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Table 1 Model parameters and variable definitions

From: Phage-induced diversification improves host evolvability

Symbol

Description

Value

Unit

R

Resource concentration

Variable

μg m l −1

N i

Density of host strain i

Variable

cells m l −1

V i

Density of virus strain i

Variable

virions m l −1

N init

Initial host density

4.6×104

cells m l −1

V init

Initial virus density

8.1×105

virions m l −1

ω

Chemostat dilution rate

0.0033

mi n −1

R 0

Resource supply concentration

2.2

μg m l −1

ε

Resource conversion rate

2.6×10−6

μg cel l −1

γ

Maximum resource uptake rate

0.0123

μg mi n −1

K

Half-saturation constant

4

μg m l −1

δ i

Growth scaling for host h i

Range [δ min ,δ max ]

scalar

δ min

Min. growth scaling factor

0.8

scalar

δ max

Max. growth scaling factor

1.2

scalar

ϕ

Maximum adsorption rate

0.104×10−8

ml(min cell)−1

θ ij

Ads. scaling for v j on h i

Range [0,ϕ]

scalar

β

Burst size

71

virions

h i

Genotype of bacteria i

Range [0,1]

scalar

v j

Genotype of phage j

Range [0,1]

scalar

ĥ i

Resistance phenotype of bacteria i

Range [0,1]

scalar

v ̂ j

Infection phenotype of phage j

Range [0,1]

scalar

h init

Initial bacteria genotype

0.2

scalar

v init

Initial phage genotype

0.2

scalar

s

Specificity of phage

100

scalar

M B

Host mutation rate

10−6

cel l −1

M V

Virus mutation rate

10−6

virio n −1

σ B

Std. dev. of host mut. range

0.01

scalar

σ V

Std. dev. of virus mut. range

0.01

scalar

μ B

Bacterial mutation size

Random variable

scalar

μ V

Phage mutation size

Random variable

scalar

Δt

Integration timestep

10

min

T

Simulation duration

20×106

min

ρ

Resolution of genotype diversity

0.01

scalar

L

Chemostat volume

1

ml

  1. Variables can change during a simulation, derived values are deterministically calculated from other variables/parameters. Numerical values are parameters fixed for the duration of a simulation.