Glial cell-specific proteomic data from the substantia nigra of a rat 6-OHDA and fluorocitrate model of astrocyte death and microglial activation.

The dataset shows proteomic results (timsTOF Pro 2 (Bruker)) obtained using an originally developed method of adult rat brain isolation of astrocytes or microglia from the same sample. Mechano-enzymatic dissociation and FACS sorting retrieved pure, separate cellular fractions from the substantia nigra. Results come from an animal model of early Parkinson's disease of selective nigrostriatal dopaminergic system neuron degeneration by 6-OHDA, combined with 7-day-long astrocyte dysfunction and death induced by fluorocitrate. Astrocyte and neuron death both induce microglial activation, but to varying degrees and through different mechanisms. Previous studies did not allow for assigning changes in common mechanisms (such as, for example, energy metabolism) to a specific cell type in tissue, while in vitro studies lack functional dimension. This research enables the identification of clear information on mechanisms within each cell type, originating from a multidimensional environment, while maintaining the functional and tissue-specific context. Comparison of astrocyte death-induced vs neuron death-induced microglia activation processes can be analysed using this dataset. Raw data are available via ProteomeXchange with identifiers PXD066353 and PXD067265.