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A hybrid of Simple Constrained artificial bee colony algorithm and flux balance analysis for enhancing Lactate and Succinate in Escherichia Coli

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...

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Main Authors: Hon, Mei Kie, Mohd Saberi, Mohamad, Abdul Hakim, Mohamed Salleh, Choon, Yee Wen, Muhammad Akmal, Remli, Mohd Arfian, Ismail, Omatu, Sigeru, Corchado, Juan Manuel
Format: Book Section
Language:English
English
Published: Springer Nature Switzerland 2018
Subjects:
QA76 Computer software
Online Access:http://umpir.ump.edu.my/id/eprint/22155/1/17.%20A%20Hybrid%20of%20Simple%20Constrained%20Artificial%20Bee%20Colony%20Algorithm%20and%20Flux%20Balance%20Analysis.pdf
http://umpir.ump.edu.my/id/eprint/22155/2/17.1%20A%20Hybrid%20of%20Simple%20Constrained%20Artificial%20Bee%20Colony%20Algorithm%20and%20Flux%20Balance%20Analysis.pdf
http://umpir.ump.edu.my/id/eprint/22155/
https://link.springer.com/chapter/10.1007/978-3-319-98702-6_1
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spelling my.ump.umpir.221552019-05-15T04:18:07Z http://umpir.ump.edu.my/id/eprint/22155/ A hybrid of Simple Constrained artificial bee colony algorithm and flux balance analysis for enhancing Lactate and Succinate in Escherichia Coli Hon, Mei Kie Mohd Saberi, Mohamad Abdul Hakim, Mohamed Salleh Choon, Yee Wen Muhammad Akmal, Remli Mohd Arfian, Ismail Omatu, Sigeru Corchado, Juan Manuel QA76 Computer software 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. Springer Nature Switzerland 2018 Book Section PeerReviewed pdf en http://umpir.ump.edu.my/id/eprint/22155/1/17.%20A%20Hybrid%20of%20Simple%20Constrained%20Artificial%20Bee%20Colony%20Algorithm%20and%20Flux%20Balance%20Analysis.pdf pdf en http://umpir.ump.edu.my/id/eprint/22155/2/17.1%20A%20Hybrid%20of%20Simple%20Constrained%20Artificial%20Bee%20Colony%20Algorithm%20and%20Flux%20Balance%20Analysis.pdf Hon, Mei Kie and Mohd Saberi, Mohamad and Abdul Hakim, Mohamed Salleh and Choon, Yee Wen and Muhammad Akmal, Remli and Mohd Arfian, Ismail and Omatu, Sigeru and Corchado, Juan Manuel (2018) A hybrid of Simple Constrained artificial bee colony algorithm and flux balance analysis for enhancing Lactate and Succinate in Escherichia Coli. In: Practical Applications of Computational Biology and Bioinformatics, 12th International Conference. Advances in Intelligent Systems and Computing . Springer Nature Switzerland, pp. 1-8. ISBN 978-3-319-98702-6 https://link.springer.com/chapter/10.1007/978-3-319-98702-6_1 DOI: https://doi.org/10.1007/978-3-319-98702-6_1
institution Universiti Malaysia Pahang
building UMP Library
collection Institutional Repository
continent Asia
country Malaysia
content_provider Universiti Malaysia Pahang
content_source UMP Institutional Repository
url_provider http://umpir.ump.edu.my/
language English
English
topic QA76 Computer software
spellingShingle QA76 Computer software
Hon, Mei Kie
Mohd Saberi, Mohamad
Abdul Hakim, Mohamed Salleh
Choon, Yee Wen
Muhammad Akmal, Remli
Mohd Arfian, Ismail
Omatu, Sigeru
Corchado, Juan Manuel
A hybrid of Simple Constrained artificial bee colony algorithm and flux balance analysis for enhancing Lactate and Succinate in Escherichia Coli
description 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.
format Book Section
author Hon, Mei Kie
Mohd Saberi, Mohamad
Abdul Hakim, Mohamed Salleh
Choon, Yee Wen
Muhammad Akmal, Remli
Mohd Arfian, Ismail
Omatu, Sigeru
Corchado, Juan Manuel
author_facet Hon, Mei Kie
Mohd Saberi, Mohamad
Abdul Hakim, Mohamed Salleh
Choon, Yee Wen
Muhammad Akmal, Remli
Mohd Arfian, Ismail
Omatu, Sigeru
Corchado, Juan Manuel
author_sort Hon, Mei Kie
title A hybrid of Simple Constrained artificial bee colony algorithm and flux balance analysis for enhancing Lactate and Succinate in Escherichia Coli
title_short A hybrid of Simple Constrained artificial bee colony algorithm and flux balance analysis for enhancing Lactate and Succinate in Escherichia Coli
title_full A hybrid of Simple Constrained artificial bee colony algorithm and flux balance analysis for enhancing Lactate and Succinate in Escherichia Coli
title_fullStr A hybrid of Simple Constrained artificial bee colony algorithm and flux balance analysis for enhancing Lactate and Succinate in Escherichia Coli
title_full_unstemmed A hybrid of Simple Constrained artificial bee colony algorithm and flux balance analysis for enhancing Lactate and Succinate in Escherichia Coli
title_sort hybrid of simple constrained artificial bee colony algorithm and flux balance analysis for enhancing lactate and succinate in escherichia coli
publisher Springer Nature Switzerland
publishDate 2018
url http://umpir.ump.edu.my/id/eprint/22155/1/17.%20A%20Hybrid%20of%20Simple%20Constrained%20Artificial%20Bee%20Colony%20Algorithm%20and%20Flux%20Balance%20Analysis.pdf
http://umpir.ump.edu.my/id/eprint/22155/2/17.1%20A%20Hybrid%20of%20Simple%20Constrained%20Artificial%20Bee%20Colony%20Algorithm%20and%20Flux%20Balance%20Analysis.pdf
http://umpir.ump.edu.my/id/eprint/22155/
https://link.springer.com/chapter/10.1007/978-3-319-98702-6_1
_version_ 1643669307322793984
score 13.211869

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