A Hybrid of Harmony Search and Minimization of Metabolic Adjustment for Optimization of Succinic Acid Production
Succinic acid has been favored by researchers due to its industrial multi-uses. However, the production of succinic acid is far below cell theoretical maximum. The goal of this research is to identify the optimal set of gene knockouts for obtaining high production of succinic acid in microorganisms....
| Main Authors: | , , , , , , , , , |
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| Format: | Book Chapter |
| Language: | English |
| Published: |
Springer
2016
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| Subjects: | |
| Online Access: | http://umpir.ump.edu.my/id/eprint/6822/1/Hybrid%20of%20Harmony%20Search%20and%20Minimization%20of%20Meta.pdf |
| _version_ | 1825821839232860160 |
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| author | Nor Syahirah, Abdul Wahid Mohd Saberi, Mohamad Abdul Hakim, Mohamed Salleh Safaai, Deris Chan, Weng Howe Omatu, Sigeru Corchado, Juan Manuel Muhammad Farhan, Sjaugi Zuwairie, Ibrahim Zulkifli, Md. Yusof |
| author2 | Mohd Saberi, Mohamad |
| author_facet | Mohd Saberi, Mohamad Nor Syahirah, Abdul Wahid Mohd Saberi, Mohamad Abdul Hakim, Mohamed Salleh Safaai, Deris Chan, Weng Howe Omatu, Sigeru Corchado, Juan Manuel Muhammad Farhan, Sjaugi Zuwairie, Ibrahim Zulkifli, Md. Yusof |
| author_sort | Nor Syahirah, Abdul Wahid |
| collection | UMP |
| description | Succinic acid has been favored by researchers due to its industrial multi-uses. However, the production of succinic acid is far below cell theoretical maximum. The goal of this research is to identify the optimal set of gene knockouts for obtaining high production of succinic acid in microorganisms. Gene knockout is a widely used genetic engineering technique. Hence, a hybrid of Harmony Search (HS) and Minimization of Metabolic Adjustment (MOMA) is proposed. The dataset applied is a core Escherichia coli metabolic network model. Harmony Search is a meta-heuristic algorithm inspired by musicians’ improvisation process. Minimization of Metabolic Adjustment is used to calculate fitness closest to the wild-type, after mutant gene knockout. The result obtained from the proposed hybrid technique are knockout genes list and production rate after the deletion. This proposed technique is possible to be applied in wet laboratory experiment to increase the production of succinic acid in E. coli. |
| first_indexed | 2024-03-06T11:47:35Z |
| format | Book Chapter |
| id | UMPir6822 |
| institution | Universiti Malaysia Pahang |
| language | English |
| last_indexed | 2024-03-06T11:47:35Z |
| publishDate | 2016 |
| publisher | Springer |
| record_format | dspace |
| spelling | UMPir68222018-02-08T02:50:41Z http://umpir.ump.edu.my/id/eprint/6822/ A Hybrid of Harmony Search and Minimization of Metabolic Adjustment for Optimization of Succinic Acid Production Nor Syahirah, Abdul Wahid Mohd Saberi, Mohamad Abdul Hakim, Mohamed Salleh Safaai, Deris Chan, Weng Howe Omatu, Sigeru Corchado, Juan Manuel Muhammad Farhan, Sjaugi Zuwairie, Ibrahim Zulkifli, Md. Yusof QH426 Genetics TJ Mechanical engineering and machinery Succinic acid has been favored by researchers due to its industrial multi-uses. However, the production of succinic acid is far below cell theoretical maximum. The goal of this research is to identify the optimal set of gene knockouts for obtaining high production of succinic acid in microorganisms. Gene knockout is a widely used genetic engineering technique. Hence, a hybrid of Harmony Search (HS) and Minimization of Metabolic Adjustment (MOMA) is proposed. The dataset applied is a core Escherichia coli metabolic network model. Harmony Search is a meta-heuristic algorithm inspired by musicians’ improvisation process. Minimization of Metabolic Adjustment is used to calculate fitness closest to the wild-type, after mutant gene knockout. The result obtained from the proposed hybrid technique are knockout genes list and production rate after the deletion. This proposed technique is possible to be applied in wet laboratory experiment to increase the production of succinic acid in E. coli. Springer Mohd Saberi, Mohamad Rocha, Miguel P. Fdez-Riverola, Florentino Mayo, Francisco J. Domínguez Paz, Juan F. De 2016 Book Chapter PeerReviewed application/pdf en http://umpir.ump.edu.my/id/eprint/6822/1/Hybrid%20of%20Harmony%20Search%20and%20Minimization%20of%20Meta.pdf Nor Syahirah, Abdul Wahid and Mohd Saberi, Mohamad and Abdul Hakim, Mohamed Salleh and Safaai, Deris and Chan, Weng Howe and Omatu, Sigeru and Corchado, Juan Manuel and Muhammad Farhan, Sjaugi and Zuwairie, Ibrahim and Zulkifli, Md. Yusof (2016) A Hybrid of Harmony Search and Minimization of Metabolic Adjustment for Optimization of Succinic Acid Production. In: 10th International Conference on Practical Applications of Computational Biology & Bioinformatics. Advances in Intelligent Systems and Computing, 477 (Pt. IV). Springer, Switzerland, pp. 183-191. ISBN 978-3-319-40125-6 (print); 978-3-319-40126-3 (online) http://dx.doi.org/10.1007/978-3-319-40126-3_19 DOI: 10.1007/978-3-319-40126-3_19 |
| spellingShingle | QH426 Genetics TJ Mechanical engineering and machinery Nor Syahirah, Abdul Wahid Mohd Saberi, Mohamad Abdul Hakim, Mohamed Salleh Safaai, Deris Chan, Weng Howe Omatu, Sigeru Corchado, Juan Manuel Muhammad Farhan, Sjaugi Zuwairie, Ibrahim Zulkifli, Md. Yusof A Hybrid of Harmony Search and Minimization of Metabolic Adjustment for Optimization of Succinic Acid Production |
| title | A Hybrid of Harmony Search and Minimization of Metabolic Adjustment for Optimization of Succinic Acid Production |
| title_full | A Hybrid of Harmony Search and Minimization of Metabolic Adjustment for Optimization of Succinic Acid Production |
| title_fullStr | A Hybrid of Harmony Search and Minimization of Metabolic Adjustment for Optimization of Succinic Acid Production |
| title_full_unstemmed | A Hybrid of Harmony Search and Minimization of Metabolic Adjustment for Optimization of Succinic Acid Production |
| title_short | A Hybrid of Harmony Search and Minimization of Metabolic Adjustment for Optimization of Succinic Acid Production |
| title_sort | hybrid of harmony search and minimization of metabolic adjustment for optimization of succinic acid production |
| topic | QH426 Genetics TJ Mechanical engineering and machinery |
| url | http://umpir.ump.edu.my/id/eprint/6822/1/Hybrid%20of%20Harmony%20Search%20and%20Minimization%20of%20Meta.pdf |
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