DEBirds Shiny Application

The DEBirds web application aims to facilitate the simulation of Dynamic Energy Budget (DEB) models coupled with a toxicokinetic-toxicodynamic (TKTD) module for birds exposed to chemical compound via their diet. The DEB-TKTD model implemented here is inspired by Trijau et al. (2023). This model captures the life cycle of a bird (from hatching to egg laying) by describing the energy assimilation from food and its allocation to metabolic needs according to the ⲕ-rule: a fraction ⲕ of the energy is allocated to growth and somatic maintenance processes while the remaining fraction (1 - ⲕ) is allocated to maturation, maturation maintenance, and reproduction. It also takes into account an increase in the feeding rate during the egg-laying phase to meet the energetic requirements of egg production.

Contamination of the feed can disrupt both the energy acquisition and the allocation processes. We chose to implement the subsequent increase in reproductive costs which directly affects the reproductive efficiency DEB parameter. Full details of the conceptual model are presented in this vignette .

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Presets

Data from Trijau 2023

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Species data from Add My Pet

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Upload parameter values

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$d_E$ - Density of the reserve

$E_G$ - Specific cost for structure

$\kappa$ - Allocation fraction to soma

$\kappa_G$ - Growth efficiency under starvation

$\mu_E$ - Chemical potential of the reserve E

$\dot{\nu}$ - Energy conductance

$\{\dot{p}_{Am}\}$ - Surface-specific assimilation rate

$[\dot{p}_M]$ - Volume-specific somatic maintenance

$w_E$ - Molecular weight of the reserve

$E_0$ - Energy in one egg

$E_H^b$ - Maturity at birth

$E_H^p$ - Maturity at puberty

$\kappa_{R0}$ - Reproduction efficiency in control group

$k_J$ - Maturity maintenance rate coefficient

$W_w^b$ - Wet weight at birth

$t_{init}$ - Start of exposition

$t_s$ - Start of reproduction induction

$c_0$ - Resistance threshold concentration

$c_T$ - Tolerance gradient

$k_e$ - Elimination rate

$C_X$ - Concentration of pesticide in food

$d_X$ - Density of food

$\kappa_X$ - Digestion efficiency from food to reserve

$\mu_X$ - Chemical potential of food

$w_X$ - Molecular weight of dehydrated food

$t_{end}$ - End of experiment

Feeding data

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Options

Add weight data

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Add egg laying data

Egg counts

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Survival counts

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Download parameter values

You can download the parameter values your used in order to easily reuse them later on.

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Download simulation data

This data will let you create your own plots to explore the DEBirds simulation.

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Staff and contributors

Virgile Baudrot, Qonfluens
Yihui Chang, Laboratory of Biometry and Evolutionary Biology
Sandrine Charles, Laboratory of Biometry and Evolutionary Biology
Miléna Kaag, Laboratory of Biometry and Evolutionary Biology

References

Trijau M., Goussen, B., Brain, R., Maul, J., & Galic, N. (2023). Development of a mechanistic model for analyzing avian reproduction data for pesticide risk assessment. Environmental Pollution, 327 , 121477. https://doi.org/10.1016/j.envpol.2023.121477