Periodic oscillations in mitochondrial function under oxidative stress. SOD2 concentrations of 0.0164 mM

The time series are analyzed in detail in Kembro et al. 2018. Mitochondrial chaotic dynamics: Redox-energetic behavior at the edge of stability. Sci. Rep. (in press)<br><br>Oscillatory mitochondrial time series under conditions of oxidative stress. Mitochondrial model used was described in the project overview and in detail (Kembro et al. 2013. Biophys J 104(2):332-343; Kembro et al., 2014. Front Physiol 5:257). <br><b>Analytical methods. </b>Numerical integration of the ME-R model equations was performed with MatCont 2.4 in MATLAB 7.1, until steady-state solutions were obtained (i.e., when the magnitude of each time derivative was -10). Time series with duration of at least 6e⁶ ms were constructed by numerical integration of model equations. To allow transient states to vanish, the system was computed during a time lapse of 2 e⁸ ms. All studies were performed using the parameter setting optimized in our previous work (Kembro et al. 2013. Biophys J 104(2):332-343; Kembro et al., 2014. Front Physiol 5:257), with ADPm = 0.01mM, i.e. consistent with energized mitochondria under state 4 respiration.The two .txt file represents the time reference and the time series of variables output of the model, in order from left to right column: 1) Mitochondrial Ca+;2) Mitochondrial ADP; 3) Membrane potential; 4)Mitocondrial NADH; 5) Mitochondrial H+; 6) Mitochondrial Phosfate, Pi; 7) Isocitrate; 8) a-ketoglutarate; 9) Succinyl CoA; 10) Succinate; 11) Fumarate; 12) Malate; 13) Oxaloacetate; 14) NADPH; 15) Mitochondrial superoxide; 16) Extramitochondrial superoxide; 17) Mitochondrial hydrogen peroxide; 18) Extramitochondrial hydrogen peroxide; 19) Mitochondrial GSH; 20) Extramitochondrial GSH; 21)Mitochondrial GSSG; 22) Mitochondrial TrxSH2; 23) ExtramitochondrialTrxSH; 24)Mitochondrial PSSGm; 25) Extramitochondrial PSSG<br>The parameter settings were:Model-simulated time series were calculated with 0.0164 mM of SOD2, Shunt=0.04, SOD1 9.7 10^-5 mM. External superoxide perturbation: amplitude=1 10^-7 mM, period =30 s.

本时间序列的详细分析见Kembro等人2018年的研究：《线粒体混沌动力学：稳定性边缘的氧化还原能量行为》，发表于《科学报告》（Sci. Rep.，待刊）。

氧化应激条件下的振荡型线粒体时间序列。本研究所用的线粒体模型已在项目概述及Kembro等人2013年《生物物理杂志（Biophys J）》104(2):332-343、2014年《生理学前沿（Front Physiol）》5:257的研究中详细阐述。

**分析方法**：本研究通过MATLAB 7.1环境下的MatCont 2.4工具对ME-R模型（ME-R model）方程进行数值积分，直至获得稳态解（即各时间导数的幅值降至1×10^-10）。通过数值积分模型方程，构建了时长至少为6×10^6毫秒的时间序列。为使瞬态过程完全消散，系统预先运行时长为2×10^8毫秒的计算阶段。所有实验均采用我们前期研究（Kembro et al. 2013. Biophys J 104(2):332-343; Kembro et al., 2014. Front Physiol 5:257）中优化的参数设置，其中ADPM=0.01mM，该参数设置与状态4呼吸过程中的活化线粒体相符。

本数据集包含两个TXT格式的文本文件，分别对应时间基准与模型输出变量的时间序列，各列从左至右依次为：1）线粒体钙离子（Mitochondrial Ca²+）；2）线粒体腺苷二磷酸（Mitochondrial ADP）；3）膜电位；4）线粒体烟酰胺腺嘌呤二核苷酸还原态（Mitochondrial NADH）；5）线粒体氢离子（Mitochondrial H+）；6）线粒体磷酸根（Pi）；7）异柠檬酸；8）α-酮戊二酸；9）琥珀酰辅酶A；10）琥珀酸；11）延胡索酸；12）苹果酸；13）草酰乙酸；14）烟酰胺腺嘌呤二核苷酸磷酸还原态（NADPH）；15）线粒体超氧化物；16）线粒体外超氧化物；17）线粒体过氧化氢；18）线粒体外过氧化氢；19）线粒体谷胱甘肽还原态（Mitochondrial GSH）；20）线粒体外谷胱甘肽还原态（Extramitochondrial GSH）；21）线粒体谷胱甘肽氧化态（Mitochondrial GSSG）；22）线粒体硫氧还蛋白还原态（Mitochondrial TrxSH₂）；23）线粒体外硫氧还蛋白还原态（Extramitochondrial TrxSH）；24）线粒体谷胱甘肽混合二硫化物（Mitochondrial PSSGm）；25）线粒体外谷胱甘肽混合二硫化物（Extramitochondrial PSSG）

本次研究的参数设置如下：模型模拟的时间序列采用0.0164mM的超氧化物歧化酶2（SOD2）、0.04的Shunt值以及9.7×10^-5mM的超氧化物歧化酶1（SOD1）。外部超氧化物扰动参数为：幅值1×10^-7mM，周期30秒。