Lecture 24: Epidemic patterns Flashcards
26th November 2024
What is an epidemic?
An increase in incidence of disease in excess of that expected
What is the incidence?
number of new cases per unit time
e.g number of new cases of cholera per day
Draw out the epidemic compartmental model
Answer on paper
What is R0?
The basic reproduction number (not a rate).
“the average number of new cases arising from one infectious case introduced into a population of wholly susceptible individuals”
(number of secondary cases)
For an epidemic to occur, what does the R0 value have to be?
An epidemic occurs when the number of secondary cases is on average >1
What is Pc?
percent of population likely to get disease in a fully susceptible population
What is the R0 for smallpox?
3-5
What equation can be used to estimate the R0 of a pathogen?
R0 = p x c x D
what is p?
Probability that a contact results in transmission
What is c?
The frequency of host contacts between infectious and susceptible individuals
What is p X c?
Effective contact rate (rate of movement from ‘S’ to ‘I’)
What is D?
The average amount of time the host is infectious
Does introduced infection move individuals between compartments?
Yes
What is Effective R (Re)?
Effective R (Re) is the restrained growth rate
Describe what Effective R (Re) is?
- R0 is defined for a “virgin” population with all individuals susceptible.
- “Effective” R (Re) is the true reproductive rate:
R0 x fraction of susceptible individuals (S)
Why do epidemics end?
- The pool of susceptible individuals is depleted.
- Re declines to < 1
- Re cannot return to >1 until new susceptibles are generated
How do epidemics continue?
- Number of suceptibles increase through:
- More births
- Migration into a population
- No immunity (SI) model
- Pathogen mutates (e.g. antigenic drift) and can re-infect/or continually infect individuals
- Immunity wanes
(pathogen may change and so immunity may become less and less effective).
Recurrent epidemics in small populations
Slow regeneration (birth) of susceptibles due to small population size.
Successive epidemics follow re-introduced measles virus by visitors when Re>1 (there are enough susceptibles)
What is epidemic fade-out?
“The elimination of the infectious agent due to chance”
Describe epidemic fade out
n small populations rather than large populations:
generation (birth) of threshold susceptibles is slow
numbers of infecteds is low
What is waning immunity?
Loss of immunity post recovery from infection
e.g. flu virus
What can patterns in epidemic data tell us?
- Infecteds through time: prevalence & incidence
(Retrospective analysis of previous infections) - Origin of the outbreak
- Index case – the first case in an outbreak of disease
- Mode of spread through the population
- Potential incubation period and time of exposure
- Clues to identify the infectious agent
(R0 value comparisons)
What is the incubation period?
the period between infection and clinical onset of the disease
What is the latent period?
the time from infection to infectiousness.
Describe a point epidemic
Single common exposure and incubation period
Does not spread by host-to-host transmission
E.g. food-borne disease outbreaks
Describe a Continuous Common Source Epidemic
Prolonged exposure to source over time
Cases do not all occur within the span of a single incubation period
Curve decay may be sharp or gradual
E.g. water-borne cholera: 1-3 days incubation
Describe a Propagated Progressive Source Epidemic
E.g. measles: 10 days incubation
Spread between hosts.
Larger curves until susceptibles are depleted, or intervention is made.
This pattern most likely in a small population.
In a larger population, it would all ‘merge’ together.
Describe cholera
Cholera, caused by a bacteria (Vibrio cholerae)
Cholera is a micro-parasite, infecting the small intestine
Cholera toxin inhibits water absorption
Broad St. Pump
John Snow identified source, removed pump handle, prevented major cholera epidemic, and importantly demonstrated that cholera is water borne.
Vibrio cholerae discovered as causative agent of cholera 30 years later (in 1884) by Robert Koch
Summary
R0 = p x c x D
Re = R0S
Re >1
increase in disease incidence 🡪 epidemic