bims-celmim Biomed News
on Cellular and mitochondrial metabolism
Issue of 2025–01–05
29 papers selected by
Marc Segarra Mondejar



  1. Alzheimers Dement. 2024 Dec;20 Suppl 1 e091624
       BACKGROUND: Amyloid Precursor Protein (APP) processing to Aβ is well understood but the function of APP is largely unknown. APP is expressed ubiquitously and localizes to mitochondria. The consequences of mitochondrial APP localization are not known. We leveraged models of altered APP mitochondrial localization to understand the relationship between APP and mitochondrial function.
    METHOD: We have generated several isogenic iPSC lines using Crispr/Cas9 including WT APP (no gene targeting), 3M APP homozygous and hemizygous (which harbors mutations at amino acids +41, +44, and +52 (His to Asp)), APP knockdown (missing one allele), APP knockout (missing both alleles), and APP duplication. These iPSC lines were differentiated into both neurons and astrocytes. Mitochondrial localization of APP was quantified using Western blot analysis. Aβ was measured via ELISA. Mitochondrial respiratory function was analyzed using Seahorse Technology or Vmax spectrophotometric assays. Mitophagy was examined by qPCR against mitochondrial DNA content and an adenovirus expressing EGFP-COX8. Mitochondrial biogenesis and turnover were measured using an adenoviral MitoTimer vector.
    RESULT: 3M APP and knockdown/knockout APP models had reduced mitochondrial APP localization while APP duplication had increased mitochondrial APP localization. Models with reduced APP localization to mitochondria had reduced Aβ production, while APP duplication had increased Aβ production. Reduced mitophagy levels and altered mitochondrial biogenesis were observed in models with reduced mitochondrial APP localization. APP duplication increased mitophagy and altered mitochondrial biogenesis. Both reduced and increased mitochondrial APP localization reduced mitochondrial respiratory function.
    CONCLUSION: APP localization to mitochondria alters mitochondrial function, mitochondrial mass, and mitophagy. Further studies are in progress to elucidate the effects of mitochondrial localization of APP on bioenergetics.
    DOI:  https://doi.org/10.1002/alz.091624
  2. Alzheimers Dement. 2024 Dec;20 Suppl 1 e085373
       BACKGROUND: While disease-modifying treatments that reduce Aβ have been recently approved by the FDA, the identification of novel therapeutic targets and strategies that target underlying mechanisms to delay the AD development are still needed. Abnormal brain energy homeostasis and mitochondria dysfunction are observed early in AD. Therefore, the development of treatments to restore these defects could be beneficial. We identified small molecule (code name CP2) as a mild and specific mitochondrial complex I (MCI) inhibitor. Application of CP2 improved brain energy homeostasis, restored synaptic and cognitive function in APP/PS1 and 3xTgAD mice. However, mechanistic relationship between MCI inhibition, glucose uptake/utilization and mitochondrial function remains to be determined.
    METHOD: Cellular energy metabolism was assessed in the neuroblastoma SH-SY5Y cells that express either mutant human APP protein (APPswe) or empty vector (control) treated with vehicle or CP2. A Seahorse Extracellular Flux Analyzer was used to measure glycolysis, oxygen consumption rate, and fatty acids β-oxidation (FAO). Flow cytometry allowed determining the translocation of glucose transporters to the cell surface. Changes in protein expression in response to treatment were assessed using Western Blot analysis. Changes in mitochondrial morphology were monitored using electron microscopy. The non-radioactive Glucose Uptake-Glo™ assay was utilized for measuring glucose uptake in cells. Metabolic flux analysis was done using 13C D-Glucose stable isotope-labeling.
    RESULTS: APPswe cells have a significant decrease in glycolysis and spare respiratory capacity, an indicator of the mitochondrial ability to produce energy under stress conditions. These observations were consistent with decreased glucose uptake, which was compensated by an increased FAO to provide axillary fuel for ATP production. Mechanistically, at the concentrations relevant to in vivo treatment in APP/PS1 and 3xTgAD mice, acute CP2 treatment increased glucose uptake and utilization through the translocation of glucose transporters to the plasma membrane while prolong CP2 treatment activated metabolic sensors and mitochondrial morphofunctional pathways (e.g., fission, fusion, biogenesis, and turnover) consistent with the improved cellular bioenergetics in the AMPK-dependent pathway.
    CONCLUSION: Data suggested that mild MCI inhibition activates multiple neuroprotective mechanisms improving cellular energy homeostasis and mitochondrial function in vivo and in vitro, representing promising strategy that target early AD mechanisms.
    DOI:  https://doi.org/10.1002/alz.085373
  3. Sci Rep. 2025 Jan 02. 15(1): 325
      Dysfunction of the endo-lysosomal intracellular Cholesterol transporter 2 protein (NPC2) leads to the onset of Niemann-Pick Disease Type C (NPC), a lysosomal storage disorder. Metabolic and homeostatic mechanisms are disrupted in lysosomal storage disorders (LSDs) hence we characterized a cellular model of NPC2 knock out, to assess alterations in organellar function and inter-organellar crosstalk between mitochondria and lysosomes. We performed characterization of lipid alterations and confirmed altered lysosomal morphology, but no overt changes in oxidative stress markers. Using several techniques, we demonstrated that contacts between mitochondria and late endosomes/lysosomes are reduced in NPC2-/- HEK cells, we observed that the acidic compartments are swollen and lipid dense. Quantification of endogenous lipids in HEKNPC2-/- cells by mass spectrometry reveals accumulation of lipid species indicative of sphingolipid metabolic dysregulation within the lysosome. Specifically, HEK NPC2-/- cells exhibit marked elevation of glucosylsphingosine and glucosylceramides, substrates of beta glucocerebroside (GBA), as well as accumulation of sphingosine and sphingomyelins. Our studies suggest an involvement of NPC2 in the formation of contact sites between mitochondria and lysosomes and support the hypothesis of a role for NPC2 in the endo-lysosomal trafficking pathway and dynamic organellar crosstalk.
    DOI:  https://doi.org/10.1038/s41598-024-83460-x
  4. Biochim Biophys Acta Rev Cancer. 2024 Dec 31. pii: S0304-419X(24)00189-6. [Epub ahead of print]1880(1): 189258
      Ferroptosis, a form of iron-dependent cell death driven by lipid peroxidation, has emerged as a critical area of research for cancer therapy. This review delves into the intricate relationship between lipid metabolism and ferroptosis, emphasizing the impact of lipidome remodeling on cancer cell susceptibility. We explore key mechanisms, such as the role of polyunsaturated fatty acids and phosphatidylethanolamines in ferroptosis induction, alongside the protective effects of monounsaturated fatty acids and their regulatory enzymes. We also discuss the influence of dietary fatty acids, lipid droplets, and the epithelial-to-mesenchymal transition on ferroptosis and cancer resistance. By integrating current findings on enzymatic regulation, lipid peroxidation pathways, and metabolic adaptations, this review highlights potential therapeutic strategies targeting lipid metabolism to enhance ferroptosis-based cancer treatments. Our goal is to provide a comprehensive overview that underscores the significance of lipid metabolic pathways in ferroptosis and their implications for developing novel cancer therapies.
    Keywords:  Ferroptosis; Lipid metabolism; Lipid peroxidation; Lipid remodeling; cancer
    DOI:  https://doi.org/10.1016/j.bbcan.2024.189258
  5. Curr Opin Cell Biol. 2024 Dec 29. pii: S0955-0674(24)00139-X. [Epub ahead of print]92 102460
      Mitochondria are dynamic organelles essential for cellular homeostasis, undergoing continuous fission and fusion processes that regulate their morphology, distribution, and function. Disruptions in these dynamics are linked to numerous diseases, including neurodegenerative disorders and cancer. Understanding these processes is vital for developing therapeutic strategies aimed at mitigating mitochondrial dysfunction. This review provides an overview of recent perspectives on mitochondrial dynamics, focusing on the need for live video microscopy imaging in order to fully understand mitochondrial phenotypes and pathology. Advanced imaging tools, such as machine learning-based segmentation and label-free microscopy approaches, have the potential to transform our ability to study mitochondrial dynamics in live cells.
    DOI:  https://doi.org/10.1016/j.ceb.2024.102460
  6. Nat Commun. 2025 Jan 02. 16(1): 129
      The bacterium Bacillus subtilis undergoes asymmetric cell division during sporulation, producing a mother cell and a smaller forespore connected by the SpoIIQ-SpoIIIA (or Q-A) channel. The two cells differentiate metabolically, and the forespore becomes dependent on the mother cell for essential building blocks. Here, we investigate the metabolic interactions between mother cell and forespore using genome-scale metabolic and expression models as well as experiments. Our results indicate that nucleotides are synthesized in the mother cell and transported in the form of nucleoside di- or tri-phosphates to the forespore via the Q-A channel. However, if the Q-A channel is inactivated later in sporulation, then glycolytic enzymes can form an ATP and NADH shuttle, providing the forespore with energy and reducing power. Our integrated in silico and in vivo approach sheds light into the intricate metabolic interactions underlying cell differentiation in B. subtilis, and provides a foundation for future studies of metabolic differentiation.
    DOI:  https://doi.org/10.1038/s41467-024-55586-z
  7. Sci Rep. 2024 Dec 28. 14(1): 31492
      Cannabis use disorder affects up to 42% of individuals with schizophrenia, correlating with earlier onset, increased positive symptoms, and more frequent hospitalizations. This study employed an untargeted lipidomics approach to identify biomarkers in plasma samples from subjects with schizophrenia, cannabis use disorder, or both (dual diagnosis), aiming to elucidate the metabolic underpinnings of cannabis abuse and schizophrenia development. The use of liquid chromatography-high resolution mass spectrometry enabled the annotation of 119 metabolites, with the highest identification confidence level achieved for 16 compounds. Notably, a marked reduction in acylcarnitines, including octanoylcarnitine and decanoylcarnitine, was observed across all patient groups compared to controls. In cannabis use disorder patients, N-acyl amino acids (NAAAs), particularly N-palmitoyl threonine and N-palmitoyl serine, showed a strong downregulation, a pattern also seen in schizophrenia and dual diagnosis patients. Conversely, elevated levels of 7-dehydrodesmosterol were detected in schizophrenia and dual diagnosis patients relative to controls. These findings suggest a potential link between metabolic disruptions and the pathophysiology of both disorders. The untargeted lipidomics approach offers a powerful tool to identify novel biomarkers, enhancing our understanding of the biological relationship between cannabis abuse and schizophrenia, and paving the way for future therapeutic strategies targeting metabolic pathways in these conditions.
    Keywords:  7-dehydrodesmosterol; Acylcarnitines; Biomarkers; Cannabis Use Disorder; Lipidomics; N-acyl amino acids; Plasma; Schizophrenia
    DOI:  https://doi.org/10.1038/s41598-024-83288-5
  8. Sci Rep. 2024 Dec 28. 14(1): 31467
      Williams Syndrome (WS) is a rare neurodevelopmental disorder with a prevalence of 1 in 7500 to 1 in 20,000 individuals, caused by a microdeletion in chromosome 7q11.23. Despite its distinctive clinical features, the underlying metabolic alterations remain largely unexplored. This study employs targeted metabolomics to investigate the metabolic characteristics of children with WS. Using liquid chromatography-tandem mass spectrometry (LC-MS/MS), we identified significant dysregulation of 15 metabolites, with 11 upregulated and 4 downregulated. Notably, amino acids such as alanine, proline, and arginine were significantly elevated. Fatty acid metabolism showed pronounced upregulation of long-chain saturated fatty acids (C18:0, C20:0, C22:0, C24:0, C26:0, and C28:0) and downregulation of long-chain unsaturated fatty acids (C18:2 LA, C22:6 DHA, C16:1 PLA, and t-C18:1 EA), except for upregulated nervonic acid (C24:1) and arachidonic acid (C20:4). Metabolic pathway analysis highlighted disruptions in arginine synthesis, arginine/proline metabolism, alanine, aspartate and glutamate metabolism, biosynthesis of unsaturated fatty acids, linoleic acid metabolism, and arachidonic acid metabolism. This study provides the first comprehensive analysis of amino acid and fatty acid metabolism in children with WS, offering insights into the disorder's complex metabolic landscape. Further validation in larger cohorts is essential to confirm these findings and their potential as biomarkers and therapeutic targets.
    Keywords:  Amino acids; Arachidonic acid (ARA); Docosahexaenoic acid (DHA); Long-chain saturated fatty acids (LC-SFAs); Targeted metabolomics; Williams Syndrome
    DOI:  https://doi.org/10.1038/s41598-024-83146-4
  9. Nat Commun. 2024 Dec 30. 15(1): 10838
      Iron is a potent biochemical, and accurate homeostatic control is orchestrated by a network of interacting players at multiple levels. Although our understanding of organismal iron homeostasis has advanced, intracellular iron homeostasis is poorly understood, including coordination between organelles and iron export into the ER/Golgi. Here, we show that SLC39A13 (ZIP13), previously identified as a zinc transporter, promotes intracellular iron transport and reduces intracellular iron levels. ZIP13 loss causes an iron deficiency in the ER/Golgi and other intracellular compartments, such as lysosomes and mitochondria, as well as elevating iron in the cytosol. ZIP13 overexpression has the opposite effect, increasing iron in organellar compartments. We suggest that ZIP13 gatekeeps an iron trafficking route that shunts iron from the cytosol to the ER/Golgi hub. Zip13-knockout male mice have iron deposition in several tissues. These data demonstrate that mammalian ZIP13 is crucial for iron homeostasis and suggest a potential iron transport function.
    DOI:  https://doi.org/10.1038/s41467-024-55149-2
  10. Alzheimers Dement. 2024 Dec;20 Suppl 1 e088368
       BACKGROUND: Genome-wide association studies (GWAS) have identified genetic loci that robustly associate with Alzheimer's Disease (AD), many of which are preferentially or exclusively expressed in innate immune cells. Among the identified AD risk genes is CD33: a transmembrane, sialic acid-binding protein expressed on the surface of myeloid cells including microglia, the innate immune cells of the CNS. The function of microglia is highly responsive to and regulated by metabolic changes, which allows them to rapidly change phenotype and maintain brain health. However, the examination of human microglial metabolism as a driving factor in AD pathogenesis is an underappreciated concept.
    METHOD: To understand the molecular function of the CD33 protein in AD, our laboratory used a cutting-edge mass spectrometry approach to identify binding partners of the CD33 sialic acid binding domain. We have also optimized a method using PBMCs from individuals of diverse age, sex, and ethnicity from which we can isolate monocytes to be differentiated to microglia-like cells (MDMi).
    RESULT: Our mass spectrometry-based approach revealed a novel interaction between CD33 and the glucose transporter GLUT1 that was further validated by proximity ligation assay (PLA) and co-immunoprecipitation (co-IP) in a human monocytic cell line. These findings prompted us to investigate CD33 genotype-specific effects on microglial metabolism using human monocytes differentiated into microglia-like cells (MDMi). We generated MDMi with different CD33 genetic backgrounds and measured their respiratory bioenergetics using a Seahorse extracellular flux analyzer. Interestingly, we found that the balance of ATP production via oxidative phosphorylation and glycolysis significantly varies with CD33 genotype at baseline. In a similar way, we found differences in glucose uptake and lactate secretion based on CD33 genotype, with AD-risk (CD33CC) MDMi taking up more glucose yet secreting less lactate compared to AD-protective (CD33AA) MDMi.
    CONCLUSION: Together, these results provide insight on microglia-specific metabolic changes due to variations in the AD-associated risk gene CD33. This novel link between genetic, immune, and metabolic risk factors in AD has the potential to reveal new therapeutic and immunomodulatory strategies with which to reduce susceptibility to this neurodegenerative disease.
    DOI:  https://doi.org/10.1002/alz.088368
  11. Nat Commun. 2025 Jan 02. 16(1): 29
      The refinement of neural circuits towards mature function is driven during development by patterned spontaneous calcium-dependent electrical activity. In the auditory system, this sensory-independent activity arises in the pre-hearing cochlea and regulates the survival and refinement of the auditory pathway. However, the origin and interplay of calcium signals during cochlear development is unknown in vivo. Here we show how calcium dynamics in the cochlear neuroepithelium of live pre-hearing mice shape the activity of the inner hair cells (IHCs) and their afferent synapses. Both IHCs and supporting cells (SCs) generate spontaneous calcium-dependent activity. Calcium waves from SCs synchronise the activity of nearby IHCs, which then spreads longitudinally recruiting several additional IHCs via a calcium wave-independent mechanism. This synchronised IHC activity in vivo increases the probability of afferent terminal recruitment. Moreover, the modiolar-to-pillar segregation in sound sensitivity of mature auditory nerve fibres appears to be primed at pre-hearing ages.
    DOI:  https://doi.org/10.1038/s41467-024-55519-w
  12. Front Immunol. 2024 ;15 1498808
      Kidney immune homeostasis is intricately linked to T cells. Inappropriate differentiation, activation, and effector functions of T cells lead to a spectrum of kidney disease. While executing immune functions, T cells undergo a series of metabolic rewiring to meet the rapid energy demand. The key enzymes and metabolites involved in T cell metabolism metabolically and epigenetically modulate T cells' differentiation, activation, and effector functions, thereby being capable of modulating kidney immune homeostasis. In this review, we first summarize the latest advancements in T cell immunometabolism. Second, we outline the alterations in the renal microenvironment under certain kidney disease conditions. Ultimately, we highlight the metabolic modulation of T cells within kidney immune homeostasis, which may shed light on new strategies for treating kidney disease.
    Keywords:  T cell; cellular metabolism; immune homeostasis; kidney disease; microenvironment
    DOI:  https://doi.org/10.3389/fimmu.2024.1498808
  13. Nat Commun. 2025 Jan 02. 16(1): 345
      Metabolic flexibility in skeletal muscle is essential for maintaining healthy glucose and lipid metabolism, and its dysfunction is closely linked to metabolic diseases. Exercise enhances metabolic flexibility, making it an important tool for discovering mechanisms that promote metabolic health. Here we show that pantothenate kinase 4 (PanK4) is a new conserved exercise target with high abundance in muscle. Muscle-specific deletion of PanK4 impairs fatty acid oxidation which is related to higher intramuscular acetyl-CoA and malonyl-CoA levels. Elevated acetyl-CoA levels persist regardless of feeding state and are associated with whole-body glucose intolerance, reduced insulin-stimulated glucose uptake in glycolytic muscle, and impaired glucose uptake during exercise. Conversely, increasing PanK4 levels in glycolytic muscle lowers acetyl-CoA and enhances glucose uptake. Our findings highlight PanK4 as an important regulator of acetyl-CoA levels, playing a key role in both muscle lipid and glucose metabolism.
    DOI:  https://doi.org/10.1038/s41467-024-55036-w
  14. Cell Mol Life Sci. 2024 Dec 31. 82(1): 32
      Over the past few decades, microtubules have been targeted by various anticancer drugs, including paclitaxel and eribulin. Despite their promising effects, the development of drug resistance remains a challenge. We aimed to define a novel cell death mechanism that targets microtubules using eribulin and to assess its potential in overcoming eribulin resistance. Notably, treating non-resistant breast cancer cells with eribulin led to increased microtubule acetylation around the nucleus and cell death. Conversely, eribulin-resistant (EriR) cells did not exhibit a similar increase in acetylation, even at half-maximal inhibitory concentrations. Interestingly, silencing the ATAT1 gene, which encodes the α-tubulin N-acetyltransferase 1 (the enzyme responsible for microtubule acetylation), induces eribulin resistance, mirroring the phenotype of EriR cells. Moreover, eribulin-induced acetylation of microtubules facilitates the transport of Ca2+ from the ER to the mitochondria, releasing cytochrome c and subsequent cell death. Transcriptome analysis of EriR cells revealed a significant downregulation of ER stress-induced apoptotic signals, particularly the activity of protein kinase RNA-like ER kinase (PERK), within the unfolded protein response signaling system. Pharmacological induction of microtubule acetylation through a histone deacetylase 6 inhibitor combined with the activation of PERK signaling using the PERK activator CCT020312 in EriR cells enhanced mitochondrial Ca2+ accumulation and subsequent cell death. These findings reveal a novel mechanism by which eribulin-induced microtubule acetylation and increased PERK activity lead to Ca2+ overload from the ER to the mitochondria, ultimately triggering cell death. This study offers new insights into strategies for overcoming resistance to microtubule-targeting agents.
    Keywords:  Calcium transfer; Drug resistance; ER-mitochondria contact; Eribulin; Microtubule acetylation; PERK signaling
    DOI:  https://doi.org/10.1007/s00018-024-05565-w
  15. Nat Commun. 2025 Jan 02. 16(1): 80
      Hibernating brown bears, due to a drastic reduction in metabolic rate, show only moderate muscle wasting. Here, we evaluate if ATPase activity of resting skeletal muscle myosin can contribute to this energy sparing. By analyzing single muscle fibers taken from the same bears, either during hibernation or in summer, we find that fibers from hibernating bears have a mild decline in force production and a significant reduction in ATPase activity. Single fiber proteomics, western blotting, and immunohistochemical analyses reveal major remodeling of the mitochondrial proteome during hibernation. Furthermore, using bioinformatical approaches and western blotting we find that phosphorylated myosin light chain, a known stimulator of basal myosin ATPase activity, is decreased in hibernating and disused muscles. These results suggest that skeletal muscle limits energy loss by reducing myosin ATPase activity, indicating a possible role for myosin ATPase activity modulation in multiple muscle wasting conditions.
    DOI:  https://doi.org/10.1038/s41467-024-55565-4
  16. PLoS One. 2024 ;19(12): e0312260
      Photoreceptors (PRs) are metabolically demanding and packed at high density, which presents a challenge for nutrient exchange between the associated vascular beds and the tissue. Motivated by the ambition to understand the constraints under which PRs function, in this study we have drawn together diverse physiological and anatomical data in order to generate estimates of the rates of ATP production per mm2 of retinal surface area. With the predictions of metabolic demand in the companion paper, we seek to develop an integrated energy budget for the outer retina. It is known that rod PR number and the extent of the choriocapillaris (CC) vascular network that supports PRs both decline with age. To set the outer retina energy budget in the context of aging we demonstrate how, at different eccentricities, decline CC density is more than matched by rod loss in a way that tends to preserve nutrient exchange per rod. Together these finds provide an integrated framework for the study of outer retinal metabolism and how it might change with age.
    DOI:  https://doi.org/10.1371/journal.pone.0312260
  17. Sci Adv. 2025 Jan 03. 11(1): eads8489
      The role of somatic mitochondrial DNA (mtDNA) mutations in leukemogenesis remains poorly characterized. To determine the impact of somatic mtDNA mutations on this process, we assessed the leukemogenic potential of hematopoietic progenitor cells (HPCs) from mtDNA mutator mice (Polg D257A) with or without NMyc overexpression. We observed a higher incidence of spontaneous leukemogenesis in recipients transplanted with heterozygous Polg HPCs and a lower incidence of NMyc-driven leukemia in those with homozygous Polg HPCs compared to controls. Although mtDNA mutations in heterozygous and homozygous HPCs caused similar baseline impairments in mitochondrial function, only heterozygous HPCs responded to and supported altered metabolic demands associated with NMyc overexpression. Homozygous HPCs showed altered glucose utilization with pyruvate dehydrogenase inhibition due to increased phosphorylation, exacerbated by NMyc overexpression. The impaired growth of NMyc-expressing homozygous HPCs was partially rescued by inhibiting pyruvate dehydrogenase kinase, highlighting a relationship between mtDNA mutation burden and metabolic plasticity in leukemogenesis.
    DOI:  https://doi.org/10.1126/sciadv.ads8489
  18. Alzheimers Dement. 2024 Dec;20 Suppl 1 e091641
       BACKGROUND: Mitochondrial dysfunction and Aβ accumulation are hallmarks of Alzheimer's disease (AD). However, the role of these pathologies in Down Syndrome associated Alzheimer's Disease (DSAD) is unknown. Decades of research describe a relationship between mitochondrial function and Aβ production. Amyloid precursor protein (APP), from which Aβ is generated, is found in mitochondria. APP and Aβ alter mitochondrial function, while mitochondrial function alters Aβ production from APP. How these interactions contribute to DSAD pathology and progression are unknown. Here we interrogated the association of full-length APP with mitochondria, mitochondrial function, and AD pathological hallmarks.
    METHOD: ND (n = 10, without DS) and DS associated Alzheimer's Disease (DSAD, n = 10) postmortem brain tissue was obtained from the University of California Irvine. A human iPSC line was purchased from WiCell with Trisomy 21 and a isogenic control line which underwent Crispr/Cas9 genome editing to remove the extra chromosome 21 copy. iPSC models were differentiated into neurons, astrocytes, and cerebral organoids using StemCell Technologies reagents and protocols. We examined mitochondrial function using a Seahorse XF analyzer. We measured full-length APP protein levels in whole cell extracts and mitochondrial fractions via Western Blotting. We measured Aβ levels with ELISA kits from ThermoFisher.
    RESULT: DSAD postmortem brain tissue had reduced mitochondrial function regardless of sex. Full-length APP levels were significantly higher in mitochondrial fractions in DSAD brain tissue. Full-length APP levels in mitochondrial fractions correlated with mitochondrial function. Higher mitochondrial APP (full-length) levels associated with lower mitochondrial function. iPSC derived models showed similar phenotypes to postmortem brain tissues, including increased mitochondrial APP levels, and decreased mitochondrial function.
    CONCLUSION: We describe a relationship between mitochondrial APP accumulation, and mitochondrial function. These data support a centralized role for mitochondrial function in APP physiology and APP may play a role in modulating mitochondrial function. Further, DSAD postmortem tissue and iPSC models show significant mitochondrial dysfunction.
    DOI:  https://doi.org/10.1002/alz.091641
  19. Alzheimers Dement. 2024 Dec;20 Suppl 1 e089791
       BACKGROUND: Neurodegeneration is characterized by the progressive loss of neurons. However, the mechanisms by which neurons die in Alzheimer's disease (AD) remain elusive. Disrupted iron homeostasis is associated with accelerated cognitive decline, amyloid beta deposition, and AD progression, but its pathogenic relevance is poorly understood. The recent discovery of ferroptosis (an iron-dependent regulated cell death mechanism) provides an alternative potential explanation for the relevance or iron dysregulation in AD.
    METHOD: AD-derived neurons are used to determine neurotoxicity, morphological alterations and understanding of ferroptotic responses and progression. Neurons were dosed with ferroptosis-inducing agents to determine susceptibility to oxidative stress and cellular responses.
    RESULT: We performed oxidative stress assays to quantify glutathione (GSH/GSSG), reactive oxygen species (ROS), NAD/NADPH, lipid peroxidation, mitochondrial dysfunction and intracellular iron deposition in AD-derived neurons. Furthermore, the neuronal responses to oxidative stress-ferroptosis is visualized with live-cell holotomography (quantitative phase microscopy) to determine the neuronal ferroptotic phenotype.
    CONCLUSION: Understand the role of iron accumulation, oxidative stress, and cell-specific susceptibility to ferroptosis programmed cell death in human brain cells and model the complex molecular responses related to neuronal loss in AD. These experiments provide the kinetics of biochemical, metabolic and morphological features of AD neurons under ferroptotic oxidative stress.
    DOI:  https://doi.org/10.1002/alz.089791
  20. Nat Commun. 2024 Dec 30. 15(1): 10878
      Acute myeloid leukemia (AML) is an aggressive disease with a high relapse rate. In this study, we map the metabolic profile of CD34+(CD38low/-) AML cells and the extracellular vesicle signatures in circulation from AML patients at diagnosis. CD34+ AML cells display high antioxidant glutathione levels and enhanced mitochondrial functionality, both associated with poor clinical outcomes. Although CD34+ AML cells are highly dependent on glucose oxidation and glycolysis for energy, those from intermediate- and adverse-risk patients reveal increased mitochondrial dependence. Extracellular vesicles from AML are mainly enriched in stem cell markers and express antioxidant GPX3, with their profiles showing potential prognostic value. Extracellular vesicles enhance mitochondrial functionality and dependence on CD34+ AML cells via the glutathione/GPX4 axis. Notably, extracellular vesicles from adverse-risk patients enhance leukemia cell engraftment in vivo. Here, we show a potential noninvasive approach based on liquid 'cell-extracellular vesicle' biopsy toward a redefined metabolic stratification in AML.
    DOI:  https://doi.org/10.1038/s41467-024-55231-9
  21. Nat Immunol. 2025 Jan;26(1): 29-41
      A slew of common metabolic disorders, including type 2 diabetes, metabolic dysfunction-associated steatotic liver disease and steatohepatitis, are exponentially increasing in our sedentary and overfed society. While macronutrients directly impact metabolism and bioenergetics, new evidence implicates immune cells as critical sensors of nutritional cues and important regulators of metabolic homeostasis. A deeper interrogation of the intricate and multipartite interactions between dietary components, immune cells and metabolically active tissues is needed for a better understanding of metabolic regulation and development of new treatments for common metabolic diseases. Responding to macronutrients and micronutrients, immune cells play pivotal roles in interorgan communication between the microbiota, small intestine, metabolically active cells including hepatocytes and adipocytes, and the brain, which controls feeding behavior and energy expenditure. This Review focuses on the response of myeloid cells and innate lymphocytes to dietary cues, their cross-regulatory interactions and roles in normal and aberrant metabolic control.
    DOI:  https://doi.org/10.1038/s41590-024-02037-y
  22. Nat Commun. 2025 Jan 02. 16(1): 111
      Phospholipids are the most abundant component in lipid membranes and are essential for the structural and functional integrity of the cell. In eukaryotic cells, phospholipids are primarily synthesized de novo through the Kennedy pathway that involves multiple enzymatic processes. The terminal reaction is mediated by a group of cytidine-5'-diphosphate (CDP)-choline /CDP-ethanolamine-phosphotransferases (CPT/EPT) that use 1,2-diacylglycerol (DAG) and CDP-choline or CDP-ethanolamine to produce phosphatidylcholine (PC) or phosphatidylethanolamine (PE) that are the main phospholipids in eukaryotic cells. Here we present the structure of the yeast CPT1 in multiple substrate-bound states. Structural and functional analysis of these binding-sites reveal the critical residues for the DAG acyl-chain preference and the choline/ethanolamine selectivity. Additionally, we present the structure in complex with a potent inhibitor characterized in this study. The ensemble of structures allows us to propose the reaction mechanism for phospholipid biosynthesis by the family of CDP-alcohol phosphotransferases (CDP-APs).
    DOI:  https://doi.org/10.1038/s41467-024-55673-1
  23. Alzheimers Dement. 2024 Dec;20 Suppl 1 e092424
       BACKGROUND: Impaired metabolic function and mitochondrial metabolism increase risk of Alzheimer's Disease (AD) development, which is the leading form of dementia and one of the main causes of death in older adults. Altered mitochondrial function can reduce efficiency of cellular maintenance processes like mitophagy and proteostasis, leading to protein aggregation and cytotoxicity. Mitochondria differ from other organelles, as they have their own unique genetic component (mtDNA), which encodes proteins essential for mitochondrial translation and oxidative metabolism. Differences in mtDNA between individuals affect mitochondrial function and can increase risk of certain diseases; it is not well studied how mtDNA impacts AD pathology.
    METHOD: SH-SY5Y cytoplasmic hybrid (cybrid) cell lines were generated using mtDNA from clinical research volunteers (n = 18 cognitively healthy (CH) older adults (mean age 73.8), n = 7 MCI (mean age 78.1), n = 10 AD (mean age 75.3)) enrolled in the Relationship of Energetics and Cognitive Trajectory study. Groups did not differ by sex. Cells were analyzed for protein expression by western blot, metabolic flux by Agilent Seahorse XF Analyzer, and protein secretion by ELISA. Plasma pTau217 (AlzPATH) and Aβ42 (N4PE) were assessed by Simoa HD-X (Quanterix) to compare blood biomarker values with cellular outcomes.
    RESULT: Cybrids from individuals with MCI and AD had elevated intracellular pTau217 (p = 0.033, p = 0.006 respectively). Cybrids from CH individuals secreted significantly more Aβ42 than those from individuals with AD (p = 0.002). Cybrid pTau217 and plasma pTau217 from the same subjects correlated significantly (p<0.001). Cybrids showed altered mitochondrial function by diagnostic group in all ETC complexes (p<0.05), and altered ETC complex expression in all proteins except Complex II, which is not encoded by mtDNA. Mitochondrial transcription factor A (TFAM) was significantly reduced in cybrids from AD individuals (p = 0.010) compared to those from CH subjects.
    CONCLUSION: Cytoplasmic hybrid cell lines generated with mtDNA from individuals with and without AD express diagnostic differences in novel AD biomarkers. This suggests that mitochondrial function, specifically that which is influenced by mtDNA, plays an imperative role in AD pathology. Ongoing research in the cybrid cell model will help elucidate how altered cellular and bioenergetic function contribute to AD etiology.
    DOI:  https://doi.org/10.1002/alz.092424
  24. Alzheimers Dement. 2024 Dec;20 Suppl 1 e088440
       BACKGROUND: Imbalanced Fe levels can lead to oxidative stress and initiate ferroptosis, an Fe-dependent cell death that involves lipid peroxidation and can lead to neuron cell loss in neurodegenerative diseases including Alzheimer's disease (AD). While the Fe3+/Fe2+ ratio has been identified as the primary determining factor for lipid peroxidation, the role of Fe redox equilibrium and dynamic in AD is not well understood, due to limited tools for visualizing Fe2+ and Fe3+ simultaneously. To overcome this limitation, we recently reported DNAzyme-based sensors for simultaneous imaging of Fe2+ and Fe3+. In this research update, we have integrated the sensors with brain-wide immunohistochemistry staining to identify cellular correlations between Fe redox changes and AD progression.
    METHOD: We obtained DNAzymes that are highly selective for either Fe2+ or Fe3+ from a DNA library of up to 1015 sequences and used counter-selection to remove sequences binding competing metal ions. We converted the DNAzymes into fluorescent turn-on sensors using a method called "catalytic beacon" approach. With these sensors, we imaged Fe2+ and Fe3+ simultaneously in AD mouse brains. We also performed immunohistochemistry to evaluate neurodegeneration (NeuN), gliosis (Iba1&GFAP), amyloid beta pathology (HJ 3.4), and their correlation with Fe redox changes.
    RESULT: We observed correlated signal changes with the regulation of iron levels. We further applied these sensors in ferroptosis and observed a decrease in Fe3+/Fe2+ redox ratio over time, indicating Fe redox changes as a potential source of oxidative stress in ferroptosis. These sensors also detected an elevated Fe3+/Fe2+ ratio in the AD mouse brain, particularly in amyloid plaque regions, suggesting a correlation between amyloid plaques and the accumulation of Fe3+ and/or conversion of Fe2+ to Fe3+. Furthermore, by co-staining the Fe sensors with immunohistochemistry biomarkers, we found correlations between Fe, Fe redox changes, and neurodegeneration among mice groups differing in genotype, sex, and age.
    CONCLUSION: We have developed highly selective sensors for simultaneously imaging Fe2+ and Fe3+. By integrating these sensors with immunohistochemistry, we have identified correlations between Fe redox, amyloid plaques, and neurodegeneration in AD mice. Our sensors can offer deep insights into the detailed mechanism of ferroptosis and its role in AD.
    DOI:  https://doi.org/10.1002/alz.088440
  25. Chemistry. 2025 Jan 03. e202404523
      Since death is an inevitable phenomenon, exploring cell deaths holds importance. During this process, the cellular microenvironment within cells such as pH, polarity, viscosity etc alter. One such microenvironment, viscosity elevates during different cell deaths. However, demarcating cell death processes solely based on viscosity sensing is challenging. Herein, we develop a unique fluorescent probe PS-NAP after careful investigation among three analogues for efficient viscosity imaging in HeLa cells. Cationic PS-NAP, a MMP independent molecular probe, can potentially target mitochondria and map elevated mitochondrial viscosity during apoptosis, starvation and drug induced ferroptosis processes. Notably, during ferroptosis induced by cysteine deprivation, PS-NAP exclusively colocalizes in newly generated lipid droplets (LDs) instead of mitochondria. Thus, the probe has a potential for demarcating cysteine deprivation-induced ferroptosis from other cellular stresses such as apoptosis.
    Keywords:  Fluorescent probes, viscosity, ferroptosis, mitochondria, lipid droplets
    DOI:  https://doi.org/10.1002/chem.202404523
  26. Alzheimers Dement. 2024 Dec;20 Suppl 1 e092856
       BACKGROUND: The blood-brain barrier (BBB) is a crucial regulator of cerebral homeostasis and function. Cerebrovascular endothelial cells (EC) are important components of the BBB, and EC damage and/or dysfunction may result in defects in brain clearance and perfusion, microhemorrhages, inflammation, and neurodegeneration. In addition to EC damage resulting from the presence of amyloid-beta (Aβ) in Alzheimer's Disease (AD) and Cerebral Amyloid Angiopathy (CAA), the presence of cardiovascular risk factors (CVRF) may further exacerbate cerebrovascular function and neurodegeneration. Particularly, ECs may be the most susceptible to Aβ and CVRF damage leading to the initiation and/or perpetuation of an inflammatory cascade in neurodegenerative diseases. Brain ECs are highly dependent on glycolysis and their mitochondria have important roles as signaling organelles, sensing cellular damage and mediating downstream pathways such as inflammation. Here, we aim to understand the mechanistic nature of endothelial mitochondrial dysfunction and its elicited pathways in Aβ and mixed (Aβ+CVRF) vascular pathologies. Understanding the mechanisms by which the mitochondria may mediate EC inflammation could pave the way to new roads for therapeutic advancements in the field.
    METHOD: Human brain microvascular ECs were challenged with Aβ, Homocysteine (Hcy, a CVRF), or the combination. Mitochondrial ultrastructure, metabolic function, and inflammatory cascades were assessed.
    RESULT: The presence of Aβ, but not Hcy, increased mitochondrial ROS production (mtROS) and induced deficits in mitochondrial respiration concomitant with a decrease in mitochondrial ATP production. Deficits in mitochondrial respiration were accompanied by an increase in glycolytic ATP production and, to some extent, the expression of proteins involved in glycolytic regulation. Mitochondrial fragmentation, as an indicator of mitochondrial damage, was assessed ultrastructually and by the analysis of the expression of fission proteins. Markers of EC activation were assessed to link mitochondrial dysfunction to EC inflammation.
    CONCLUSION: Deficits in mitochondrial function and metabolism were associated with Aβ but not Hcy, and accompanied by the release of mtROS, a mitochondria damage associated molecular patterns (mtDAMP). This, in turn, was associated to an increase in EC inflammatory markers and barrier permeability. Overall, our results reveal a novel role for mtDAMPs in vascular dysfunction in the presence of Aβ and/or Hcy.
    DOI:  https://doi.org/10.1002/alz.092856
  27. Biochim Biophys Acta Rev Cancer. 2024 Dec 31. pii: S0304-419X(24)00188-4. [Epub ahead of print] 189257
      Glutamine, akin to glucose, is a fundamental nutrient for human physiology. Tumor progression is often accompanied by elevated glutamine consumption, resulting in a disrupted nutritional balance and metabolic reprogramming within the tumor microenvironment. Furthermore, immune cells, which depend on glutamine for metabolic support, may experience functional impairments and dysregulation. Although the role of glutamine in tumors has been extensively studied, the specific impact of glutamine competition on immune responses, as well as the precise cellular alterations within immune cells, remains incompletely understood. In this review, we summarize the consequences of glutamine deprivation induced by tumor-driven glutamine uptake on immune cells, assessing the underlying mechanisms from the perspective of various components of the immune microenvironment. Additionally, we discuss the potential synergistic effects of glutamine supplementation and immunotherapy, offering insights into future research directions. This review provides compelling evidence for the integration of glutamine metabolism and immunotherapy as a promising strategy in cancer therapy.
    Keywords:  Glutamine deprivation; Glutamine therapy; Immune cells; Immunotherapy; Tumor microenvironment
    DOI:  https://doi.org/10.1016/j.bbcan.2024.189257
  28. Nat Commun. 2024 Dec 30. 15(1): 10815
      Maintenance of protein homeostasis is necessary for cell viability and depends on a complex network of chaperones and co-chaperones, including the heat-shock protein 70 (Hsp70) system. In human mitochondria, mitochondrial Hsp70 (mortalin) and the nucleotide exchange factor (GrpEL1) work synergistically to stabilize proteins, assemble protein complexes, and facilitate protein import. However, our understanding of the molecular mechanisms guiding these processes is hampered by limited structural information. To elucidate these mechanistic details, we used cryoEM to determine structures of full-length human mortalin-GrpEL1 complexes in previously unobserved states. Our structures and molecular dynamics simulations allow us to delineate specific roles for mortalin-GrpEL1 interfaces and to identify steps in GrpEL1-mediated nucleotide and substrate release by mortalin. Subsequent analyses reveal conserved mechanisms across bacteria and mammals and facilitate a complete understanding of sequential nucleotide and substrate release for the Hsp70 chaperone system.
    DOI:  https://doi.org/10.1038/s41467-024-54499-1
  29. Nat Commun. 2024 Dec 30. 15(1): 10923
      Accumulating evidence indicates that cellular senescence is closely associated with osteoarthritis. However, there is limited research on the mechanisms underlying fibroblast-like synoviocyte senescence and its impact on osteoarthritis progression. Here, we elucidate a positive correlation between fibroblast-like synoviocyte senescence and osteoarthritis progression and reveal that GATD3A deficiency induces fibroblast-like synoviocyte senescence. Mechanistically, GATD3A deficiency enhances the binding of Sirt3 to MDH2, leading to deacetylation and decreased activity of MDH2. Reduced MDH2 activity impairs tricarboxylic acid cycle flux, resulting in mitochondrial dysfunction and fibroblast-like synoviocyte senescence. Intra-articular injection of recombinant adeno-associated virus carrying GATD3A significantly alleviates the osteoarthritis phenotype in male mice. This study increases our current understanding of GATD3A function. In particular, we reveal a novel mechanism of fibroblast-like synoviocyte senescence, suggesting that targeting GATD3A is a potential therapeutic approach for osteoarthritis.
    DOI:  https://doi.org/10.1038/s41467-024-55335-2