Simulating Growth Kinetics in a Data-Parallel 3D Lattice Photobioreactor

Table 1

Parameter settings and their descriptions. Values are held constant unless noted otherwise.

Parameter name	Value	Description
Temperature	0.4	Constant temperature for metropolis probability calculations
Gravity	0.1	A weak gravitational bias on the metropolis probability
Growth rate scale	0.3	This value is used to scale the aggregate transition counts from activated to resting states, in order to determine cell division probability
Bubble creation probability	0.0001	Probability of creating a bubble at the sparger
Bubble movement probability	0.5	Probability that a bubble moves upward or laterally
Illumination 𝛾	0.5	Scaling of illumination 𝐼, where 0≤𝐼≤1
Illumination 𝛽	5.0	Exponent of photoattenuation into the medium. Higher values attenuate light faster and cause less light to penetrate toward the centre of the vessel
𝛼	0.8	Probability that a cell transitions from resting state to activated state
𝛽	0.7	Probability that a cell transitions from activated state to inhibited state
𝛾	0.1	Probability that a cell transitions from activated state to resting state
𝛿	0.01	Probability that a cell transitions from inhibited state to resting state
Cell Death probability	0.001	Probability coefficient applied to 𝐼 and 1−𝐼 to determine whether to destroy a cell (used for including biomass reduction at over- and underillumination)