Estimating epidemiological parameters of highly pathogenic avian influenza in common terns using exact Bayesian inference
Data files
Oct 03, 2025 version files 23.56 KB
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Banter_See_dead_birds_2022___2023_dryad.xlsx
22.22 KB
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README.md
1.34 KB
Abstract
Highly pathogenic avian influenza (HPAI) is a contagious viral disease that has led to the culling of huge amounts of poultry as well as the mortality of countless wild birds. The recent panzootic that began in 2021 has been particularly notable for its devastating effect on seabird populations around the globe. Whilst transmission of HPAI within poultry has been relatively well studied, the recency of the current panzootic, combined with data collection challenges, means that much less is known about key epidemiological parameters, such as reproduction numbers, R0, of HPAI in wild populations. We develop methodology to carry out exact Bayesian parameter inference using reversible jump Markov chain Monte Carlo applied to mortality data in the form of daily carcass counts over the duration of subsequent outbreaks in a colony of common terns, Sterna hirundo, in 2022 and 2023. We estimate R0 to be 3.7 (95% CI 2.3; 7.2) in 2022, and 3.2 (95% CI 1.7; 7.0) in 2023. The probability of mortality for an infected bird was estimated to drop from 0.26 (95% CI 0.24; 0.28) in 2022 to 0.14 (95% CI 0.11; 0.20) in 2023. Our findings furthermore suggest direct bird-to-bird transmission to be the predominant driver of infection within the colony, with environmental transmission playing a negligible role.
Dataset DOI: 10.5061/dryad.ncjsxkt8g
Description of the data and file structure
These data are part of those collected in an ongoing individual-based longitudinal population study. Additional data are likely to be available, and we are often very happy to collaborate provided that none of our own staff or students is working on a conflicting project should you want to use these data, please get in touch.
Prof. Dr. Sandra Bouwhuis
Institute of Avian Research, Wilhelmshaven, Germany
sandra.bouwhuis@ifv-vogelwarte.de
Files and variables
File: Banter_See_dead_birds_2022___2023_dryad.xlsx
Description:
This is the file containing the date of collection of each bird carcass during the highly pathogenic avian influenza outbreaks in 2022 and 2023.
Variables
- birdID: A unique numeric identifier for each bird with a recovered carcass
- date dead: The date at which this bird was recovered dead
Code/software
The associated manuscript code is available at the reference below
Ewing, David (2025). HPAI inference for common terns. Version v1.0.0. doi: 10.5281/zenodo.17054917
Access information
NA
