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https://doi.org/10.5194/egusphere-2024-2282
https://doi.org/10.5194/egusphere-2024-2282
05 Aug 2024
 | 05 Aug 2024

Technical Note: A modified formulation of dynamic energy budget theory for faster computation of biological growth

Jinyun Tang and William J. Riley

Abstract. The mass conservation equation in the presence of boundary fluxes and chemical reactions from non-equilibrium thermodynamics is used to derive a modified dynamic energy budget (mDEB) model. Compared to the standard dynamic energy budget (sDEB) model (Kooijman, 2009), this modified formulation does not place the dilution effect in the mobilization kinetics of reserve biomass, and it maintains the partition principle for reserve mobilization dynamics for both linear and non-linear kinetics. Overall, the mDEB model shares most features with the sDEB model. However, for biological growth that requires multiple nutrients, the mDEB model is computationally much more efficient by not requiring numerical iterations for obtaining the specific growth rate. In an example of modelling the growth of Thalassiosira weissfloggi in a nitrogen-limiting chemostat, the mDEB model was found to have almost the same accuracy as the sDEB model, while requiring almost half of the computing time of the sDEB model. Since the sDEB model has been successfully applied in numerous studies, we believe that the mDEB model can help improve the modelling of biological growth and the associated ecosystem processes in various contexts.

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Journal article(s) based on this preprint

14 Apr 2025
Technical note: A modified formulation of dynamic energy budget theory for faster computation of biological growth
Jinyun Tang and William J. Riley
Biogeosciences, 22, 1809–1819, https://doi.org/10.5194/bg-22-1809-2025,https://doi.org/10.5194/bg-22-1809-2025, 2025
Short summary
Jinyun Tang and William J. Riley

Interactive discussion

Status: closed

Comment types: AC – author | RC – referee | CC – community | EC – editor | CEC – chief editor | : Report abuse
  • RC1: 'Comment on egusphere-2024-2282', Anonymous Referee #1, 17 Sep 2024
    • AC2: 'Reply on RC1', Jinyun Tang, 08 Feb 2025
  • RC2: 'Comment on egusphere-2024-2282', Anonymous Referee #2, 20 Jan 2025
    • AC1: 'Reply on RC2', Jinyun Tang, 08 Feb 2025

Interactive discussion

Status: closed

Comment types: AC – author | RC – referee | CC – community | EC – editor | CEC – chief editor | : Report abuse
  • RC1: 'Comment on egusphere-2024-2282', Anonymous Referee #1, 17 Sep 2024
    • AC2: 'Reply on RC1', Jinyun Tang, 08 Feb 2025
  • RC2: 'Comment on egusphere-2024-2282', Anonymous Referee #2, 20 Jan 2025
    • AC1: 'Reply on RC2', Jinyun Tang, 08 Feb 2025

Peer review completion

AR: Author's response | RR: Referee report | ED: Editor decision | EF: Editorial file upload
ED: Publish subject to minor revisions (review by editor) (08 Feb 2025) by Jack Middelburg
AR by Jinyun Tang on behalf of the Authors (08 Feb 2025)  Author's response   Author's tracked changes   Manuscript 
ED: Publish as is (11 Feb 2025) by Jack Middelburg
AR by Jinyun Tang on behalf of the Authors (11 Feb 2025)  Manuscript 

Journal article(s) based on this preprint

14 Apr 2025
Technical note: A modified formulation of dynamic energy budget theory for faster computation of biological growth
Jinyun Tang and William J. Riley
Biogeosciences, 22, 1809–1819, https://doi.org/10.5194/bg-22-1809-2025,https://doi.org/10.5194/bg-22-1809-2025, 2025
Short summary
Jinyun Tang and William J. Riley

Model code and software

model scripts Jinyun Tang https://github.com/jinyun1tang/bg_mdeb

Jinyun Tang and William J. Riley

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Short summary
A new mathematical formulation of the dynamic energy budget model is presented for the growth of biological organisms. The new theory combines mass conservation law and chemical kinetics theory, and is computationally faster than the standard formulation of dynamic energy budget model. In simulating the growth of Thalassiosira weissfloggi in a nitrogen-limiting chemostat, the new model is as good as the standard dynamic energy budget model using almost the same parameter values.
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