Data and code for: A naturally occurring mitochondrial genome variant confers broad protection from infection in Drosophila (doi: https://doi.org/10.1101/2024.03.28.587162)

<p><strong>&nbsp;</strong>Raw data and R code for:</p> <p>Tiina S. Salminen, Laura Vesala, &nbsp;Yuliya Basikhina, Megan Kutzer, Tea Tuomela, Ryan Lucas, Katy Monteith, Arun Prakash, Tilman Tietzand Pedro F. Vale.&nbsp;A naturally occurring mitochondrial genome variant confers broad protection from infection in <em>Drosophila &nbsp;</em>(<strong>doi:</strong>&nbsp;https://doi.org/10.1101/2024.03.28.587162)</p> <p><em>&nbsp;</em></p> <p><strong>Data files:</strong></p> <p>CFU_stats.R: statistics for CFU data</p> <p>Prettgeri_CFU.csv: colony forming units (CFUs) in <em>P. rettgeri</em>-infected flies</p> <p>Saureus_CFU.csv: colony forming units (CFUs) in <em>S. aureus</em>-infected flies</p> <p>&nbsp;</p> <p>gene exp_mitotypes-stats.R: statistics for the qPCR data</p> <p>gene exp_mitotypes.csv: data on the relative gene expression of&nbsp;<em>FucTC</em>, <em>AANATL3</em>, <em>Acp1</em> and <em>CG3397</em> among mitotypes</p> <p>&nbsp;</p> <p>copynumber_stats.R: statistics for the copynumber data</p> <p>copynumber.csv: Mitochondrial copy number as copies of the mtDNA target gene <em>16S</em> relative to nuclear target gene <em>RpL32 </em></p> <p>&nbsp;</p> <p>respirometry_stats.R: statistics for the respirometry data</p> <p>respirometry.csv: Mitochondrial respiration measured in uninfected male flies by measuring oxygen consumption of the OXPHOS complexes I, III and IV</p> <p>&nbsp;</p> <p>ROS_stats.R: statistics for ROS</p> <p>ROS.csv: hydrogen peroxide (H₂O₂) quantification (whole flies)</p> <p>&nbsp;</p> <p>wasp_stats.R: Statistics on the proportion of melanised and unmelanised wasp larvae</p> <p>Wasps_data.csv: Data on proportion of melanised (killed) and unmelanised (living) <em>L. boulardi</em> parasitoid wasp larvae found in <em>Drosophila</em> larvae</p> <p>&nbsp;</p> <p>CC_stats.R: statistics on crystal cell counts</p> <p>CC.csv: amount of hemocytes called crystal cell in the larvae</p> <p>&nbsp;</p> <p>HC_stats.R: statistics on hemocyte counts</p> <p>hc_uninf.csv: total and activated hemocyte (blood cell) counts in uninfected larvae</p> <p>hc_inf.csv: total and activated hemocyte (blood cell) counts in infected larvae (48 h after infection by <em>L. boulardi</em> parasitoid wasps)</p> <p>&nbsp;</p> <p>PPO3.R: statistics on PPO3 expression levels</p> <p>PPO3.csv: data on gene expression level of prophenoloxidase (PPO3)</p> <p>&nbsp;</p> <p>MMP.R: statistics on MMP</p> <p>cybridMMP.csv: mitochondrial membrane potential (MMP) measured from larval hemocytes using the TMRM dye</p> <p>&nbsp;</p> <p>CellROX.R: statistics on CellROX^TMsignal</p> <p>CellROX.csv: Reactive oxygen species (ROS) measured from larval hemocytes using CellROX^TM green reagent</p> <p>&nbsp;</p> <p>Hazard.Rmd: hazard ratios</p> <p>Combined.xlsx: data on hazard ratios Hazard ratios of survival post&nbsp;<em>P. rettgeri, S. aureus, </em>Kallithea and DCVinfections</p> <p>&nbsp;</p> <p>Mito_priming.R: Statistics on the effect of priming</p> <p>mito_priming.csv: data on the effect of immune priming with heat-killed bacteria prior to infection</p> <p>&nbsp;</p> <p>hc_stats_supplementary.R: statistics for sex-specific differences in hemocyte counts (data: hc_uninf.csv &amp; hc_inf.csv )</p> <p>PI_hc_stats.R: statistics on dead (Propidium iodide, PI-positive) vs. living (PI-negative) larval hemocytes (data: hc_uninf.csv &amp; hc_inf.csv )</p> <p>&nbsp;</p> <p>melanisation_stats.R: statistics on melanisation response</p> <p>melanisation_males.csv: melanisation response in hemolymph</p> <p>&nbsp;</p> <p>&nbsp;</p> <p>&nbsp;</p> <p>&nbsp;</p> <p>&nbsp;</p> <p>&nbsp;</p>