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Cited by 1Microbial Natural Products and BiosynthesisMicrobial Metabolic Engineering and BioproductionLipid metabolism and biosynthesis

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Repurposing a Fully Reducing Polyketide Synthase toward 2-Methyl Guerbet-like Lipids

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Abstract

High Resolution Image Download MS PowerPoint Slide In nature, thousands of diverse and bioactive polyketides are assembled by a family of multifunctional, “assembly line” enzyme complexes called polyketide synthases (PKS). Since the late 20th century, there have been several attempts to decode, rearrange, and “reprogram” the PKS assembly line to generate valuable materials such as biofuels and platform chemicals. Here, the first module from Mycobacterium tuberculosis ( Mt ) PKS12, an unorthodox, “modularly iterative” PKS, was modified and repurposed toward the formation of 2-methyl Guerbet lipids, which have wide applications in industry. We established a robust method for the recombinant expression and purification of this modified module (named [M 1 *]), and we demonstrated its ability to catalyze the formation of several 2-methyl Guerbet-like lipids (C 13 –C 21 ). Furthermore, we studied and applied the promiscuous thioesterase activity of a neighboring β-ketoacyl synthase (KS) to release [M 1 *]-bound condensation products in a one-pot biosynthetic cascade. Finally, starting from lauric acid, we could generate our primary target compound (2-methyltetradecanoic acid) by coupling the Escherichia coli fatty acyl-CoA synthetase FadD to [M 1 *]. This work supports the biosynthetic utility of engineered PKS modules such as [M 1 *] and their ability to derive valuable Guerbet-like lipids from inexpensive fatty acids.

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Crossref · 10.1021/acscatal.4c04714

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Figures

Scheme 1 Proposed Utilization of MtPKS12-derived [M1*] to Produce 2-Methyl Guerbet-like Lipids The domain color coding shown here is used throughout this work.
Scheme 1 Proposed Utilization of MtPKS12-derived [M1*] to Produce 2-Methyl Guerbet-like Lipids The domain color coding shown here is used throughout this work.CC BY · PubMed Central
Figure 1 (A) Composite, color-coded structural model of MtPKS12-derived [M1*]. All domain structures were predicted using ColabFold. The crystal structure deposited by MuCullough et al. (PDB 8G7W)24 was used as a template to approximate the relative organization of the predicted reducing region ([DH1][KR1][ER1]) using structural alignment tools. (B) SEC purification of [M1*] monitored by UV–vis spectroscopy (280 nm) and SDS-PAGE. A HiMark prestained protein standard was used as the protein ladder.
Figure 1 (A) Composite, color-coded structural model of MtPKS12-derived [M1*]. All domain structures were predicted using ColabFold. The crystal structure deposited by MuCullough et al. (PDB 8G7W)24 was used as a template to approximate the relative organization of the predicted reducing region ([DH1][KR1][ER1]) using structural alignment tools. (B) SEC purification of [M1*] monitored by UV–vis spectroscopy (280 nm) and SDS-PAGE. A HiMark prestained protein standard was used as the protein ladder.CC BY · PubMed Central
Figure 2 (A) NADPH-dependent reduction of ketone 6 to alcohol 7 by MtPKS12 [KR1]. [KR1] is composed of structural [KRS] and catalytic [KRC] subdomains, separated in sequence by [ER1]. The AF2 predicted structure of the MtPKS12 [KRS1][ER1][KRC1] didomain is shown ([ER1] is grayed out). (B) Monitoring MtPKS12 [KR1]-catalyzed reduction of 6 by NADPH depletion (340 nm). All reactions were performed in technical triplicate. Standard deviations are shown as colored error bands. (C) GC/EI-MS chromatograms showing the MtPKS12 [KR1]-catalyzed reduction of 6 to 7. The reaction reaches equilibrium after 120 min (see also Figure S11). Negative controls (sampled after 600 min) are also shown. (D) Michaelis–Menten curve for MtPKS12 [KRS1][ER1][KRC1] using ketone 6. Error bars represent standard error of three technical replicates. (E) Michaelis–Menten curve for [M1*] using ketone 6. Error bars represent the standard error of three technical replicates. (F) kcat/KM comparison between MtPKS12 [KRS1][ER1][KRC1] and [M1*] against ketone 6. Error bars represent the standard error of three technical replicates.
Figure 2 (A) NADPH-dependent reduction of ketone 6 to alcohol 7 by MtPKS12 [KR1]. [KR1] is composed of structural [KRS] and catalytic [KRC] subdomains, separated in sequence by [ER1]. The AF2 predicted structure of the MtPKS12 [KRS1][ER1][KRC1] didomain is shown ([ER1] is grayed out). (B) Monitoring MtPKS12 [KR1]-catalyzed reduction of 6 by NADPH depletion (340 nm). All reactions were performed in technical triplicate. Standard deviations are shown as colored error bands. (C) GC/EI-MS chromatograms showing the MtPKS12 [KR1]-catalyzed reduction of 6 to 7. The reaction reaches equilibrium after 120 min (see also Figure S11). Negative controls (sampled after 600 min) are also shown. (D) Michaelis–Menten curve for MtPKS12 [KRS1][ER1][KRC1] using ketone 6. Error bars represent standard error of three technical replicates. (E) Michaelis–Menten curve for [M1*] using ketone 6. Error bars represent the standard error of three technical replicates. (F) kcat/KM comparison between MtPKS12 [KRS1][ER1][KRC1] and [M1*] against ketone 6. Error bars represent the standard error of three technical replicates.CC BY · PubMed Central
Figure 3 GC/EI-MS analysis of [M1*]-derived 5a–e, detected using SIM. The chromatograms show the simultaneous detection of the molecular ion (bottom chromatograms, black) and the common McLafferty product ion (top inverted chromatograms, colored) for each analyte. (A) SIM detection of 5a. (B) SIM detection of 5b. (C) SIM detection of 5c. (D) SIM detection of 5d. (E) SIM detection of 5e. (F) Relative abundance of [M1*]-derived products, calculated from the intensity of the common McLafferty product ion.
Figure 3 GC/EI-MS analysis of [M1*]-derived 5a–e, detected using SIM. The chromatograms show the simultaneous detection of the molecular ion (bottom chromatograms, black) and the common McLafferty product ion (top inverted chromatograms, colored) for each analyte. (A) SIM detection of 5a. (B) SIM detection of 5b. (C) SIM detection of 5c. (D) SIM detection of 5d. (E) SIM detection of 5e. (F) Relative abundance of [M1*]-derived products, calculated from the intensity of the common McLafferty product ion.CC BY · PubMed Central
Figure 4 (A) GC/EI-MS chromatograms demonstrating the promiscuous TE activity of MtPKS12 KS domains, alongside negative controls. Chromatograms were recorded after 19.5 h of incubation with 2b. The proposed hydrolysis of the acyl-[KS1] Michaelis complex is also shown. (B) [KS1] TE activity against a range of acyl-CoAs (2a, 2b, 2d, and 2e), detected using the DTNB assay. Spectrophotometric detection of the TNB2– anion (412 nm) was recorded after 18 h. Background absorbance from nonenzymatic acyl-CoA hydrolysis, as well as the reaction of DTNB with surface-exposed [KS1][AT1] cysteines, was subtracted from all experimental values. Error bars represent the standard deviation of three technical replicates. (C) Representative GC/EI-MS chromatograms showing the TE activity of wild-type (WT) [KS2] and mutant H2361D [KS2] against 2b. (D) Quantified 1b titers using WT and H2361D [KS2]. Error bars represent the standard deviation of three technical replicates. (E) Proposed [KS2]-mediated acyl transfer and hydrolysis of 4b giving 5b. (F) GC/EI-MS chromatograms showing the successful [KS2]-mediated release of 5b. The instrument was configured for SIM (m/z = 74).
Figure 4 (A) GC/EI-MS chromatograms demonstrating the promiscuous TE activity of MtPKS12 KS domains, alongside negative controls. Chromatograms were recorded after 19.5 h of incubation with 2b. The proposed hydrolysis of the acyl-[KS1] Michaelis complex is also shown. (B) [KS1] TE activity against a range of acyl-CoAs (2a, 2b, 2d, and 2e), detected using the DTNB assay. Spectrophotometric detection of the TNB2– anion (412 nm) was recorded after 18 h. Background absorbance from nonenzymatic acyl-CoA hydrolysis, as well as the reaction of DTNB with surface-exposed [KS1][AT1] cysteines, was subtracted from all experimental values. Error bars represent the standard deviation of three technical replicates. (C) Representative GC/EI-MS chromatograms showing the TE activity of wild-type (WT) [KS2] and mutant H2361D [KS2] against 2b. (D) Quantified 1b titers using WT and H2361D [KS2]. Error bars represent the standard deviation of three technical replicates. (E) Proposed [KS2]-mediated acyl transfer and hydrolysis of 4b giving 5b. (F) GC/EI-MS chromatograms showing the successful [KS2]-mediated release of 5b. The instrument was configured for SIM (m/z = 74).CC BY · PubMed Central
Figure 5 (A) Proposed coupling of EcFadD to [M1*] to produce 5b from 1b via 2b. (B) Spectrophotometric detection of the EcFadD-catalyzed conversion of 1b to 2b using the ammonium molybdate assay. The released PPi forms a blue phosphomolybdate complex in the presence of a reducing agent (λmax = 580 nm). (C) GC/EI-MS chromatograms showing the successful EcFadD-[M1*] coupled production of 5b from 1b. The instrument was configured for SIM (m/z = 74).
Figure 5 (A) Proposed coupling of EcFadD to [M1*] to produce 5b from 1b via 2b. (B) Spectrophotometric detection of the EcFadD-catalyzed conversion of 1b to 2b using the ammonium molybdate assay. The released PPi forms a blue phosphomolybdate complex in the presence of a reducing agent (λmax = 580 nm). (C) GC/EI-MS chromatograms showing the successful EcFadD-[M1*] coupled production of 5b from 1b. The instrument was configured for SIM (m/z = 74).CC BY · PubMed Central

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Research works printed but not linked: 2

  1. 10.1016/S0022-2836(05)80360-2 · DOI · Paper page
  2. 10.1038/s41592-022-01488-1 · DOI · Paper page

Metadata

Authors
Herrera, M. A., McColm, S., Craigie, L.-M., Simpson, J., Brown, F., Clarke, D. J., Carr, R., & Campopiano, D. J.
Affiliations
  • University of Edinburgh (GB)
  • Ingenza (United Kingdom) (GB)
Corresponding author
Campopiano, Dominic J.
Venue
ACS Catalysis
Published
2024-10-31
Volume
14
Issue
22
Pages
16834-16842
ISSN
2155-5435 (ISSN-L)
OpenAlex
W4403942416
Cited by
1
References
41
Citations by year
2025: 1
FWCI
0.28
Type
journal article
Language
en
Open access
Locations
  • ACS Catalysis (publishedVersion, cc-by)
  • ChemRxiv (acceptedVersion, cc-by-nc-nd)
  • PubMed Central (publishedVersion, cc-by)
  • PubMed (publishedVersion)
  • Edinburgh Research Explorer (University of Edinburgh) (submittedVersion, cc-by)
Funders
  • Engineering and Physical Sciences Research Council (EP/K039717/1)
  • Industrial Biotechnology Innovation Centre
  • Biotechnology and Biological Sciences Research Council (BB/S506953/1)
Topics
  • Life Sciences › Immunology and Microbiology › Applied Microbiology and Biotechnology › Microbial Natural Products and Biosynthesis
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Microbial Metabolic Engineering and Bioproduction
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Biochemistry › Lipid metabolism and biosynthesis
Keywords
polyketide synthase, beta-ketoacyl synthase, lauric acid, polyketide biosynthesis, recombinant protein expression

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CoChat. (2026). Citation check: Repurposing a Fully Reducing Polyketide Synthase toward 2-Methyl Guerbet-like Lipids. https://app.cochat.ai/papers/10.1021/acscatal.4c04714
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Herrera, M. A., McColm, S., Craigie, L.-M., Simpson, J., Brown, F., Clarke, D. J., Carr, R., & Campopiano, D. J. (2024). Repurposing a Fully Reducing Polyketide Synthase toward 2-Methyl Guerbet-like Lipids. ACS Catalysis. https://doi.org/10.1021/acscatal.4c04714

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