:
 "ID" Identification code for variant Column 2:
 "MinorAllele" Allele second most frequently observed Column 3:
 "MajorAllele" Allele most frequently observed Column 4:
 "MAF" Minor allele frequency, i.e. second highest allele
 frequency, from each frequency source Column 5:
 "MinorAlleleCount" Allele count second most frequently observed
 among samples Column 6: "MajorAlleleCount" Allele count first
 most frequently observed among samples Column 7: "SinglePval" p
 values are from simple regression Column 8: "SingleMixedPval" p
 values are from mixed effects model Column 9: "CHR" Chromosomal
 location of variant Column 10: "BP" Sequence position of variant
 Column 11: "null" Variation class/type of variant Column 12:
 "fdr" adjusted p-value based on false discovery rate that is
 used for Manhatton plot \~http://dgrp.gnets.ncsu.edu/