bims-polyam Biomed News
on Polyamines
Issue of 2025–02–02
eight papers selected by
Sebastian J. Hofer, University of Graz



  1. Acta Crystallogr F Struct Biol Commun. 2025 Mar 01.
      Polyamines are key signalling and substrate molecules that are made by all organisms. The polyamine known as spermidine is typically made by spermidine synthase, but in many bacterial species, including 70% of human gut microbes, carboxyspermidine decarboxylase (CASDC) performs the terminal step in the production of spermidine. An X-ray crystal structure of CASDC from the human gut microbe Clostridium leptum has been solved by molecular replacement at a resolution of 1.41 Å. CASDC is a homodimer, with each monomer composed of two domains: a β/α-barrel pyridoxal 5'-phosphate-binding domain that forms most of the active site and a β-barrel domain that extends the dimeric interface and contributes to the active site of the opposing monomer. We performed a structural comparison of CASDC enzymes for 15 common genera within the human gut flora. This analysis reveals structural differences occurring in the β6/β7 loop that acts as a `flap' covering the active site and in the α9/β12 loop that is connected to the α9 helix which is thought to select substrates by their chain length. This structural analysis extends our understanding of a key enzyme in spermidine biosynthesis in many bacterial species.
    Keywords:  carboxyspermidine decarboxylase; gut microbiome; polyamines; spermidine
    DOI:  https://doi.org/10.1107/S2053230X25000482
  2. J Bacteriol. 2025 Jan 30. e0043924
      Mycobacterium tuberculosis is well adapted to survive and persist in the infected host, escaping the host's immune response. Since polyamines such as spermine, which are synthesized by infected macrophages, are able to inhibit the growth of M. tuberculosis, the pathogen needs strategies to cope with these toxic metabolites. The actinomycete Streptomyces coelicolor, a close relative of M. tuberculosis, makes use of a gamma-glutamylation pathway to functionally neutralize spermine. We therefore considered whether a similar pathway would be functional in M. tuberculosis. In the current study, we demonstrated that M. tuberculosis growth was inhibited by the polyamine spermine. Using in vitro enzymatic assays we determined that GlnA3Mt (Rv1878) possesses genuine gamma-glutamylspermine synthetase catalytic activity. We further showed that purified His-Strep-GlnA3Mt, as well as native GlnA3Mt, prefer spermine as a substrate over putrescine, cadaverine, spermidine, or other monoamines and amino acids, suggesting that GlnA3Mt may play a specific role in the detoxification of the polyamine spermine. However, the deletion of the glnA3 gene in M. tuberculosis did not result in growth inhibition or enhanced sensitivity of M. tuberculosis in the presence of high spermine concentrations. Gene expression analysis of spermine-treated M. tuberculosis revealed no difference in the level of glnA3Mt expression relative to untreated cells, whereas a gene encoding a previously characterized efflux pump (Mmr; rv3065) was significantly upregulated. This suggests that bacterial survival under elevated spermine concentrations can not only be achieved by detoxification of spermine itself but also by mechanisms resulting in decreased spermine levels in the bacteria.
    IMPORTANCE: Upon Mycobacterium tuberculosis infection macrophages synthesize the polyamine spermine, which at elevated concentrations is toxic for M. tuberculosis. Based on our investigations of spermine resistance in the closely related actinomycete Streptomyces coelicolor, we hypothesized that the glutamylspermine synthetase GlnA3 may be responsible for the resistance of M. tuberculosis against toxic spermine. Here we show that GlnA3Mt can indeed covalently modify spermine via glutamylation. However, GlnA3Mt is probably not the only resistance mechanism since a glnA3 null mutant of M. tuberculosis can survive under spermine stress. Gene expression studies suggest that an efflux pump may participate in resistance. Thus a combination of GlnA3Mt and specific efflux pumps acting as putative spermine transporters may constitute an active spermine-detoxification system in M. tuberculosis.
    Keywords:  GS-like enzyme; GlnA3; Rv3065; glutamylation; infection; polyamine metabolism; tuberculosis
    DOI:  https://doi.org/10.1128/jb.00439-24
  3. Arch Biochem Biophys. 2025 Jan 25. pii: S0003-9861(25)00034-7. [Epub ahead of print] 110321
      Cancer is among the leading causes of death worldwide. The effectiveness of conventional chemotherapy has some drawbacks, therefore, there is an urgency to develop novel strategies to fight this disease. Ornithine decarboxylase (ODC) is the most finely tuned enzyme of the polyamine (PA) biosynthesis pathway as it is regulated at different levels: transcriptional, translational, post-translational, and by feedback inhibition. In cancer, this enzyme is overexpressed due to its regulation by the protooncogene c-Myc, thus it has been proposed as a drug target against this disease. This review describes information regarding the biochemistry and regulation of ODC at different levels and its role in cancer. Moreover, we discuss the molecules aiming on the inhibition of the ODC activity that have been tested as therapeutic options. ODC remains as a therapeutic opportunity that needs to be more explored.
    Keywords:  Ornithine decarboxylase; c-Myc; cancer; chemotherapeutic; polyamines
    DOI:  https://doi.org/10.1016/j.abb.2025.110321
  4. J Biotechnol. 2025 Jan 24. pii: S0168-1656(25)00022-7. [Epub ahead of print]
      Methionine adenosyltransferases (MATs; EC 2.5.1.6) are key enzymes that catalyze a crucial step in the spermidine biosynthesis pathway. Due to MAT's significant product inhibition, S-adenosylmethionine (SAM) and spermidine production faces challenges. We evaluated MATs from 20 lactic acid bacteria (LAB) to identify enzymes with acidic preference and lower susceptibility to product inhibition. Lactobacillus fermentum's MAT (LfMAT) emerged as a candidate with desirable characteristics. LfMAT exhibited strong activity in acidic environments, maintaining over 85% activity between pH 6.0-8.5 for 60minutes, with peak efficacy at pH 7.0. LfMAT produced 4.2mM SAM from 5mM substrate, indicating reduced product inhibition. Ultimately, using an in vitro multi-enzyme cascade system containing LfMAT, S-adenosylmethionine decarboxylase, and spermidine synthase, we successfully produced 12.9g·L-1 of spermidine. This study establishes a cascade reaction platform, offering a novel approach for the efficient synthesis of spermidine and other polyamines.
    Keywords:  Lactic acid bacteria; Methionine adenosyltransferases; Multi-enzyme cascade system; Product inhibition; Spermidine
    DOI:  https://doi.org/10.1016/j.jbiotec.2025.01.016
  5. Appl Environ Microbiol. 2025 Jan 29. e0097924
      High temperature is an unavoidable environmental stress that generally exerts detrimental effects on organisms and has widespread effects on metabolism. Spermidine is an important member of the polyamines family and is involved in a range of abiotic stress responses in plants. Mitochondria play an essential role in cellular homeostasis and are key components of the stress response. Our results indicated that mitochondrial respiratory intensity increased by 80% in wild-type (WT) under heat stress, but the activities of key enzymes of the tricarboxylic acid (TCA) cycle and electron transport chain (ETC) were significantly reduced upon the knockdown of the spermidine synthase gene (spdS). Furthermore, the content of mitochondrial pyruvate decreased by 36.1%, whereas the levels of free fatty acid increased by 28.8% under heat stress. Upon spdS knockdown, the content of mitochondrial pyruvate was similar to that in the WT, but the medium-chain fatty acid (C6:0) decreased by 68.6%-84.2%, whereas the long-chain fatty acid (C18:2) marginally increased. Subsequent studies demonstrated that spermidine promoted the translation of long chain acyl-CoA dehydrogenase (LCAD) and mitochondrial trifunctional protein (MTP, also known as HADH), thereby enhancing fatty acid β-oxidation under heat stress. In conclusion, spermidine enhances key TCA cycle and ETC enzyme activities and is involved in heat stress-induced fatty acid β-oxidation by promoting the translation of LCAD and HADH, thereby improving the heat tolerance of Ganoderma lucidum.
    IMPORTANCE: Polyamines are stress-responsive molecules that enhance the tolerance of plants to multiple abiotic stresses by regulating a variety of biological processes. Our previous research indicated that heat stress induces the the biosynthesis of polyamines and promotes the conversion of putrescine to spermidine in G. lucidum, but the physiological role of elevated spermidine levels is yet to be elucidated. In this study, our findings demonstrated that spermidine enhances the heat tolerance in G. lucidum and that mitochondrial respiration is essential for spermidine-enhanced heat tolerance. This study elucidated a preliminary mechanism by which spermidine enhances heat tolerance of G. lucidum and provided a new insight into the understanding of how microorganisms resist heat stress.
    Keywords:  abiotic stress; fatty acid β-oxidation; heat tolerance; mitochondrial respiration; polyamines
    DOI:  https://doi.org/10.1128/aem.00979-24
  6. bioRxiv. 2025 Jan 18. pii: 2025.01.17.633452. [Epub ahead of print]
    Alzheimer’s Disease Metabolomics Consortium
      Previously, our metabolomic, transcriptomic, and genomic studies characterized the ceramide/sphingomyelin pathway as a therapeutic target in Alzheimer's disease, and we demonstrated that FTY720, a sphingosine-1-phospahate receptor modulator approved for treatment of multiple sclerosis, recovers synaptic plasticity and memory in APP/PS1 mice. To further investigate how FTY720 rescues the pathology, we performed metabolomic analysis in brain, plasma, and liver of trained APP/PS1 and wild-type mice. APP/PS1 mice showed area-specific brain disturbances in polyamines, phospholipids, and sphingolipids. Most changes were completely or partially normalized in FTY720-treated subjects, indicating rebalancing the "sphingolipid rheostat", reactivating phosphatidylethanolamine synthesis via mitochondrial phosphatidylserine decarboxylase pathway, and normalizing polyamine levels that support mitochondrial activity. Synaptic plasticity and memory were rescued, with spermidine synthesis in temporal cortex best corresponding to hippocampal CA3-CA1 plasticity normalization. FTY720 effects, also reflected in other pathways, are consistent with promotion of mitochondrial function, synaptic plasticity, and anti-inflammatory environment, while reducing pro-apoptotic and pro-inflammatory signals.
    DOI:  https://doi.org/10.1101/2025.01.17.633452
  7. J Biol Chem. 2025 Jan 23. pii: S0021-9258(25)00065-1. [Epub ahead of print] 108218
      The mitochondrial Ca2+ uniporter is the Ca2+ channel responsible for mitochondrial Ca2+ uptake. It plays crucial physiological roles in regulating oxidative phosphorylation, intracellular Ca2+ signaling, and cell death. The uniporter contains the pore-forming MCU subunit, the auxiliary EMRE protein, and the regulatory MICU1 subunit, which blocks the MCU pore under resting cellular Ca2+ concentrations. It has been known for decades that spermine, a biological polyamine ubiquitously present in animal cells, can enhance mitochondrial Ca2+ uptake, but the underlying mechanisms remain incompletely understood. In this study, we demonstrate that spermine exerts both potentiation and inhibitory effects on the uniporter. At physiological concentrations, spermine binds to membranes and disrupts MCU-MICU1 interactions, thereby opening the uniporter to import more Ca2+. However, at millimolar concentrations, spermine also inhibits the uniporter by targeting the pore-forming region in a MICU1-independent manner. These findings provide molecular insights into how cells can use spermine to control the critical processes of mitochondrial Ca2+ signaling and homeostasis.
    Keywords:  calcium channel; cell signaling; channel activation; membrane biophysics; mitochondrial transport; polyamine
    DOI:  https://doi.org/10.1016/j.jbc.2025.108218
  8. J Integr Plant Biol. 2025 Jan 28.
      Tomato (Solanum lycopersicum) is an important crop but frequently experiences saline-alkali stress. Our previous studies have shown that exogenous spermidine (Spd) could significantly enhance the saline-alkali resistance of tomato seedlings, in which a high concentration of Spd and jasmonic acid (JA) exerted important roles. However, the mechanism of Spd and JA accumulation remains unclear. Herein, SlWRKY42, a Group II WRKY transcription factor, was identified in response to saline-alkali stress. Overexpression of SlWRKY42 improved tomato saline-alkali tolerance. Meanwhile, SlWRKY42 knockout mutants, exhibited an opposite phenotype. RNA-sequencing data also indicated that SlWRKY42 regulated the expression of genes involved in JA signaling and Spd synthesis under saline-alkali stress. SlWRKY42 is directly bound to the promoters of SlSPDS2 and SlNHX4 to promote Spd accumulation and ionic balance, respectively. SlWRKY42 interacted with SlMYC2. Importantly, SlMYC2 is also bound to the promoter of SlSPDS2 to promote Spd accumulation and positively regulated saline-alkali tolerance. Furthermore, the interaction of SlMYC2 with SlWRKY42 boosted SlWRKY42's transcriptional activity on SlSPDS2, ultimately enhancing the tomato's saline-alkali tolerance. Overall, our findings indicated that SlWRKY42 and SlMYC2 promoted saline-alkali tolerance by the Spd biosynthesis pathway. Thus, this provides new insight into the mechanisms of plant saline-alkali tolerance responses triggered by polyamines (PAs).
    Keywords:  SlMYC2; SlWRKY42; jasmonic acid; saline‐alkali stress; spermidine; tomato
    DOI:  https://doi.org/10.1111/jipb.13839