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)
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Raw data and R code for: Tiina S. Salminen, Laura Vesala, Yuliya Basikhina, Megan Kutzer, Tea Tuomela, Ryan Lucas, Katy Monteith, Arun Prakash, Tilman Tietz and Pedro F. Vale. A naturally occurring mitochondrial genome variant confers broad protection from infection in Drosophila (doi: https://doi.org/10.1101/2024.03.28.587162) Data files: CFU_stats.R: statistics for CFU data Prettgeri_CFU.csv: colony forming units (CFUs) in P. rettgeri-infected flies Saureus_CFU.csv: colony forming units (CFUs) in S. aureus-infected flies gene exp_mitotypes-stats.R: statistics for the qPCR data gene exp_mitotypes.csv: data on the relative gene expression of FucTC, AANATL3, Acp1 and CG3397 among mitotypes copynumber_stats.R: statistics for the copynumber data copynumber.csv: Mitochondrial copy number as copies of the mtDNA target gene 16S relative to nuclear target gene RpL32 respirometry_stats.R: statistics for the respirometry data respirometry.csv: Mitochondrial respiration measured in uninfected male flies by measuring oxygen consumption of the OXPHOS complexes I, III and IV ROS_stats.R: statistics for ROS ROS.csv: hydrogen peroxide (H2O2) quantification (whole flies) wasp_stats.R: Statistics on the proportion of melanised and unmelanised wasp larvae Wasps_data.csv: Data on proportion of melanised (killed) and unmelanised (living) L. boulardi parasitoid wasp larvae found in Drosophila larvae CC_stats.R: statistics on crystal cell counts CC.csv: amount of hemocytes called crystal cell in the larvae HC_stats.R: statistics on hemocyte counts hc_uninf.csv: total and activated hemocyte (blood cell) counts in uninfected larvae hc_inf.csv: total and activated hemocyte (blood cell) counts in infected larvae (48 h after infection by L. boulardi parasitoid wasps) PPO3.R: statistics on PPO3 expression levels PPO3.csv: data on gene expression level of prophenoloxidase (PPO3) MMP.R: statistics on MMP cybridMMP.csv: mitochondrial membrane potential (MMP) measured from larval hemocytes using the TMRM dye CellROX.R: statistics on CellROXTM signal CellROX.csv: Reactive oxygen species (ROS) measured from larval hemocytes using CellROXTM green reagent Hazard.Rmd: hazard ratios Combined.xlsx: data on hazard ratios Hazard ratios of survival post P. rettgeri, S. aureus, Kallithea and DCVinfections Mito_priming.R: Statistics on the effect of priming mito_priming.csv: data on the effect of immune priming with heat-killed bacteria prior to infection hc_stats_supplementary.R: statistics for sex-specific differences in hemocyte counts (data: hc_uninf.csv & hc_inf.csv ) PI_hc_stats.R: statistics on dead (Propidium iodide, PI-positive) vs. living (PI-negative) larval hemocytes (data: hc_uninf.csv & hc_inf.csv ) melanisation_stats.R: statistics on melanisation response melanisation_males.csv: melanisation response in hemolymph
配套原始数据与R代码： 作者：蒂娜·S·萨尔米宁（Tiina S. Salminen）、劳拉·韦萨拉（Laura Vesala）、尤利娅·巴西基娜（Yuliya Basikhina）、梅根·库策尔（Megan Kutzer）、蒂·图梅拉（Tea Tuomela）、瑞安·卢卡斯（Ryan Lucas）、凯蒂·蒙蒂思（Katy Monteith）、阿伦·普拉卡什（Arun Prakash）、蒂尔曼·蒂茨（Tilman Tietz）以及佩德罗·F·瓦莱（Pedro F. Vale）。 研究论文：《一种天然存在的线粒体基因组变异可赋予果蝇广谱抗感染能力》（doi: https://doi.org/10.1101/2024.03.28.587162） 数据文件： CFU统计.R：菌落形成单位（Colony Forming Units, CFU）数据统计脚本 Prettgeri_CFU.csv：雷氏普罗威登斯菌（*P. rettgeri*）感染果蝇后的菌落形成单位（CFU）数据 Saureus_CFU.csv：金黄色葡萄球菌（*S. aureus*）感染果蝇后的菌落形成单位（CFU）数据 gene exp_mitotypes-stats.R：定量聚合酶链反应（Quantitative Polymerase Chain Reaction, qPCR）数据统计脚本 gene exp_mitotypes.csv：不同线粒体型下*FucTC*、*AANATL3*、*Acp1*以及*CG3397*的相对基因表达量数据 copynumber_stats.R：拷贝数数据统计脚本 copynumber.csv：以线粒体DNA（mitochondrial DNA, mtDNA）靶基因16S相对于核靶基因*RpL32*的拷贝数计的线粒体拷贝数数据 respirometry_stats.R：呼吸测定数据统计脚本 respirometry.csv：通过测定未感染雄性果蝇的氧化磷酸化（Oxidative Phosphorylation, OXPHOS）复合物I、III、IV的耗氧量，得到的线粒体呼吸速率数据 ROS_stats.R：活性氧（Reactive Oxygen Species, ROS）数据统计脚本 ROS.csv：整只果蝇的过氧化氢（Hydrogen Peroxide, H₂O₂）定量检测数据 wasp_stats.R：黑化与未黑化寄生蜂幼虫比例统计脚本 Wasps_data.csv：果蝇幼虫体内检出的布氏折唇姬蜂（*L. boulardi*）寄生蜂幼虫黑化（已死亡）与未黑化（存活）的比例数据 CC_stats.R：晶细胞数量统计脚本 CC.csv：果蝇幼虫中被归类为晶细胞的血细胞数量数据 HC_stats.R：血细胞数量统计脚本 hc_uninf.csv：未感染幼虫的总血细胞与活化血细胞数量数据 hc_inf.csv：经布氏折唇姬蜂（*L. boulardi*）寄生感染48小时后的幼虫的总血细胞与活化血细胞数量数据 PPO3.R：酚氧化酶原3（Prophenoloxidase 3, PPO3）表达水平统计脚本 PPO3.csv：酚氧化酶原3（PPO3）的基因表达量数据 MMP.R：线粒体膜电位（Mitochondrial Membrane Potential, MMP）统计脚本 cybridMMP.csv：使用四甲基罗丹明甲酯（Tetramethylrhodamine Methyl Ester, TMRM）染料对幼虫血细胞进行检测得到的线粒体膜电位（MMP）数据 CellROX.R：CellROX™信号统计脚本 CellROX.csv：使用CellROX™绿色试剂对幼虫血细胞进行检测得到的活性氧（ROS）水平数据 Hazard.Rmd：风险比分析文档 Combined.xlsx：雷氏普罗威登斯菌、金黄色葡萄球菌、Kallithea病毒以及DCV病毒感染后的生存风险比数据 Mito_priming.R：免疫预刺激效应统计脚本 mito_priming.csv：感染前使用热灭活细菌进行免疫预刺激的效应数据 hc_stats_supplementary.R：血细胞数量的性别特异性差异分析脚本（配套数据：hc_uninf.csv与hc_inf.csv） PI_hc_stats.R：幼虫血细胞存活状态统计脚本（碘化丙啶（Propidium Iodide, PI）阳性对应死亡细胞，PI阴性对应存活细胞；配套数据：hc_uninf.csv与hc_inf.csv） melanisation_stats.R：黑化反应统计脚本 melanisation_males.csv：雄性果蝇血淋巴的黑化反应数据
