Identifying minimal genomes and essential genes in metabolic model using flux balance analysis

Abdul Hakim Mohamed Salleh, Mohd Saberi Mohamad, Safaai Deris, Rosli Md Illias

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

5 Citations (Scopus)

Abstract

With the advancement in metabolic engineering technologies, reconstruction the genome of a host organism to achieve desired phenotypes for example, to optimize the production of metabolites can be made. However, due to the complexity and size of the genome scale metabolic network, significant components tend to be invisible. This research utilizes Flux Balance Analysis (FBA) to search the essential genes and obtain minimal functional genome. Different from traditional approaches, we identify essential genes by using single gene deletions and then we identify the significant pathway for the metabolite production using gene expression data. The experiment is conducted using genome scale metabolic model of Saccharomyces Cerevisiae for L-phenylalanine production. The result has shown the reliability of this approach to find essential genes for metabolites productions, reduce genome size and identify production pathway that can further optimize the production yield and can be applied in solving other genetic engineering problems.

Original languageEnglish
Title of host publicationIntelligent Information and Database Systems - 5th Asian Conference, ACIIDS 2013, Proceedings
Pages414-423
Number of pages10
EditionPART 1
DOIs
Publication statusPublished - 2013
Externally publishedYes
Event5th Asian Conference on Intelligent Information and Database Systems, ACIIDS 2013 - Kuala Lumpur, Malaysia
Duration: Mar 18 2013Mar 20 2013

Publication series

NameLecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
NumberPART 1
Volume7802 LNAI
ISSN (Print)0302-9743
ISSN (Electronic)1611-3349

Conference

Conference5th Asian Conference on Intelligent Information and Database Systems, ACIIDS 2013
Country/TerritoryMalaysia
CityKuala Lumpur
Period3/18/133/20/13

Keywords

  • essential genes
  • flux balance analysis
  • Metabolic engineering
  • metabolites productions
  • minimal genome

ASJC Scopus subject areas

  • Theoretical Computer Science
  • General Computer Science

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