从系统角度剖析婴儿利什曼原虫的能量代谢
Dissecting Leishmania infantum Energy Metabolism - A Systems Perspective.
作者信息
Subramanian Abhishek, Jhawar Jitesh, Sarkar Ram Rup
机构信息
Chemical Engineering and Process Development, CSIR-National Chemical Laboratory, Pune, Maharashtra, India; Academy of Scientific & Innovative Research (AcSIR), CSIR-NCL Campus, Pune, India.
Chemical Engineering and Process Development, CSIR-National Chemical Laboratory, Pune, Maharashtra, India.
出版信息
PLoS One. 2015 Sep 14;10(9):e0137976. doi: 10.1371/journal.pone.0137976. eCollection 2015.
Leishmania infantum, causative agent of visceral leishmaniasis in humans, illustrates a complex lifecycle pertaining to two extreme environments, namely, the gut of the sandfly vector and human macrophages. Leishmania is capable of dynamically adapting and tactically switching between these critically hostile situations. The possible metabolic routes ventured by the parasite to achieve this exceptional adaptation to its varying environments are still poorly understood. In this study, we present an extensively reconstructed energy metabolism network of Leishmania infantum as an attempt to identify certain strategic metabolic routes preferred by the parasite to optimize its survival in such dynamic environments. The reconstructed network consists of 142 genes encoding for enzymes performing 237 reactions distributed across five distinct model compartments. We annotated the subcellular locations of different enzymes and their reactions on the basis of strong literature evidence and sequence-based detection of cellular localization signal within a protein sequence. To explore the diverse features of parasite metabolism the metabolic network was implemented and analyzed as a constraint-based model. Using a systems-based approach, we also put forth an extensive set of lethal reaction knockouts; some of which were validated using published data on Leishmania species. Performing a robustness analysis, the model was rigorously validated and tested for the secretion of overflow metabolites specific to Leishmania under varying extracellular oxygen uptake rate. Further, the fate of important non-essential amino acids in L. infantum metabolism was investigated. Stage-specific scenarios of L. infantum energy metabolism were incorporated in the model and key metabolic differences were outlined. Analysis of the model revealed the essentiality of glucose uptake, succinate fermentation, glutamate biosynthesis and an active TCA cycle as driving forces for parasite energy metabolism and its optimal growth. Finally, through our in silico knockout analysis, we could identify possible therapeutic targets that provide experimentally testable hypotheses.
婴儿利什曼原虫是人类内脏利什曼病的病原体,它展现出与两个极端环境相关的复杂生命周期,这两个极端环境分别是白蛉媒介的肠道和人类巨噬细胞。利什曼原虫能够在这些极具敌意的环境之间动态适应并策略性地切换。寄生虫为实现对其变化环境的这种特殊适应而采用的可能代谢途径仍知之甚少。在本研究中,我们展示了一个经过广泛重建的婴儿利什曼原虫能量代谢网络,旨在识别该寄生虫为在这种动态环境中优化其生存而偏好的某些关键代谢途径。重建的网络由142个编码酶的基因组成,这些酶执行分布在五个不同模型区室中的237个反应。我们基于有力的文献证据以及蛋白质序列中基于序列的细胞定位信号检测,注释了不同酶及其反应的亚细胞位置。为了探索寄生虫代谢的多样特征,该代谢网络被作为基于约束的模型来实施和分析。使用基于系统的方法,我们还提出了一组广泛的致死反应敲除;其中一些已根据已发表的关于利什曼原虫物种的数据进行了验证。通过进行稳健性分析,该模型针对不同细胞外氧摄取率下利什曼原虫特有的溢流代谢物分泌进行了严格验证和测试。此外,还研究了婴儿利什曼原虫代谢中重要的非必需氨基酸的去向。婴儿利什曼原虫能量代谢的阶段特异性情况被纳入模型,并概述了关键的代谢差异。对该模型的分析揭示了葡萄糖摄取、琥珀酸发酵、谷氨酸生物合成以及活跃的三羧酸循环作为寄生虫能量代谢及其最佳生长驱动力的必要性。最后,通过我们的计算机敲除分析,我们能够识别出可能的治疗靶点,这些靶点提供了可通过实验检验的假设。
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