BIO 200 Antibiotic Resistance

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Rohan Mehta (Author)

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globals [
  total-sensitive
  total-resistant
  new-location
]

turtles-own [
  resistant ;; boolean
]

patches-own [
  has-antibiotic
]

to setup
  clear-all
  ;; Populate map with bacteria at max population size
  set-default-shape turtles "circle"
  create-turtles max-population-size
  [
    set color white
    set size 1
    setxy random-xcor random-ycor
    set resistant false
  ]
  ask patches [set has-antibiotic false]
  set new-location 2
  reset-ticks
end 

to go
  if ticks = 50 [add-antibiotic]
  let free-patches patches with [has-antibiotic = false]
  let ab-patches patches with [has-antibiotic = true]
  ;; death-birth process with carrying capacity
  ask turtles-on free-patches [
    if resistant = false [ if random-float 1 < death-rate [die]]
    if resistant = true [ if random-float 1 < death-rate-resistance-free [die]]
  ]
  ask turtles-on ab-patches [
    if resistant = true [ if random-float 1 < death-rate [die]]
    if resistant = false [ if random-float 1 < death-rate-susceptible-antibiotic [die]]
  ]
  let to-divide count turtles * birth-rate
  ask n-of to-divide turtles [
      hatch 1 [
        setxy (xcor + (-1 * new-location + random-float 2 * new-location)) (ycor +  (-1 * new-location + random-float 2 * new-location))
        if random-float 1 < mutation-rate [
          set resistant true
          set color random 140
        ]
      ]
    ]
  if count turtles > max-population-size [
    ask n-of (count turtles - max-population-size) turtles [die]
  ]
  let ab-decay floor ((count ab-patches) * antibiotic-clearance-rate)
  ask n-of ab-decay ab-patches [
    set has-antibiotic false
    set pcolor black
  ]
  if not any? turtles [stop]
  tick
end 

to add-antibiotic
  let ab-add floor(count patches * antibiotic-amount)
  ask n-of ab-add patches [  ;; not just free patches!
    set has-antibiotic true
    set pcolor gray
  ]
end

There are 2 versions of this model.

		Uploaded by	When	Description	Download
		Rohan Mehta	2 days ago	changed no-display	Download this version
		Rohan Mehta	2 days ago	Initial upload	Download this version

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