A hybrid of simple constrained artificial bee colony algorithm and flux balance analysis for enhancing lactate and succinate in Escherichia Coli

Mei Kie Hon, Mohd Saberi Mohamad, Abdul Hakim Mohamed Salleh, Yee Wen Choon, Muhammad Akmal Remli, Mohd Arfian Ismail, Sigeru Omatu, Juan Manuel Corchado

Research output: Chapter in Book/Report/Conference proceedingConference contribution

1 Citation (Scopus)

Abstract

In the past decades, metabolic engineering has received great attention from different sectors of science due to its important role in enhancing the over expression of the target phenotype by manipulating the metabolic pathway. The advent of metabolic engineering has further laid the foundation for computational biology, leading to the development of computational approaches for suggesting genetic manipulation. Previously, conventional methods have been used to enhance the production of lactate and succinate in E. coli. However, these products are always far below their theoretical maxima. In this research, a hybrid algorithm is developed to seek optimal solutions in order to increase the overproduction of lactate and succinate by gene knockout in E. coli. The hybrid algorithm employed the Simple Constrained Artificial Bee Colony (SCABC) algorithm, using swarm intelligence as an optimization algorithm to optimize the objective function, where lactate and succinate productions are maximized by simulating gene knockout in E. coli. In addition, Flux Balance Analysis (FBA) is used as a fitness function in the SCABC algorithm to assess the growth rate of E. coli and the productivity of lactate and succinate. As a result of the research, the gene knockout list which induced the highest production of lactate and succinate is obtained.

Original languageEnglish
Title of host publicationPractical Applications of Computational Biology and Bioinformatics, 12th International Conference
EditorsMiguel Rocha, Mohd Saberi Mohamad, Juan F. De Paz, Florentino Fdez-Riverola, Pascual Gonzalez
PublisherSpringer Verlag
Pages1-8
Number of pages8
ISBN (Print)9783319987019
DOIs
Publication statusPublished - 2019
Externally publishedYes
Event12th International Conference on Practical Applications of Computational Biology and Bioinformatics, PACBB 2018 - Toledo, Spain
Duration: Jun 20 2018Jun 22 2018

Publication series

NameAdvances in Intelligent Systems and Computing
Volume803
ISSN (Print)2194-5357

Other

Other12th International Conference on Practical Applications of Computational Biology and Bioinformatics, PACBB 2018
Country/TerritorySpain
CityToledo
Period6/20/186/22/18

Keywords

  • Computational intelligence
  • Escherichia coli
  • Flux balance analysis
  • Gene knockout strategies
  • Lactate
  • Simple constrained artificial bee colony
  • Succinate

ASJC Scopus subject areas

  • Control and Systems Engineering
  • General Computer Science

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