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Model-based simulation of growth-coupled production of xanthommatin

Name: Model-based simulation of growth-coupled production of xanthommatin
Creator: Alter, Tobias Benedikt
Keywords: Metabolic Engineering, Computational Biology, Biotechnology

integration_instructionsResearch softwarekeyboard_double_arrow_right Software 01 Sep 2025Embargo end date: 10 Sep 2025 English Publisher:Zenodo

Authors: Alter, Tobias Benedikt;

doi: 10.5281/zenodo.17090232 , 10.5281/zenodo.17016978 , 10.5281/zenodo.17016979

Model-based simulation of growth-coupled production of xanthommatin

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Abstract

This repository is part of the supplementary information for the publication "Growth-coupled microbial biosynthesis of the animal pigment xanthommatin" authored by Leah B. Bushin, Tobias B. Alter, María V.G. Alván-Vargas, Lara Dürr, Elina C. Olson, Mariah J. Avila, Òscar Puiggené, Taehwan Kim, Leila F. Deravi, Adam M. Feist,Pablo I. Nikel, and Bradley S. Moore. This repository provides code to identify analyze metabolic growth-coupling strategies for xanthommatin production in Pseudomonas putida. The actual computation of growth-coupling strategies is carried out with the Growth-coupling suite; this code runs the Growth-coupling suite and takes those results as input and performs model-based analyses of the identified strategies. Analyses include flux balance simulations, evaluation of growth–product trade-offs, and plots for comparison.

Keywords

Metabolic Engineering, Computational Biology, Biotechnology

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