2-Keto-3-deoxy-D-xylonate and 2-oxo-4-hydroxybutyrate as natural and artificial effectors of transcription factors regulating D-xylonate operons in E. coli.
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| Title: | 2-Keto-3-deoxy-D-xylonate and 2-oxo-4-hydroxybutyrate as natural and artificial effectors of transcription factors regulating D-xylonate operons in E. coli. |
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| Authors: | Malfoy, Thibault1 (AUTHOR), Alkim, Ceren1 (AUTHOR), Fredonnet, Julie2 (AUTHOR), Lajarin-Hernandez, Juan1 (AUTHOR), Francois, Jean Marie1,2 (AUTHOR) jean-marie.francois@inrae.fr |
| Source: | Applied Microbiology & Biotechnology. 6/18/2026, Vol. 110 Issue 1, p1-18. 18p. |
| Subjects: | Bacterial operons, Transcription factors, Ketonic acids, Biosensors, Organic acids |
| Abstract: | In E. coli, the genes of the D-xylonate catabolic pathway are present in two distinct operons, yagEFG and yjhIHG, which are part of two cryptic phages found in the genome of this bacterium. These operons are under the control of two transcription factors: XynR which acts as a repressor of yagEFG and yjhI which is an activator of yjhIHG. Although D-xylonate is known to induce these two operons, the true inducer has not been identified yet. Through the construction of biosensors based on xynR and yjhI, using syfp2 as reporter gene in combination with mutants of genes involved in D-xylonate catabolism, it has been demonstrated that the effector of these operons is 2-keto-3-deoxy-D-xylonate, which is formed by the dehydration of D-xylonate catalyzed by the dehydratases encoded by yagF and yjhG genes. Building on the finding that these two operons were also upregulated in E. coli challenged with high concentration of platform molecule 2,4-dihydroxybutyric acid, it is reported that both XynR- and YjhI-based biosensors were also responsive to the intermediate non-natural molecule 2-oxo-4-hydroxybutyric acid, with characteristic performances in terms of response threshold, sensitivity, cooperativity, and dynamic response comparable to those of the natural effector. Given that the bottlenecks in the production of 2,4-dihydroxybutyrate from C2 and C5/C6 carbon are D-threonate dehydratase and L-homoserine transaminase, respectively, which catalyze the formation of 2-oxo-4-hydroxybutyric acid from either D-threonate or homoserine, we showed that XynR and YjhI-based biosensors could be efficient tools for the screening and selection of more active enzymes producing this compound, thereby improving the production of 2,4-dihydroxybutyrate. [ABSTRACT FROM AUTHOR] |
| Copyright of Applied Microbiology & Biotechnology is the property of Springer Nature and its content may not be copied or emailed to multiple sites without the copyright holder's express written permission. Additionally, content may not be used with any artificial intelligence tools or machine learning technologies. However, users may print, download, or email articles for individual use. This abstract may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full abstract. (Copyright applies to all Abstracts.) | |
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| Header | DbId: egs DbLabel: Engineering Source An: 194698520 AccessLevel: 6 PubType: Academic Journal PubTypeId: academicJournal PreciseRelevancyScore: 0 |
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| Items | – Name: Title Label: Title Group: Ti Data: 2-Keto-3-deoxy-D-xylonate and 2-oxo-4-hydroxybutyrate as natural and artificial effectors of transcription factors regulating D-xylonate operons in E. coli. – Name: Author Label: Authors Group: Au Data: <searchLink fieldCode="AR" term="%22Malfoy%2C+Thibault%22">Malfoy, Thibault</searchLink><relatesTo>1</relatesTo> (AUTHOR)<br /><searchLink fieldCode="AR" term="%22Alkim%2C+Ceren%22">Alkim, Ceren</searchLink><relatesTo>1</relatesTo> (AUTHOR)<br /><searchLink fieldCode="AR" term="%22Fredonnet%2C+Julie%22">Fredonnet, Julie</searchLink><relatesTo>2</relatesTo> (AUTHOR)<br /><searchLink fieldCode="AR" term="%22Lajarin-Hernandez%2C+Juan%22">Lajarin-Hernandez, Juan</searchLink><relatesTo>1</relatesTo> (AUTHOR)<br /><searchLink fieldCode="AR" term="%22Francois%2C+Jean+Marie%22">Francois, Jean Marie</searchLink><relatesTo>1,2</relatesTo> (AUTHOR)<i> jean-marie.francois@inrae.fr</i> – Name: TitleSource Label: Source Group: Src Data: <searchLink fieldCode="JN" term="%22Applied+Microbiology+%26+Biotechnology%22">Applied Microbiology & Biotechnology</searchLink>. 6/18/2026, Vol. 110 Issue 1, p1-18. 18p. – Name: Subject Label: Subjects Group: Su Data: <searchLink fieldCode="DE" term="%22Bacterial+operons%22">Bacterial operons</searchLink><br /><searchLink fieldCode="DE" term="%22Transcription+factors%22">Transcription factors</searchLink><br /><searchLink fieldCode="DE" term="%22Ketonic+acids%22">Ketonic acids</searchLink><br /><searchLink fieldCode="DE" term="%22Biosensors%22">Biosensors</searchLink><br /><searchLink fieldCode="DE" term="%22Organic+acids%22">Organic acids</searchLink> – Name: Abstract Label: Abstract Group: Ab Data: In E. coli, the genes of the D-xylonate catabolic pathway are present in two distinct operons, yagEFG and yjhIHG, which are part of two cryptic phages found in the genome of this bacterium. These operons are under the control of two transcription factors: XynR which acts as a repressor of yagEFG and yjhI which is an activator of yjhIHG. Although D-xylonate is known to induce these two operons, the true inducer has not been identified yet. Through the construction of biosensors based on xynR and yjhI, using syfp2 as reporter gene in combination with mutants of genes involved in D-xylonate catabolism, it has been demonstrated that the effector of these operons is 2-keto-3-deoxy-D-xylonate, which is formed by the dehydration of D-xylonate catalyzed by the dehydratases encoded by yagF and yjhG genes. Building on the finding that these two operons were also upregulated in E. coli challenged with high concentration of platform molecule 2,4-dihydroxybutyric acid, it is reported that both XynR- and YjhI-based biosensors were also responsive to the intermediate non-natural molecule 2-oxo-4-hydroxybutyric acid, with characteristic performances in terms of response threshold, sensitivity, cooperativity, and dynamic response comparable to those of the natural effector. Given that the bottlenecks in the production of 2,4-dihydroxybutyrate from C2 and C5/C6 carbon are D-threonate dehydratase and L-homoserine transaminase, respectively, which catalyze the formation of 2-oxo-4-hydroxybutyric acid from either D-threonate or homoserine, we showed that XynR and YjhI-based biosensors could be efficient tools for the screening and selection of more active enzymes producing this compound, thereby improving the production of 2,4-dihydroxybutyrate. [ABSTRACT FROM AUTHOR] – Name: AbstractSuppliedCopyright Label: Group: Ab Data: <i>Copyright of Applied Microbiology & Biotechnology is the property of Springer Nature and its content may not be copied or emailed to multiple sites without the copyright holder's express written permission. Additionally, content may not be used with any artificial intelligence tools or machine learning technologies. However, users may print, download, or email articles for individual use. This abstract may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full abstract.</i> (Copyright applies to all Abstracts.) |
| PLink | https://search.ebscohost.com/login.aspx?direct=true&site=eds-live&db=egs&AN=194698520 |
| RecordInfo | BibRecord: BibEntity: Identifiers: – Type: doi Value: 10.1007/s00253-026-13840-y Languages: – Code: eng Text: English PhysicalDescription: Pagination: PageCount: 18 StartPage: 1 Subjects: – SubjectFull: Bacterial operons Type: general – SubjectFull: Transcription factors Type: general – SubjectFull: Ketonic acids Type: general – SubjectFull: Biosensors Type: general – SubjectFull: Organic acids Type: general Titles: – TitleFull: 2-Keto-3-deoxy-D-xylonate and 2-oxo-4-hydroxybutyrate as natural and artificial effectors of transcription factors regulating D-xylonate operons in E. coli. Type: main BibRelationships: HasContributorRelationships: – PersonEntity: Name: NameFull: Malfoy, Thibault – PersonEntity: Name: NameFull: Alkim, Ceren – PersonEntity: Name: NameFull: Fredonnet, Julie – PersonEntity: Name: NameFull: Lajarin-Hernandez, Juan – PersonEntity: Name: NameFull: Francois, Jean Marie IsPartOfRelationships: – BibEntity: Dates: – D: 18 M: 06 Text: 6/18/2026 Type: published Y: 2026 Identifiers: – Type: issn-print Value: 01757598 Numbering: – Type: volume Value: 110 – Type: issue Value: 1 Titles: – TitleFull: Applied Microbiology & Biotechnology Type: main |
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