P3‐035: Transcriptome‐to‐reactome biosimulation: Basal forebrain cholinergic neuron neurotrophin signaling

Neurotrophin signaling of cholinergic basal forebrain (CBF) neurons is critical for survival and plasticity. Microaspiration of identified CBF neurons from postmortem human brain revealed a shift in balance of neurotrophin receptors toward cell death pathways during the progression of Alzheimer's disease (AD). In this study, transcriptomic data from mouse basal forebrain cholinergic neurons (BFCNs; NCBI GEO GSE13379) were used to derive parameters for a deterministic kinetic model of the nerve growth factor (NGF) signaling pathway from Reactome, with TrkB receptor mechanisms added. This method is called Transcriptome-To-Reactome (TTR)™. The biosimulation was performed using COPASI software and included 11 compartments, 435 species, and 263 reactions; 245 genes were used to determine initial values of species and kinetic values of reactions. The mouse BFCN model was considered baseline and a biosimulation was run with two doses of NGF, 500 μ M and 10 mM, delivered as a bolus and for a 10 and 240 second duration, respectively. This approach tested selectively for p75 NTR and TrkA receptor mediated mechanisms. A second biosimulation test used a combination of 25 μM brain derived neurotrophic factor (BDNF) and 10 μ M NGF as a continuous exposure for 60 min duration; this approach evaluated stimulation of p75 NTR, TrkA, and TrkB. Based on the human microarray results demonstrating downregulation of TrkA (50%) and TrkB (60%), the corresponding parameters in the TTR biosimulation were decreased by the same amount. Baseline results were validated from published literature on neuronal calcium levels mediated via the phospholipase C-γ and inositol-3-phosphate pathway at both bolus doses of NGF alone. With the corresponding parameters decreased in the TTR biosimulation, Figure 1: A) The reaction flux for c-RAF1 phosphorylation of MEK1 was delayed to peak value by 1.5 min from exposure, but the peak value was increased to 5 times the baseline value; B) Moreover, a slight shift to the right of the flux over time was observed with the B-RAF phosphorylation of MEK1.