Back

Mathematical Modeling Of Retinal Degeneration: Aerobic Glycolysis In A Single Cone

Camacho, E.; Dobrovera, A.; Larripa, K.; Radulescu, A.; Schmidt, D.; Trejo, I.

2020-07-07 systems biology
10.1101/2020.07.06.190470 bioRxiv
Show abstract

Cell degeneration, including that resulting in retinal diseases, is linked to metabolic issues. In the retina, photoreceptor degeneration can result from imbalance in lactate production and consumption as well as disturbances to pyruvate and glucose levels. To identify the key mechanisms in metabolism that may be culprits of this degeneration, we use a nonlinear system of differential equations to mathematically model the metabolic pathway of aerobic glycolysis in a healthy cone photoreceptor. This model allows us to analyze the levels of lactate, glucose, and pyruvate within a single cone cell. We perform numerical simulations, use available metabolic data to estimate parameters and fit the model to this data, and conduct a sensitivity analysis using two different methods (LHS/PRCC and eFAST) to identify pathways that have the largest impact on the system. Using bifurcation techniques, we find that the system has a bistable regime, biologically corresponding to a healthy versus a pathological state. The system exhibits a saddle node bifurcation and hysteresis. This work confirms the necessity for the external glucose concentration to sustain the cell even at low initial internal glucose levels. It also validates the role of {beta}-oxidation of fatty acids which fuel oxidative phosphorylation under glucose- and lactate-depleted conditions, by showing that the rate of {beta}-oxidation of ingested outer segment fatty acids in a healthy cone cell must be low. Model simulations reveal the modulating effect of external lactate in bringing the system to steady state; the bigger the difference between external lactate and initial internal lactate concentrations, the longer the system takes to achieve steady state. Parameter estimation for metabolic data demonstrates the importance of rerouting glucose and other intermediate metabolites to produce glycerol 3-phosphate (G3P), thus increasing lipid synthesis (a precursor to fatty acid production) to support their high growth rate. While a number of parameters are found to be significant by one or both of the methods for sensitivity analysis, the rate of {beta}-oxidation of ingested outer segment fatty acids is shown to consistently play an important role in the concentration of glucose, G3P, and pyruvate, whereas the extracellular lactate level is shown to consistently play an important role in the concentration of lactate and acetyl coenzyme A. The ability of these mechanisms to affect key metabolites variability and levels (as revealed in our analyses) signifies the importance of inter-dependent and inter-connected feedback processes modulated by and affecting both the RPEs and cones metabolism.

Matching journals

The top 6 journals account for 50% of the predicted probability mass.

1
Journal of Theoretical Biology
144 papers in training set
Top 0.1%
18.8%
2
PLOS Computational Biology
1633 papers in training set
Top 4%
8.5%
3
Bulletin of Mathematical Biology
84 papers in training set
Top 0.2%
7.2%
4
Mathematical Biosciences
42 papers in training set
Top 0.1%
6.4%
5
PLOS ONE
4510 papers in training set
Top 27%
6.4%
6
Scientific Reports
3102 papers in training set
Top 27%
4.3%
50% of probability mass above
7
Biophysical Journal
545 papers in training set
Top 2%
3.6%
8
Journal of The Royal Society Interface
189 papers in training set
Top 1%
3.6%
9
npj Systems Biology and Applications
99 papers in training set
Top 0.6%
3.3%
10
Proceedings of the Royal Society A: Mathematical, Physical and Engineering Sciences
15 papers in training set
Top 0.2%
3.1%
11
Journal of Computational Neuroscience
23 papers in training set
Top 0.1%
2.4%
12
Royal Society Open Science
193 papers in training set
Top 2%
1.9%
13
Chaos, Solitons & Fractals
32 papers in training set
Top 0.9%
1.9%
14
Frontiers in Physiology
93 papers in training set
Top 3%
1.5%
15
Frontiers in Aging Neuroscience
67 papers in training set
Top 2%
1.5%
16
Biosystems
18 papers in training set
Top 0.2%
1.3%
17
Physical Biology
43 papers in training set
Top 1%
1.3%
18
Physical Review E
95 papers in training set
Top 0.9%
1.2%
19
iScience
1063 papers in training set
Top 24%
1.0%
20
The Journal of Physical Chemistry B
158 papers in training set
Top 2%
0.9%
21
BioSystems
11 papers in training set
Top 0.3%
0.8%
22
Frontiers in Molecular Biosciences
100 papers in training set
Top 5%
0.8%
23
Frontiers in Computational Neuroscience
53 papers in training set
Top 2%
0.8%
24
Journal of Clinical Medicine
91 papers in training set
Top 6%
0.8%
25
Frontiers in Neuroscience
223 papers in training set
Top 8%
0.7%
26
Molecular Biology of the Cell
272 papers in training set
Top 3%
0.6%
27
Computational and Structural Biotechnology Journal
216 papers in training set
Top 12%
0.5%
28
Journal of Mathematical Biology
37 papers in training set
Top 0.4%
0.5%
29
The Journal of Chemical Physics
49 papers in training set
Top 0.6%
0.5%