bims-celmim Biomed News
on Cellular and mitochondrial metabolism
Issue of 2025–06–29
27 papers selected by
Marc Segarra Mondejar



  1. Trends Endocrinol Metab. 2025 Jun 24. pii: S1043-2760(25)00128-6. [Epub ahead of print]
      Heme has remarkable functions in mitochondrial energetics. Recently, Duerre et al. found that branched-chain amino acids (BCAA) are preferentially utilized for heme biosynthesis to facilitate mitochondrial thermogenesis in brown fat. Disrupting heme biosynthesis shifts the metabolic fate of BCAAs toward histone propionylation, inhibiting the transcription of thermogenic genes.
    Keywords:  branched-chain amino acids; brown adipose tissue; heme synthesis; histone propionylation; mitochondria
    DOI:  https://doi.org/10.1016/j.tem.2025.06.005
  2. Mol Cell. 2025 Jun 24. pii: S1097-2765(25)00507-6. [Epub ahead of print]
      ATP fuels crucial cellular processes and is obtained mostly by oxidative phosphorylation (OXPHOS) at the inner mitochondrial membrane. While significant progress has been made in mechanistic understanding of ATP production, critical aspects surrounding its substrate supply logistics are poorly understood. We identify an interaction between mitochondrial apoptosis-inducing factor 1 (AIFM1) and adenylate kinase 2 (AK2) as gatekeeper of ATP synthase. This interaction is NADH dependent and influenced by glycolysis, linking it to the cell's metabolic state. Genetic interference with AIFM1/AK2 association impedes the ability of Caenorhabditis elegans animals to handle altered metabolic rates and nutrient availability. Together, the results imply AIFM1 as a cellular NADH sensor, placing AK2 next to the OXPHOS complexes for local ADP regeneration as the substrate for ATP synthesis. This metabolic signal relay balances ATP synthase substrate supply against ATP conservation, enabling cells to adapt to fluctuating energy availability, with possible implications for AIFM1-related mitochondrial diseases.
    Keywords:  AIFM1; AK2; ATP synthesis; OXPHOS; adenylate kinase 2; apoptosis-inducing factor 1; cell signaling; crosslinking mass spectrometry; energy metabolism; mitochondria; mitochondrial; oxidative phosphorylation; protein structure; protein-protein interaction
    DOI:  https://doi.org/10.1016/j.molcel.2025.06.007
  3. Cells. 2025 Jun 16. pii: 911. [Epub ahead of print]14(12):
      Alzheimer's disease (AD) is a progressive neurodegenerative disorder marked by neuronal loss, cognitive decline, and pathological hallmarks such as amyloid-beta (Aβ) plaques and tau neurofibrillary tangles. Recent evidence highlights autophagy as a pivotal mechanism in cellular homeostasis, mediating the clearance of misfolded proteins and damaged organelles. However, impaired autophagy contributes significantly to AD pathogenesis by disrupting proteostasis, exacerbating neuroinflammation, and promoting synaptic dysfunction. This review aims to scrutinize the intricate relationship between autophagy dysfunction and AD progression, explaining key pathways including macroautophagy, chaperone-mediated autophagy (CMA), and selective autophagy processes such as mitophagy and aggrephagy. This further extends the discussion beyond the central nervous system, evaluating the role of hepatic autophagy in Aβ clearance and systemic metabolic regulation. An understanding of autophagy's involvement in AD pathology via various mechanisms could give rise to a novel therapeutic strategy targeting autophagic modulation to mitigate disease progression in the future.
    Keywords:  Alzheimer’s disease; amyloid-beta clearance; autophagy; neurodegeneration; tau pathology
    DOI:  https://doi.org/10.3390/cells14120911
  4. Cells. 2025 Jun 07. pii: 859. [Epub ahead of print]14(12):
      Metabolism is a complex network of biochemical pathways that break down macromolecules to produce energy essential for cellular function. Disruptions in metabolic homeostasis are closely linked to noncommunicable diseases (NCDs) such as cardiovascular disease, type 2 diabetes, and cancer, which are leading causes of death worldwide. Many NCD-associated conditions, including obesity and insulin resistance, stem from metabolic dysfunction, and current therapies often fall short in preventing disease progression, highlighting the need for novel therapeutic targets. Microproteins, small proteins of ≤100-150 amino acids, have recently emerged as important regulators of metabolism. Encoded by short open reading frames (sORFs), many of these proteins were historically overlooked due to their small size and misclassification as noncoding RNAs. Advances in genomics and proteomics have revealed that these sORFs can encode functional proteins with critical roles in metabolic pathways. In this review, we highlight the microproteins involved in energy metabolism, mitochondrial function, and nutrient signaling. We discuss their emerging roles in the pathogenesis of NCDs and explore their potential as novel therapeutic targets. As microprotein biology continues to evolve, these small but powerful regulators may offer new strategies for treating metabolic dysfunction and reducing the global burden of NCDs.
    Keywords:  metabolism; microprotein; mitochondrial function; small open reading frame
    DOI:  https://doi.org/10.3390/cells14120859
  5. bioRxiv. 2025 Apr 07. pii: 2025.02.20.639106. [Epub ahead of print]
      The Voltage Dependent Anion Channel (VDAC) is the most ubiquitous protein in the mitochondrial outer membrane. This channel facilitates the flux of water-soluble metabolites and ions like calcium across the mitochondrial outer membrane. Beyond this canonical role, VDAC has been implicated, through interactions with protein partners, in several cellular processes such as apoptosis, calcium signaling, and lipid metabolism. There are three VDAC isoforms in mammalian cells, VDAC 1, 2, and 3, with varying tissue-specific expression profiles. From a biophysical standpoint, all three isoforms can conduct metabolites and ions with similar efficiency. However, isoform knockouts (KOs) in mice lead to distinct phenotypes, which may be due to differences in VDAC isoform interactions with partner proteins. To understand the functional role of each VDAC isoform within a single cell type, we created functional KOs of each isoform in HeLa cells and performed a comparative study of their metabolic activity and proteomics. We found that each isoform KO alters the proteome differently, with VDAC3 KO dramatically downregulating key members of the electron transport chain (ETC) while shifting the mitochondria into a glutamine-dependent state. Importantly, this unexpected dependence of mitochondrial function on the VDAC3 isoform is not compensated by the more ubiquitously expressed VDAC1 and VDAC2 isoforms. In contrast, VDAC2 KO did not affect respiration but upregulated ETC components and decreased key enzymes in the glutamine metabolic pathway. VDAC1 KO specifically reduced glycolytic activity linked to decreased hexokinase localization to mitochondria. These results reveal non-redundant roles of VDAC isoforms in cancer cell metabolic adaptability.
    DOI:  https://doi.org/10.1101/2025.02.20.639106
  6. Nature. 2025 Jun 25.
      The nervous system has a pivotal role in cancer biology, and pathological investigations have linked intratumoural nerve density to metastasis1. However, the precise impact of cancer-associated neurons and the communication channels at the nerve-cancer interface remain poorly understood. Previous cancer denervation models in rodents and humans have highlighted robust cancer dependency on nerves, but the underlying mechanisms that drive nerve-mediated cancer aggressivity remain unknown2,3. Here we show that cancer-associated neurons enhance cancer metabolic plasticity by transferring mitochondria to cancer cells. Breast cancer denervation and nerve-cancer coculture models confirmed that neurons significantly improve tumour energetics. Neurons cocultured with cancer cells undergo metabolic reprogramming, resulting in increased mitochondrial mass and subsequent transfer of mitochondria to adjacent cancer cells. To precisely track the fate of recipient cells, we developed MitoTRACER, a reporter of cell-to-cell mitochondrial transfer that permanently labels recipient cancer cells and their progeny. Lineage tracing and fate mapping of cancer cells acquiring neuronal mitochondria in primary tumours revealed their selective enrichment at metastatic sites following dissemination. Collectively, our data highlight the enhanced metastatic capabilities of cancer cells that receive mitochondria from neurons in primary tumours, shedding new light on how the nervous system supports cancer metabolism and metastatic dissemination.
    DOI:  https://doi.org/10.1038/s41586-025-09176-8
  7. Nat Commun. 2025 Jun 25. 16(1): 5377
      Healthy blood vessels supply neurons to preserve metabolic function. In blinding proliferative retinopathies (PRs), pathological neovascular tufts often emerge in lieu of needed physiological revascularization. Here we show that metabolic shifts in the neovascular niche define angiogenic fate. Fatty acid oxidation (FAO) metabolites accumulated in human and murine retinopathy samples. Neovascular tufts with a distinct single-cell transcriptional signature highly expressed FAO enzymes. The deletion of Sirt3, an FAO regulator, shifted the neovascular niche metabolism from FAO to glycolysis and suppressed tuft formation. This metabolic transition increased Vegf expression in astrocytes and reprogrammed pathological neovessels to a physiological phenotype, hastening vascular regeneration of the ischemic retina and improving vision. Hence, strategies to change the metabolic environment of vessels could promote a regenerative phenotype in vascular diseases.
    DOI:  https://doi.org/10.1038/s41467-025-60061-4
  8. Cell Death Differ. 2025 Jun 23.
      As cancer cell specific rewiring of metabolic networks creates potential therapeutic opportunities, we conducted a synthetic lethal screen utilizing inhibitors of metabolic pathways. Simultaneous administration of (R)-GNE-140 and BMS-986205 (Linrodostat) preferentially halted proliferation of ovarian cancer cells, but not of their non-oncogenically transformed progenitor cells. While (R)-GNE-140 inhibits lactate dehydrogenase (LDH)A/B and thus effective glycolysis, BMS-986205, in addition to its known inhibitory activity on Indoleamine 2,3-dioxygenase (IDO1), also restricts oxidative phosphorylation (OXPHOS), as revealed here. BMS-986205, which is being tested in multiple Phase III clinical trials, inhibits the ubiquinone reduction site of respiratory complex I and thus compromises mitochondrial ATP production. The energetic catastrophe caused by simultaneous interference with glycolysis and OXPHOS resulted in either cell death or the induction of senescence in tumor cells, with the latter being eliminated by senolytics. The frequent synergy observed with combined inhibitor treatment was comprehensively confirmed through testing on tumor cell lines from the DepMap panel and on human colorectal cancer organoids. These experiments revealed highly synergistic activity of the compounds in a third of the tested tumor cell lines, correlating with alterations in genes with known roles in metabolic regulation and demonstrating the therapeutic potential of metabolic intervention.
    DOI:  https://doi.org/10.1038/s41418-025-01532-5
  9. Cell Rep. 2025 Jun 20. pii: S2211-1247(25)00663-1. [Epub ahead of print]44(7): 115892
      Efforts to generate mature stem cell-derived β (SC-β) cells have been ongoing for decades, yet their functional performance still falls short of primary human β cells. Despite extensive research into the mechanisms of β cell maturation, the key pathways driving SC-β cells to achieve glucose-stimulated insulin secretion (GSIS) remain unclear. Glycolysis and mitochondrial metabolism are integral to glucose metabolism and GSIS. Recently, glycolysis has gained more attention not only for its debatable role in glucose-stimulated Ca2+ response and GSIS but also as a regulator of β cell maturation. Here, we summarize the updated understanding of glucose metabolism in mature β and SC-β cells, highlighting a potential metabolic defect underlying SC-β immaturity. We also discuss the regulation of glucose metabolism on SC-β cell functional maturation and its therapeutic implication. This review might give a clue to adjusting differentiation strategy for generating mature SC-β cells and promote their clinical translation.
    Keywords:  CP: Metabolism; CP: Stem cell research; SC-β; functional maturation; glucose metabolism
    DOI:  https://doi.org/10.1016/j.celrep.2025.115892
  10. Metabolomics. 2025 Jun 22. 21(4): 89
       BACKGROUND: The development of adrenocortical adenoma (ACA) affects the endocrine homeostasis of the patient and causes various pathophysiological abnormalities. At this stage, the diagnosis of the disease and the distinguishing of adenoma subtypes in patients with ACA remains an unresolved clinical issue. Our study aimed to identify biomarkers for adenoma subtypes and their altered metabolic profiles. We also explored the metabolic differences between non-functional adenomas (NFA) of different sizes.
    METHODS: In this study, we employed untargeted metabolomic analysis on a discovery set of 246 subjects and a validation set of 275 subjects. Following the construction of a biomarker diagnostic model, we proceeded to validate the model through targeted metabolomic analysis in an independent cohort of 631 participants.
    RESULTS: In adenoma subtypes, the disturbed pathways in aldosterone-producing adenoma (APA), cortisol-producing adenoma (Cushing's syndrome, CS) and NFA were all mainly focused on the tricarboxylic acid cycle, purine metabolism, and lipid metabolism pathways. In NFA of different sizes, the metabolic profiles did not change significantly as the tumor increased in size. Furthermore, we successfully identified uric acid, isocitric acid, and proline as diagnostic biomarkers for ACA, 4-hydroxyestrone as a reliable marker for NFA, and LysoPC(P-16:0/0:0) for distinguishing APA from CS.
    CONCLUSIONS: The plasma of patients with ACA shows significant metabolic alterations, with a similar pattern of metabolic disturbances between the different adenoma subtypes. In addition, uric acid, isocitric acid and proline combinations, 4-hydroxyestrone and LysoPC (P-16:0/0:0) could serve as potential biomarkers to complement and improve the diagnosis of ACA.
    Keywords:  Adrenocortical adenomas; Biomarkers; Functional and non-functional adenoma; Metabolic landscape; Metabolomics
    DOI:  https://doi.org/10.1007/s11306-025-02284-6
  11. JACS Au. 2025 Jun 23. 5(6): 2542-2555
      Tissue metabolic alterations are associated with tumor progression and serve as clinical biomarkers. Molecular imaging methods can provide a noninvasive assessment of this altered metabolic activity. Currently, in the clinic, nuclear medicine using 18F-FDG, a radioactive analogue of glucose, is the gold standard for visualizing metabolically active tumors. However, the accompanying ionizing radiation and accumulated radiation dosage limit its unchartered use. Noninvasive imaging of tissue metabolic activity without incorporating any radioactive isotope or another additional anatomical imaging is a promising alternative to nuclear medicine. Here, we introduce the first-of-its-kind tetra glucose-conjugated molecular photoacoustic (PA) contrast agent, a water-soluble and biocompatible small molecule based on the Zn-phthalocyanine scaffold. Although the Zn-phthalocyanine core is hydrophobic, the conjugation of four glucose units through their anomeric carbon ensured the water solubility of this agent, thereby aiding in its potential translation for in vivo studies. In addition, such a conjugation contributed to the high cellular uptake of this molecule in two aerobic cancer cell lines, as demonstrated using flow cytometry and epifluorescence microscopy studies. Importantly, with live metabolic assays, we elucidated the mechanism through which the contrast agent could be utilized as a glucose antagonist in nutrient-starved cells. Finally, with real-time in vivo PA tomography studies in a 4T1 mouse tumor model, we showed maximum agent accumulation within 4 h and tumor washout within 12 h post intravenous administration. Noninvasive molecular PA imaging of metabolic tumors with this probe offers a promising alternative to nuclear medicine, especially in assessing therapy response with the requirement of shorter intervals for follow-up in the clinic.
    Keywords:  in vivo metabolic imaging; photoacoustic imaging; phthalocyanines; small-molecule contrast; tumor metabolism
    DOI:  https://doi.org/10.1021/jacsau.5c00151
  12. Biochem Biophys Res Commun. 2025 Jun 24. pii: S0006-291X(25)00969-6. [Epub ahead of print]777 152254
      Mitophagy, a core mechanism governing cellular homeostasis, plays dual roles in tumorigenesis and therapeutic response by selectively eliminating damaged mitochondria. This review systematically summarizes the molecular mechanisms of mitophagy mediated by receptor-dependent ubiquitin-independent pathways and ubiquitin-dependent pathways, and explores their intricate crosstalk with tumor cell death modalities. Mitophagy dynamically regulates mitochondrial quality to modulate the progression of apoptosis, ferroptosis, necroptosis, immunogenic cell death (ICD), and pyroptosis. Notably, mitophagy exhibits context-dependent roles in tumors: moderate activation suppresses tumor growth by clearing carcinogen-damaged mitochondria, whereas excessive activation may directly induce cell death via functional mitochondrial depletion or synergize with chemotherapy to amplify tumor eradication. Furthermore, this review highlights the challenges in therapeutic strategies targeting the mitophagy-tumor death axis, emphasizing the potential of spatiotemporal-specific regulation and combinatorial interventions across distinct death pathways, thereby providing a theoretical framework for precision oncology.
    Keywords:  Cellular homeostasis; Mitophagy; Tumor cell death; Ubiquitin-dependent pathways; Ubiquitin-independent pathways
    DOI:  https://doi.org/10.1016/j.bbrc.2025.152254
  13. J Cell Biol. 2025 Aug 04. pii: e202408025. [Epub ahead of print]224(8):
      Mutations in the E3 ubiquitin ligase Parkin gene have been linked to early onset Parkinson's disease. Besides many other roles, Parkin is involved in clearance of damaged mitochondria via mitophagy-a process of particular importance in dopaminergic neurons. Upon mitochondrial damage, Parkin accumulates at the outer mitochondrial membrane and is activated, leading to ubiquitination of many mitochondrial substrates and recruitment of mitophagy effectors. While the activation mechanisms of autoinhibited Parkin have been extensively studied, it remains unknown how Parkin recognizes its substrates for ubiquitination. Here, we characterize a conserved region in the flexible linker between the Ubl and RING0 domains of Parkin, which is indispensable for Parkin interaction with the mitochondrial GTPase Miro1. Our results may explain fast kinetics of Miro1 ubiquitination by Parkin in recombinant assays and provide a biochemical explanation for Miro1-dependent Parkin recruitment to the mitochondrial membrane observed in cells. Our findings are important for understanding mitochondrial homeostasis and may inspire new therapeutic avenues for Parkinson's disease.
    DOI:  https://doi.org/10.1083/jcb.202408025
  14. Int J Mol Sci. 2025 Jun 07. pii: 5481. [Epub ahead of print]26(12):
      Recent advances in flow cytometry facilitate the detection of subcellular components, such as organelles and vesicles. Fluorescence-activated mitochondria sorting (FAMS) is a flow cytometry-based technique that allows for quantitative analysis and sorting of mitochondria as individual organelles from various tissues and in vitro cell culture. This manuscript details three novel applications of this technique to study mitochondrial function on an organelle-specific level, which is not possible with other approaches. Specifically, we detail the further development and versatility of this nanoscaled flow cytometry approach, including assays to quantitatively assess mitochondrial subpopulations, mitochondrial protein translocation, and both free-floating and EV-encapsulated secreted mitochondria. We demonstrate a multi-parameter quantitative assay for the analysis of mitochondrial autophagy using antibodies targeting the proteins PINK1 and Parkin corresponding to ΔΨM and further show how these can be assessed for mtDNA content on a single organelle level. Further, we establish parameters for the size and surface marker-based analysis of EVs, many of which contain identifiable and respiring mitochondria, as well as free-floating respiratory-competent mitochondria. These results display the versatility of nanoscaled flow cytometry in terms of both sample input and target organelle and provide an important methodological means for the quantitative assessment of mitochondrial features.
    Keywords:  extracellular vesicle sorting; flow cytometry; fluorescence-activated mitochondria sorting; mitochondria; organelle sorting
    DOI:  https://doi.org/10.3390/ijms26125481
  15. bioRxiv. 2025 Apr 20. pii: 2025.04.17.649437. [Epub ahead of print]
      High aerobic glycolysis in retinal photoreceptors, as in cancer cells, is implicated in mitigating energy and metabolic demands. Lactate, a product of glycolysis, plays a key role in epigenetic regulation through histone lactylation in cancer. Here, we demonstrate that increased ATP production during retinal development is achieved primarily through augmented glycolysis. Histone lactylation, especially H3K18La, parallels enhanced glycolysis and lactate in developing retina and in retinal explants. Multi-omics analyses, combined with confocal imaging, reveal the localization of H3K18La near H3K27Ac in euchromatin at promoters of active retinal genes. H3K18La and gene expression are also concordant with glucose metabolism in retinal explants. Evaluation of accessible chromatin at H3K18La marked promoters uncovers an enrichment of GC-rich motifs for transcription factors of SP, KMT and KLF families, among others, indicating specificity of H3K18La-mediated gene regulation. Our results highlight glycolysis/lactate/H3K18La as a regulatory axis in fine-tuning gene expression in developing and mature retina.
    DOI:  https://doi.org/10.1101/2025.04.17.649437
  16. Sci Adv. 2025 Jun 27. 11(26): eads6132
      Mechanotransduction is essential for living cells to adapt to their extracellular environment. However, it is unclear how the biophysical adaptation of intracellular organelles responds to mechanical stress or how these adaptive changes affect cellular homeostasis. Here, using the tendon cell as a mechanosensitive cell type within a bioreactor, we show that the tension of the plasma membrane (PM) and the endoplasmic reticulum (ER) adaptively increases in response to repetitive external stimuli. Depletion of stromal interaction molecule 1 (STIM1), the highest expressed PM-ER tether protein, interfered with mechanotransduction from the PM to the ER, and affected the ER tension. We found that an optimized mechanical strain increased ER tension in a homeostatic manner, but excessive strain resulted in ER expansion, as well as activating ER stress. Last, we showed that changes in ER tension were linked with ER-mitochondria interactions and associated with cellular energetics and function. Together, these findings identify a PM-ER mechanotransduction mechanism that dose-dependently regulates cellular metabolism.
    DOI:  https://doi.org/10.1126/sciadv.ads6132
  17. Nat Commun. 2025 Jun 25. 16(1): 5379
      Dysregulation of redox homeostasis is implicated in the ageing process and the pathology of age-related diseases. To study redox signalling by H2O2 in vivo, we established a redox-shifted model by manipulating levels of the H2O2-degrading enzyme catalase in Drosophila. Here we report that ubiquitous over-expression of catalase robustly extends lifespan in females. As anticipated, these flies are strongly resistant to a range of oxidative stress challenges, but interestingly are sensitive to starvation, which could not be explained by differences in levels of energy reserves. This led us to explore the contribution of autophagy, which is an important mechanism for organismal survival in response to starvation. We show that autophagy is essential for the increased lifespan by catalase upregulation, as the survival benefits are completely abolished upon global autophagy knock-down. Furthermore, using a specific redox-inactive knock-in mutant, we highlight the in vivo role of a key regulatory cysteine residue in Atg4a, which is required for the lifespan extension in our catalase model. Altogether, these findings confirm the redox regulation of autophagy in vivo as an important modulator of longevity.
    DOI:  https://doi.org/10.1038/s41467-025-60603-w
  18. Metabolites. 2025 Jun 16. pii: 404. [Epub ahead of print]15(6):
      Life is defined descriptively by the capacity for metabolism, homeostasis, self-organization, growth, adaptation, information metabolism, and reproduction. All these are achieved by a set of self-organizing and self-sustaining processes, among which energy and information metabolism play a dominant role. The energy metabolism of the human body is based on glucose and lipid metabolism. All energy-dependent life processes are controlled by phosphate and calcium signaling. To maintain the optimal levels of energy metabolism, cells, tissues, and the nervous system communicate mutually, and as a result of this signaling, metabolism emerges with self-awareness, which allows for conscience social interactions, which are the most significant determinants of human life. Consequently, the brain representation of our body and the egocentric representation of the environment are built. The last determinant of life optimization is the limited life/death cycle, which exhibits the same pattern at cellular and social levels. This narrative review is my first attempt to systematize our knowledge of life phenomena. Due to the extreme magnitude of this challenge, in the current article, I tried to summarize the current knowledge about fundamental life processes, i.e., energy and information metabolism, and, thus, initiate a broader discussion about the life and future of our species.
    Keywords:  cellular turnover; death; energy metabolism; information metabolism; life; senescence
    DOI:  https://doi.org/10.3390/metabo15060404
  19. Nat Rev Drug Discov. 2025 Jun 26.
      The depletion or accumulation of metabolites in the tumour microenvironment is one of the hallmarks of cancer, but targeting cancer cell metabolism therapeutically must also take into account the impact on metabolic pathways in immune cells. As we understand more about immunometabolism, opportunities arise for synergies between agents that modulate metabolism and immunotherapy. In this Review, we discuss the pivotal role of metabolic pathways in both cancer and immune cells in shaping the tumour microenvironment. We survey major anabolic and catabolic pathways and discuss how metabolic modulators and dietary nutrients can improve the anticancer immune response and overcome drug resistance mechanisms. Agents in the clinic include inhibitors of the adenosine and tryptophan pathways, and we discuss opportunities and challenges for successful drug development in the context of immune checkpoint blockade and chimeric antigen receptor (CAR)-T cell therapies.
    DOI:  https://doi.org/10.1038/s41573-025-01227-z
  20. Nat Cell Biol. 2025 Jun 27.
      Lipid transport proteins (LTPs) facilitate non-vesicular lipid exchange between cellular compartments and have critical roles in lipid homeostasis. A recently identified family of bridge-like LTPs (BLTPs) is thought to form lipid-transporting conduits between organelles. One of these, BLTP2, is conserved across species but its function is not known. Here we show that BLTP2 regulates plasma membrane (PM) fluidity by increasing phosphatidylethanolamine (PE) levels in the PM. BLTP2 localizes to endoplasmic reticulum (ER)-PM contact sites, and transports PE in vivo, suggesting it drives PE movement from ER to PM. We find that BLTP2 works in parallel with another pathway that regulates intracellular PE distribution and PM fluidity. BLTP2 expression correlates with breast cancer aggressiveness. We found that BLTP2 facilitates growth of a triple negative breast cancer cell line and sustains its aggressiveness in an in vivo model of metastasis, suggesting maintenance of PM fluidity by BLTP2 may be critical for tumorigenesis in humans.
    DOI:  https://doi.org/10.1038/s41556-025-01672-3
  21. J Cell Biol. 2025 Aug 04. pii: e202409103. [Epub ahead of print]224(8):
      Hypoxia-inducible factors (HIFs) mediate cellular responses to low oxygen, notably enhanced fermentation that acidifies poorly perfused tissues and may eventually become more damaging than adaptive. How pH feeds back on hypoxic signaling is unclear but critical to investigate because acidosis and hypoxia are mechanistically coupled in diffusion-limited settings, such as tumors. Here, we examined the pH sensitivity of hypoxic signaling in colorectal cancer cells that can survive acidosis. HIF-1α stabilization under acidotic hypoxia was transient, declining over 48 h. Proteomic analyses identified responses that followed HIF-1α, including canonical HIF targets (e.g., CA9, PDK1), but these did not reflect a proteome-wide downregulation. Enrichment analyses suggested a role for lysosomal degradation. Indeed, HIF-1α destabilization was blocked by inactivating lysosomes, but not proteasome inhibitors. Acidotic hypoxia stimulated lysosomal activity and autophagy via mammalian target of rapamycin complex I (mTORC1), resulting in HIF-1α degradation. This response protects cells from excessive acidification by unchecked fermentation. Thus, alkaline conditions are permissive for at least some aspects of HIF-1α signaling.
    DOI:  https://doi.org/10.1083/jcb.202409103
  22. Proc Natl Acad Sci U S A. 2025 Jul;122(26): e2417821122
      Metabolic homeostasis is essential for survival; however, many studies have focused on the fluctuations of these factors. Furthermore, while metabolic homeostasis depends on the balance between the production and consumption of metabolites, there have been limited investigations into the mechanisms regulating their consumption. S-adenosylmethionine (SAM) metabolism has diverse functions, including methylation, polyamine biosynthesis, and transsulfuration, making its regulation and control crucial. Recent studies have revealed the feedback regulation of SAM production; however, the mechanisms governing its consumption are still poorly understood. In this study, we focused on the stability of SAM levels in the fat body (FB) of Drosophila, which serves as a functional equivalent of the mammalian liver and adipose tissue, under conditions of SAM shortage, including nutrient deprivation. We found that glycine N-methyltransferase (Gnmt), a major SAM-consuming methyltransferase in the FB, decreased via the nuclear ubiquitin-proteasome system (UPS), along with the inhibition of SAM synthesis and starvation. The inhibition of Gnmt level reduction by suppression of the nuclear UPS causes starvation tolerance. Thus, the regulation of Gnmt levels through nuclear UPS-mediated reduction helps maintain SAM levels under SAM shortage conditions.
    Keywords:  Drosophila; S-adenosylmethionine; fat body; metabolism; ubiquitin–proteasome system
    DOI:  https://doi.org/10.1073/pnas.2417821122
  23. MedComm (2020). 2025 Jul;6(7): e70120
      Glutaminolysis, the metabolic process of converting glutamine into key intermediates, plays an essential role in cellular energy production, signaling, biosynthesis, and redox balance. Deregulation of glutamine metabolism significantly influences various pathological conditions, including cancers and metabolic and neurological diseases. Emerging evidence shows that long noncoding RNAs (lncRNAs), circular RNAs (circRNAs), and oncogenic alterations in glutamine transporters and enzymes enhance glutamine's role as an alternative energy source, supporting cell survival and proliferation under nutrient and oxygen deprivation conditions. To combat the pathogenic effects of altered glutamine metabolism, researchers are developing targeted inhibitors of key enzymes and transporters involved in glutaminolysis. By interfering with the mechanisms that support the growth of cancer cells, these inhibitors may be able to stop the growth of tumors and treat metabolic and neurological conditions. This review provides a comprehensive overview of existing inhibitors and ongoing clinical trials targeting glutamine metabolism, focusing on its potential as a cancer therapeutic strategy. Additionally, the role of lncRNAs and circRNAs in regulating glutamine metabolism is explored, revealing novel avenues for therapeutic intervention in cancer and other diseases.
    Keywords:  cancer; circular RNAs; glutamine metabolism; glutaminolysis; long noncoding RNAs; therapeutic targeting
    DOI:  https://doi.org/10.1002/mco2.70120
  24. J Vis Exp. 2025 Jun 06.
      Optical imaging technologies are critical in biomedical studies for their ability to obtain both morphological and functional information from biological specimens at high spatial resolution. These optical processes exploit various light-molecule interactions, such as scattering, absorption, emission, and harmonic generation, between photons and the molecules within cells, tissues, or organs. While conventional biomedical imaging has historically focused on applying a single modality, recent research has shown that these diverse techniques provide complementary insights, and their combined outputs offer a more comprehensive understanding of molecular changes in aging processes and disease development and fundamentals in cell biology. In the past decades, label-free optical imaging methods have advanced, enabling detailed exploration of cellular and subcellular environments. For instance, multiphoton fluorescence (MPF) not only facilitates targeted protein imaging but also quantifies metabolic activity through autofluorescent coenzymes, achieving high penetration depth and spatial resolution. Second Harmonic Generation (SHG) is used to image structures like collagen in the extracellular matrix, while Stimulated Raman Scattering (SRS) maps chemical bonds and molecular composition in situ with subcellular resolution. We have developed a multimodal imaging platform that combines MPF, SHG, and SRS modalities. The integration of these modalities into a single platform enables the acquisition of multifaceted information from the same localization within cells, tissues, organs, or even bodies, facilitating a more detailed exploration of the intricate relationships between cellular metabolism, extracellular matrix structure, and molecular composition. This multimodal system offers subcellular resolution, deep tissue penetration, in situ live-cell/tissue imaging, as well as label-free detection and instantaneous coregistration without the need for position adjustments, device switching, or postanalysis alignment. Here, we present a protocol for label-free imaging with this multimodal platform and demonstrate its application in characterizing cellular metabolism, and molecular heterogeneity in cells and tissues for studying aging and diseases.
    DOI:  https://doi.org/10.3791/67906
  25. Nat Rev Cardiol. 2025 Jun 22.
      The number of patients with heart failure is expected to rise sharply owing to ageing populations, poor dietary habits, unhealthy lifestyles and improved survival rates from conditions such as hypertension and myocardial infarction. Heart failure is classified into two main types: heart failure with reduced ejection fraction (HFrEF) and heart failure with preserved ejection fraction (HFpEF). These forms fundamentally differ, especially in how metabolism is regulated, but they also have shared features such as mitochondrial dysfunction. HFrEF is typically driven by neuroendocrine activation and mechanical strain, which demands a higher ATP production to sustain cardiac contraction. However, the primary energy source in a healthy heart (fatty acid β-oxidation) is often suppressed in HFrEF. Although glucose uptake increases in HFrEF, mitochondrial dysfunction disrupts glucose oxidation, and glycolysis and ketone oxidation only partially compensate for this imbalance. Conversely, HFpEF, particularly in individuals with metabolic diseases, such as obesity or type 2 diabetes mellitus, results from both mechanical and metabolic overload. Elevated glucose and lipid levels overwhelm normal metabolic pathways, leading to an accumulation of harmful metabolic byproducts that impair mitochondrial and cellular function. In this Review, we explore how disruptions in cardiac metabolism are not only markers of heart failure but also key drivers of disease progression. We also examine how metabolic intermediates influence signalling pathways that modify proteins and regulate gene expression in the heart. The growing recognition of the role of metabolic alterations in heart failure has led to groundbreaking treatments that target these metabolic disruptions, offering new hope for these patients.
    DOI:  https://doi.org/10.1038/s41569-025-01166-7
  26. Biochim Biophys Acta Bioenerg. 2025 Jun 23. pii: S0005-2728(25)00030-1. [Epub ahead of print] 149564
      Studies by microbiologists in the 1970s provided robust estimates for the energy supply and demand of a prokaryotic cell. The amount of ATP needed to support growth was calculated from the chemical composition of the cell and known enzymatic pathways that synthesize its constituents from known substrates in culture. Starting in 2015, geneticists and evolutionary biologists began investigating the bioenergetic role of mitochondria at eukaryote origin and energy in metazoan evolution using their own, widely trusted-but hitherto unvetted-model for the costs of growth in terms of ATP per cell. The more recent model contains, however, a severe and previously unrecognized error that systematically overestimates the ATP cost of amino acid synthesis up to 200-fold. The error applies to all organisms studied by such models and leads to conspicuously false inferences, for example that the synthesis of an average amino acid in humans requires 30 ATP, which no biochemistry textbook will confirm. Their ATP 'cost' calculations would require that E. coli obtains ~100 ATP per glucose and that mammals obtain ~240 ATP per glucose, untenable propositions that invalidate and void all evolutionary inferences so based. By contrast, established methods for estimating the ATP cost of microbial growth show that the first mitochondrial endosymbionts could have easily doubled the host's available ATP pool, provided (i) that genes for growth on environmental amino acids were transferred from the mitochondrial symbiont to the archaeal host, and (ii) that the host for mitochondrial origin was an autotroph using the acetyl-CoA pathway. SIGNIFICANCE STATEMENT: Life is a chemical reaction. It requires energy release in order to proceed. The currency of energy in cells is adenosine triphosphate ATP. Five decades ago, microbiologists were able to measure and understand the amount of ATP that cells require to grow. New studies by evolutionary biologists have appeared in the meantime that brush aside the older microbiological findings, using their own methods to calculate the ATP cost of growth instead. Science is, however, an imperfect undertaking. The new studies contain a major error, similar to conflating centimeters with yards. The error affects many publications and their conclusions. Using the old methods, we can still meaningfully study the role of energy in evolution, including the origin of complex, nucleus-bearing cells.
    Keywords:  ATP costs; Bioenergetics; Costs of a gene; Energy in evolution; Eukaryogenesis; Mitochondria
    DOI:  https://doi.org/10.1016/j.bbabio.2025.149564