Bacterial genome reductions: Tools, applications, and challenges
Bacterial cells are widely used to produce value-added products due to their versatility, ease of manipulation, and the abundance of genome engineering tools. However, the efficiency of producing these desired biomolecules is often hindered by the cells’ own metabolism, genetic instability, and the...
| Main Authors: | , |
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2022-08-01
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| Series: | Frontiers in Genome Editing |
| Subjects: | |
| Online Access: | https://www.frontiersin.org/articles/10.3389/fgeed.2022.957289/full |
| _version_ | 1818000809924755456 |
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| author | Nicole LeBlanc Trevor C. Charles Trevor C. Charles |
| author_facet | Nicole LeBlanc Trevor C. Charles Trevor C. Charles |
| author_sort | Nicole LeBlanc |
| collection | DOAJ |
| description | Bacterial cells are widely used to produce value-added products due to their versatility, ease of manipulation, and the abundance of genome engineering tools. However, the efficiency of producing these desired biomolecules is often hindered by the cells’ own metabolism, genetic instability, and the toxicity of the product. To overcome these challenges, genome reductions have been performed, making strains with the potential of serving as chassis for downstream applications. Here we review the current technologies that enable the design and construction of such reduced-genome bacteria as well as the challenges that limit their assembly and applicability. While genomic reductions have shown improvement of many cellular characteristics, a major challenge still exists in constructing these cells efficiently and rapidly. Computational tools have been created in attempts at minimizing the time needed to design these organisms, but gaps still exist in modelling these reductions in silico. Genomic reductions are a promising avenue for improving the production of value-added products, constructing chassis cells, and for uncovering cellular function but are currently limited by their time-consuming construction methods. With improvements to and the creation of novel genome editing tools and in silico models, these approaches could be combined to expedite this process and create more streamlined and efficient cell factories. |
| first_indexed | 2024-04-14T03:26:23Z |
| format | Article |
| id | doaj.art-8897a87ff4e546f093e2176ac11c0892 |
| institution | Directory Open Access Journal |
| issn | 2673-3439 |
| language | English |
| last_indexed | 2024-04-14T03:26:23Z |
| publishDate | 2022-08-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Genome Editing |
| spelling | doaj.art-8897a87ff4e546f093e2176ac11c08922022-12-22T02:15:10ZengFrontiers Media S.A.Frontiers in Genome Editing2673-34392022-08-01410.3389/fgeed.2022.957289957289Bacterial genome reductions: Tools, applications, and challengesNicole LeBlanc0Trevor C. Charles1Trevor C. Charles2Department of Biology, University of Waterloo, Waterloo, ON, CanadaDepartment of Biology, University of Waterloo, Waterloo, ON, CanadaMetagenom Bio Life Science Inc., Waterloo, ON, CanadaBacterial cells are widely used to produce value-added products due to their versatility, ease of manipulation, and the abundance of genome engineering tools. However, the efficiency of producing these desired biomolecules is often hindered by the cells’ own metabolism, genetic instability, and the toxicity of the product. To overcome these challenges, genome reductions have been performed, making strains with the potential of serving as chassis for downstream applications. Here we review the current technologies that enable the design and construction of such reduced-genome bacteria as well as the challenges that limit their assembly and applicability. While genomic reductions have shown improvement of many cellular characteristics, a major challenge still exists in constructing these cells efficiently and rapidly. Computational tools have been created in attempts at minimizing the time needed to design these organisms, but gaps still exist in modelling these reductions in silico. Genomic reductions are a promising avenue for improving the production of value-added products, constructing chassis cells, and for uncovering cellular function but are currently limited by their time-consuming construction methods. With improvements to and the creation of novel genome editing tools and in silico models, these approaches could be combined to expedite this process and create more streamlined and efficient cell factories.https://www.frontiersin.org/articles/10.3389/fgeed.2022.957289/fullsynthetic biologybacteriagenome reductiongenome engineeringminimal genome |
| spellingShingle | Nicole LeBlanc Trevor C. Charles Trevor C. Charles Bacterial genome reductions: Tools, applications, and challenges Frontiers in Genome Editing synthetic biology bacteria genome reduction genome engineering minimal genome |
| title | Bacterial genome reductions: Tools, applications, and challenges |
| title_full | Bacterial genome reductions: Tools, applications, and challenges |
| title_fullStr | Bacterial genome reductions: Tools, applications, and challenges |
| title_full_unstemmed | Bacterial genome reductions: Tools, applications, and challenges |
| title_short | Bacterial genome reductions: Tools, applications, and challenges |
| title_sort | bacterial genome reductions tools applications and challenges |
| topic | synthetic biology bacteria genome reduction genome engineering minimal genome |
| url | https://www.frontiersin.org/articles/10.3389/fgeed.2022.957289/full |
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