| Literature DB >> 21527981 |
Meggan E Craft1, Damien Caillaud.
Abstract
Although the approach of contact network epidemiology has been increasing in popularity for studying transmission of infectious diseases in human populations, it has generally been an underutilized approach for investigating disease outbreaks in wildlife populations. In this paper we explore the differences between the type of data that can be collected on human and wildlife populations, provide an update on recent advances that have been made in wildlife epidemiology by using a network approach, and discuss why networks might have been underutilized and why networks could and should be used more in the future. We conclude with ideas for future directions and a call for field biologists and network modelers to engage in more cross-disciplinary collaboration.Entities:
Year: 2011 PMID: 21527981 PMCID: PMC3063006 DOI: 10.1155/2011/676949
Source DB: PubMed Journal: Interdiscip Perspect Infect Dis ISSN: 1687-708X
Figure 1An example of a wildlife network: the Serengeti lion network [4]. In the within-pride network, the nodes (circles) are individuals and edges (lines between circles) are contacts observed on a short time scale (this is a cartoon, not based on data). The between-pride network is derived from behavioral observations of individually known lions as in [4] where nodes represent prides, and edges represent contacts between prides. The histogram represents the degree distribution of the between-pride network.
Figure 2Three examples of contact networks with identical number of nodes (with 100 nodes) and connectedness (where the mean number of effective contacts per node = 4), but different degree distributions. (a) Fully-connected network. Each node has a degree of 99, but a weight of 4/99 = .0404 is applied to each edge to keep the average connectedness of each node equal to four. Diseases spread through this network in an equivalent way as in a mass action model. For clarity, only 25 nodes out of 100 are represented here. (b) Random network with Poisson degree distribution and mean degree = 4, generated following the Erdos and Renyi model [5]. (c) Scale-free network generated using Barbasi-Albert's preferential attachment algorithm [6], with mean degree = 4 and a power law degree distribution. The network is created by starting with one node and no edges. At each time step, a node is added and connected to two other vertices chosen in proportion to their current degree. This network is characterized by a few highly connected nodes, which may act as superspreaders during epidemics. (d) Stochastic SIR simulations of disease dynamics through the three networks (120 runs per network type). Squares, circles and triangles correspond to networks (a), (b), and (c), respectively. The final epidemic size (attack rate) is represented in relation to the intergroup transmission β. The recovery rate is fixed at 0.1. Note that even when the mean connectivity is kept constant, disease impacts vary with network structure.
Direct and indirect techiques that could be used to collect contact network data on wildlife populations and selected examples using these techniques.
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| Behavioral observations of known individuals | Diurnal habituated animals that can be easily observed (not cryptic species) | Potentially a “gold standard” for contact networks (multiple types of social interactions can be recorded); labor intensive | [ |
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| Viewpoint scanning | Visible animals active during the day; open habitat (not cryptic species) | Allows between-species observations at replicable sites; labor intensive yet incomplete observations | [ |
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| Biologging | Easily captured and handled individuals | Population needs to be saturated with detectors; excellent resolution of proximity data although proximity does not mean contact; continuous time record; cannot distinguish between types of close contacts (e.g., fighting versus mating) | [ |
| Biologging: animal-borne acoustic proximity receiver | Marine mammals | Need to handle animal to retrieve device; good between-animal resolution | [ |
| Biologging: PIT (Passive Integrated Transponder) tags | Useful for small mammals | Good data on duration of presence/absence of marked individuals at specific places (e.g., supplemented foraging sites) equipped with PIT loggers; approximation of contacts | [ |
| Biologging: proximity data loggers/collars | Medium to large animals | measure frequency and duration of contact; complete temporal data; need to recover loggers | [ |
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| Capture-mark-recapture | Easily captured and handled individuals | A contact is defined as occupying same area during same period of time; good for capturing movement/dispersal data, not good at capturing within-group contacts | [ |
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| Direct manipulation | Captive populations of common animals | Great for repeatable experiments on experimentally infected individuals to measure transmission, but does this reflect contact patterns in wild? | [ |
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| GPS recorders | Easily captured and handled medium to large individuals | Need recorders on all individuals in select area; if recorders are synced well, excellect contact data for the time the GPS takes point (with spotty coverage in between). Maybe local avoidance happens but would be undetected? | [ |
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| Powder marking | Easily trapped and handled individuals | Gives good contact data if contacts involve direct phyical contact; can only monitor a few indivuals at a time due to contstraints on the number of powder colors | [ |
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| Radio telemetry | Handled individuals, not good for very small individuals | Contact defined as occupying same area during same period of time. Good indicator of (i) scale of interaction but gives coarse resolution of a “contact”, (ii) mixing between groups of animals, but not within groups and (iii) den-sharing contacts. Presence of fieldworkers may alter behavior. | [ |
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| Trapping and bait marking | Easily trapped and handled individuals who use latrines to mark territories | Good data on home range overlap and intergroup movement rates | [ |
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| Video tracking from animal's perspective | Animal must be able to be caught and wear something like a video backpack | Great contact data from individual perspective | [ |
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| Video trapping from fixed perspective (automated) | Social insects that can be individually tagged and the group monitored | Great resolution of contact data; software records duration and frequency of contacts | [ |
Selected list of free software packages that can be used in wildlife network epidemiology.
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| M-Surge | Application | No | Windows platform | [ |
| MARK | Application | No | Windows platform | [ |
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| Pajek | Application | No | Analysis of large networks | [ |
| igraph | R Package | Basic | Used for all network visualizations in this article | [ |
| sna | R package | Basic | Other related R packages available on | [ |
| network | R Package | Basic | Other related R packages available on | [ |
| ClustRNet | Python package | Basic | Simulates network with variable clustering degree | [ |
| NetLogo | Interpreted language | Basic | Cross-platform | [ |
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| EpiFire (GUI) | Application | No | Cross-platform | unpublished/ |
| NetLogo | Interpreted language | Basic | Cross-platform | [ |
| R | Interpreted language | Basic | Cross-platform | [ |
| Python | Interpreted language | Basic | Cross-platform |
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| EpiFire (API) | C++ library | Yes (C/C++) | Includes network simulation capabilities | unpublished/ |