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Dynamic community-level metabolic modeling for fermentation kinetics and metabolic interactions of the yogurt starter culture based on metagenomic analysis
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  • Sizhe Qiu,
  • Hong Zeng,
  • Zhijie Yang,
  • Wei-Lian Hung,
  • Bei Wang,
  • Aidong Yang
Sizhe Qiu
Beijing Technology and Business University School of Food and Health
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Hong Zeng
Beijing Technology and Business University School of Food and Health
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Zhijie Yang
Beijing Technology and Business University School of Food and Health
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Wei-Lian Hung
National Center of Technology Innovation for Dairy
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Bei Wang
Beijing Technology and Business University School of Food and Health
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Aidong Yang
University of Oxford Department of Engineering Science

Corresponding Author:aidong.yang@eng.ox.ac.uk

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Abstract

Genome-scale metabolic models (GSMMs) and flux balance analysis (FBA) have been extensively used to model and design bacterial fermentation. However, FBA-based metabolic models designed for simulating the dynamics of co-culture with quantitative accuracy are still uncommon, which is particularly true for lactic acid bacteria (LAB) used for yogurt fermentation. To investigate metabolic interactions in yogurt starter culture of Streptococcus thermophilus (ST) and Lactobacillus delbrueckii subsp. bulgaricus (LB), this study built a dynamic community-level GSMM based on metagenomic analysis. We first assessed the accuracy of the model by comparing predicted bacterial growth, consumption of lactose and production of lactic acid with reference experimental data, and then used it to predict the impact of different initial ST:LB inoculation ratios (gDW/gDW) on acidification. The dynamic simulation demonstrated the mutual dependence of ST and LB during the yogurt fermentation process. The modeling pipeline presented in this work provided a basis for the computer-aided process design and control of the production of fermented dairy products, contributing to the development of precision fermentation in the food industry.
24 Jan 2023Submitted to Biotechnology and Bioengineering
26 Jan 2023Submission Checks Completed
26 Jan 2023Assigned to Editor
26 Jan 2023Review(s) Completed, Editorial Evaluation Pending
13 Feb 2023Reviewer(s) Assigned
26 Apr 2023Editorial Decision: Revise Major
16 May 20231st Revision Received
18 May 2023Submission Checks Completed
18 May 2023Assigned to Editor
18 May 2023Review(s) Completed, Editorial Evaluation Pending
20 May 2023Reviewer(s) Assigned
29 Jun 2023Editorial Decision: Accept