bims-auttor Biomed News
on Autophagy and mTOR
Issue of 2026–06–21
48 papers selected by
Viktor Korolchuk, Newcastle University



  1. Autophagy. 2026 Jun 18. 1-3
      Optineurin (OPTN) is widely recognized as a multifunctional selective autophagy receptor involved in cargo turnover. However, our recent findings uncover an unexpected function of OPTN that challenges the conventional view of autophagy adaptors. In dendritic cells (DCs), OPTN binds to and stabilizes Rictor, a key component of the mTORC2 complex. Loss of OPTN leads to depletion of Rictor, reduced Akt2 activity, and activation of the mTORC1/p70S6K1 pathway, culminating in enhanced phosphorylation of STAT3 at Ser727. Activated STAT3 transcriptionally induces the E3 ubiquitin ligase MARCH1, which promotes MHC II internalization, resulting in a striking inverse relationship between MARCH1 and MHC II expression in Optn-deficient cells. Together, these findings identify an unexpected signaling function of OPTN, independent of its canonical autophagy activities. By stabilizing Rictor and maintaining mTORC2-Akt2 signaling, OPTN links a classical autophagy adaptor to the regulation of antigen presentation and adaptive immunity. More broadly, our findings raise the possibility that selective autophagy receptors preserve cellular homeostasis not only through cargo clearance but also through context-dependent, non-degradative regulation of protein stability and signaling networks.Abbreviation: OPTN: Optineurin; mTORC1: mammalian target of rapamycin complex 1; mTORC2: mammalian target of rapamycin complex 1; Rictor: Rapamycin-Insensitive Companion of mTOR.
    Keywords:  Antigen presentation; MHC II; mTOR signaling; optineurin; protein stabilization
    DOI:  https://doi.org/10.1080/15548627.2026.2689040
  2. Int Rev Cell Mol Biol. 2026 ;pii: S1937-6448(25)00162-5. [Epub ahead of print]404 1-61
      Autophagy is a process which is responsible for the maintenance of cellular homeostasis. This is achieved through the orchestration of both highly selective and non-selective degradation pathways, the purpose of which is the elimination of damaged structures. Recent findings have revealed that, in addition to its intracellular function, this organelle exhibits a remarkable "social life" and forms relationships with other cellular organelles. This has led to the discovery that mitochondrial quality is maintained not only through mitophagy, but also through extracellular mechanisms between cells. This has significantly expanded our understanding of tissue integrity. In skeletal muscle, autophagy, or autophagy, is a finely tuned process that plays a crucial role in maintaining physiological performance and adaptation. Disruption of autophagy has been linked to accelerated degeneration, metabolic dysfunction, and frailty. Although therapeutic manipulation of autophagy and mitophagy shows promise in restoring muscle health, major translational barriers persist. A more profound and nuanced exploration of autophagy flux in human muscle is imperative, underpinned by novel advanced cell biology technologies and predicated on satellite cells as the primary agents in muscle regeneration. The full therapeutic potential of autophagy could be harnessed to redefine interventions against muscle ageing and associated diseases. However, this would still require critical scrutiny of the long-term effects and systemic consequences.
    Keywords:  Aging; Autophagy; Mitochondria; Quality control mechanisms; Skeletal muscle
    DOI:  https://doi.org/10.1016/bs.ircmb.2025.11.006
  3. Biol Open. 2026 Jun 16. pii: bio.062414. [Epub ahead of print]
      Hypocapnia, a reduction in partial pressure of carbon dioxide (CO₂), commonly occurs in clinical contexts such as mechanical ventilation, panic disorder, and brain injury, yet its impact on cellular homeostasis remains poorly understood. Given the central role of autophagy in stress adaptation, we investigated how low CO₂ influences autophagic flux and lysosomal function. We found that hypocapnia induces autophagosome accumulation while impairing cargo degradation, indicating a blockade in autophagic flux. This response was accompanied by increased lysosome biogenesis but, paradoxically, reduced autophagosome-lysosome fusion and lysosomal proteolytic activity. Mechanistically, hypocapnia promoted TFE3 dephosphorylation and nuclear translocation, driving transcriptional activation of lysosomal genes. Concurrently, suppressed AMPK activity and sustained mTOR signaling revealed a unique metabolic state that uncouples energy stress from canonical autophagy control. As such, inhibition of both mTORC1 and mTORC2 was sufficient to restore autophagic flux. Notably, increased pH was not sufficient to drive this program. These findings identify hypocapnia as a previously unrecognized modulator of autophagy that disrupts autophagosome-lysosome fusion and terminal degradation, positioning CO₂ tension as a critical regulator of cellular stress responses.
    Keywords:  Autophagy; Carbon Dioxide; Hypocapnia; Lysosome; TFE3; mTOR
    DOI:  https://doi.org/10.1242/bio.062414
  4. Int Rev Cell Mol Biol. 2026 ;pii: S1937-6448(25)00155-8. [Epub ahead of print]404 233-258
      Autophagy is a fundamental cell biological process that controls the quality and quantity of the eukaryotic cytoplasm. Dysfunctional autophagy, when defective or excessive, has been linked to human pathologies. Autophagy can randomly degrade cytoplasmic components in a non-selective manner commonly referred to as bulk autophagy. In contrast, selective forms of autophagy specifically target cytoplasmic structures such as organelles thereby being important for cellular quality control and organelle homeostasis. Recent studies demonstrate the role of bulk and selective autophagy in the integration of physical constraints. Mechanical forces, combine with biochemical signals control the development and the physiological functions of different organs and can also contribute to the progression of various diseases. The aim of this Review is to summarize and discuss our current knowledge on the role of autophagy in regulating a broad range of cellular responses, from morphology, metabolism, to inflammation and senescence, in the context of mechanical forces. Additionally, where relevant, we will also discuss the potential implications of mechanical stress-induced autophagy in pathologies.
    Keywords:  Bulk autophagy; Compression; ECM stiffness; Selective autophagy; Shear Stress; Stretching; Tension
    DOI:  https://doi.org/10.1016/bs.ircmb.2025.10.007
  5. Biogerontology. 2026 Jun 15. pii: 115. [Epub ahead of print]27(4):
      Aging is the primary risk factor for neurodegenerative diseases, characterized by a progressive decline in cellular homeostasis. Central to this process is the mammalian target of rapamycin complex 1 (mTORC1), a convergent integrator regulator of metabolism that integrates nutrient sensing with cellular growth. While essential for development, chronic mTORC1 hyperactivity, termed mTORopathy, emerges during aging, driving a deleterious cycle of mitochondrial dysfunction, neuroinflammation, and impaired protein clearance. This pathological state promotes the accumulation of toxic proteins, such as amyloid-beta, tau, and alpha-synuclein, while simultaneously suppressing autophagy and glymphatic function. Furthermore, mTORC1 overactivation in glial cells fuels inflammaging by inducing cellular senescence and the senescence-associated secretory phenotype (SASP), which compromises blood-brain barrier integrity and synaptic plasticity. Conversely, pharmacological inhibition of mTORC1 using rapamycin or its analogs (rapalogs) has demonstrated significant neuroprotective potential. By restoring autophagic flux, rebalancing metabolic axes (AMPK/SIRT1), and suppressing chronic inflammation, these compounds can rescue synaptic function and reactivate neurogenesis. This review synthesizes current evidence regarding mTORC1 as a convergent integrator for brain aging and evaluates the clinical prospects of mTOR-targeted therapies in mitigating neurodegenerative decline.
    Keywords:  Autophagy; Dementia prevention; Glial senescence; Glymphatic clearance; Mechanistic target of rapamycin complex 1; Translational geroscience
    DOI:  https://doi.org/10.1007/s10522-026-10457-6
  6. Transl Neurodegener. 2026 Jun 17. pii: 27. [Epub ahead of print]15(1):
       BACKGROUND: Heterozygous mutations in the glucocerebrosidase gene (GBA1), which encodes the lysosomal enzyme β-glucocerebrosidase (GCase), are a genetic risk factor for Parkinson's disease (PD). The pathophysiological consequences of GBA1 mutations on dopaminergic neuronal function, especially their impact on lysosomal function, mitophagy, and mitochondrial bioenergetics, remain unclear.
    METHODS: Fibroblasts and dopaminergic neurons generated from induced pluripotent stem cells (iPSCs) derived from patients with GBA1-PD were used in the study. Live-cell imaging was performed to measure lysosomal acidification, protease activity, mitochondrial membrane potential, and mitophagy. Mitochondrial morphology and autophagic vesicles were examined using transmission electron microscopy. Oxygen consumption rate was measured by Seahorse assay. V-ATPase assembly was quantified using fluorescence lifetime imaging with Förster resonance energy transfer (FLIM-FRET), and pharmacological interventions included rapamycin and acidic nanoparticles.
    RESULTS: GCase activity, lysosomal acidification, protease activity, mitophagy and mitochondrial bioenergetic function were all impaired in GBA1 mutant dopaminergic neurons. Mitochondria were fragmented, with reduced membrane potential and oxygen consumption. Mechanistic target of rapamycin complex 1 (MTORC1) was constitutively phosphorylated and FLIM-FRET measurements confirmed impairment of lysosomal V-ATPase assembly, which was reversed by rapamycin treatment. Rapamycin and lysosome-targeting acidic nanoparticles rescued lysosomal pH and restored mitophagy, mitochondrial membrane potential and mitochondrial oxidative phosphorylation complex level in the GBA1 mutant dopaminergic neurons.
    CONCLUSIONS: We revealed a novel mechanistic link between GBA1 mutations and mitochondrial dysfunction, as the disruption of V-ATPase assembly driven by MTORC1 activation impairs lysosomal acidification. This causes impairment of mitophagy, leading to mitochondrial dysfunction, undermining dopaminergic cell function and fate. Pharmacological intervention with rapamycin or acidic nanoparticles restores lysosomal pH and rescue mitochondrial function, representing a novel therapeutic approach for GBA1-PD .
    Keywords:  Acidic nanoparticles; GBA1; Lysosomal pH; Lysosomes; MTORC1; Mitochondria; Parkinson’s disease
    DOI:  https://doi.org/10.1186/s40035-026-00559-z
  7. Autophagy. 2026 Jun 18.
      Atg8ylation is a key step during autophagy where Atg8-family proteins are conjugated to the expanding phagophore. In addition to double-layered autophagic compartments, Atg8ylation occurs on various other cellular membranes and is emerging as a general eukaryotic membrane-tagging system comparable to that of ubiquitin tagging of proteins. While canonical autophagy has been characterized across eukaryotes, Atg8ylation beyond canonical autophagy has mostly been explored in mammals. ATG7 is an E1-like enzyme which participates in the three-step ubiquitin-like cascade that mediates Atg8-family protein conjugation. Apart from its role in Atg8ylation, several independent functions have been reported in mammals. Exploring functions of ATG7 from an evolutionary perspective highlights that Atg8ylation on single-layer membranes is conserved across eukaryotes. Although Atg8ylation-independent functions of ATG7 remain largely unexplored outside mammals, evidence from other eukaryotic clades suggests that some of these functional roles may be conserved. In this review, ATG7 functions are organized by eukaryotic clades to gain better understanding of their evolutionary history.
    Keywords:  ATG7; Angiogenesis; Atg8ylation; TP53; autophagy; eukaryotes; evolution; metabolism
    DOI:  https://doi.org/10.1080/15548627.2026.2691875
  8. Cell Rep. 2026 Jun 19. pii: S2211-1247(26)00652-2. [Epub ahead of print]45(7): 117574
      Autophagy is a catabolic process that degrades cytoplasmic materials and is controlled by nutrient availability and signaling. The plasma membrane-associated pyruvate-solute carrier hermes (hrm) is required for regulation of the mechanistic target of rapamycin (mTOR) signaling and the activation of autophagy during development. Here, we screen for pyruvate-influencing genes that suppress the hrm mutant phenotype. We show that the inhibitory effect of hrm loss on autophagy depends on pyruvate transport into mitochondria and the Krebs cycle. Loss of hrm results in an increase in reactive oxygen species (ROS), and attenuation of the increase in ROS is sufficient to suppress the effects of hrm loss on autophagy and mTOR signaling. Importantly, we show that in adult animals, loss of hrm results in decreased lifespan, with defects in autophagy in intestine tissues. These results link a plasma membrane pyruvate carrier to mitochondrial pyruvate metabolism, ROS, autophagy, and organismal health.
    Keywords:  CP: cell biology; CP: metabolism; Drosophila; autophagy; development; hermes; metabolism; pyruvate; reactive oxygen species
    DOI:  https://doi.org/10.1016/j.celrep.2026.117574
  9. Front Aging Neurosci. 2026 ;18 1846307
      Mitochondrial complex I dysfunction, ATP depletion, and impaired autophagy are key features of Parkinson's disease (PD), but their causal relationship remains unclear. Although energy stress induces autophagy, autophagy execution requires ATP. Available evidence suggests a biphasic effect of ATP depletion on autophagy in PD, with mild early energy decline promoting autophagy and more severe ATP loss, below a critical threshold, suppressing its completion. This mechanism may contribute to the accumulation of dysfunctional mitochondria and other undegraded cargo, creating a vicious cycle in which mitochondrial dysfunction, ATP decline, and autophagy failure progressively reinforce one another in PD. Here, we review current evidence linking cellular energy status to autophagic dysfunction in PD and discuss its pathogenic and therapeutic implications.
    Keywords:  ATP depletion; Parkinson’s disease; autophagy; mitochondrial dysfunction; mitophagy; neurodegeneration
    DOI:  https://doi.org/10.3389/fnagi.2026.1846307
  10. Autophagy. 2026 Jun 18.
      Bisphosphonates (BPs) are the most widely used anti-resorptive agents and first-line drugs for managing bone-related diseases, such as osteoporosis, Paget disease of bone, and bone metastatic cancer. BPs are known to inhibit osteoclasts' functions, and recent studies have highlighted the importance of macroautophagy/autophagy in osteoclasts. However, the involvement of autophagy in BP-mediated inhibition of osteoclast functions remains unclear. In this study, we showed that BPs inhibit the bone resorptive functions of osteoclasts by blocking autophagy. At the non-apoptotic doses, zoledronic acid (ZOL) inhibited autophagy by blocking autophagic flux and delaying the degradation of autophagy-related proteins. ZOL also prevented the cleavage and secretion of secretory proteins such as CTSK, ACP5/TRAP, and MMP9 essential for bone resorption. Mechanistically, ZOL inhibits the prenylation of the RAB7 small GTPase, a key protein that is required for autolysosome formation. In vivo studies showed that osteoclast-specific rab7 conditional knockout mice exhibited osteopetrotic phenotypes. These findings provide insights into how BPs disrupt osteoclast function by blocking autophagy and suggest that targeting autophagy in osteoclasts could be a potential therapeutic approach for bone-related diseases.
    Keywords:  Autophagy; RAB7; bisphosphonate; osteoclasts; prenylation
    DOI:  https://doi.org/10.1080/15548627.2026.2691880
  11. Autophagy. 2026 Jul;22(7): 1441-1443
      The endoplasmic reticulum (ER) is a hub for several essential functions, including lipid metabolism, macroautophagy/autophagy, and innate immune signaling. Excess ER generated during a stress response is degraded by a selective type of autophagy known as ERphagy/reticulophagy. A recent study provides a mechanism by which cholesterol levels regulate ERphagy, STING1 activation, and cholesterol biosynthesis. Elevated ER cholesterol levels suppress ERphagy by reducing RETREG1/FAM134B interactions with the autophagy-related protein MAP1LC3/LC3 and the lysosomal protein LAMP2. The study shows that cholesterol directly binds to RETREG1 and SCAP, facilitating the formation of the RETREG1-SCAP complex. Sequestration of RETREG1 in this manner prevents it from performing its ERphagy functions. Furthermore, RETREG1 also interacts with STING1 and is important for its activation in response to viral infections. SCAP-RETREG1 complex formation also reduces the STING1 response. Thus, this study links lipid metabolism, innate immunity, and autophagy, emphasizing a central role for cholesterol in these processes.
    Keywords:  Autophagy; ER-phagy; FAM134B/RETREG1; SCAP; STING; cholesterol
    DOI:  https://doi.org/10.1080/15548627.2026.2639645
  12. Biochem Biophys Res Commun. 2026 Jun 16. pii: S0006-291X(26)00921-6. [Epub ahead of print]829 154157
      Juvenile neuronal lipofuscinosis (JNCL) is a rare disease caused by mutations in the CLN3 gene. It leads to early vision loss mediated by retinal degeneration. Impaired autophagosomal-lysosomal degradation is a major hallmark of JNCL pathology, and neuroinflammation has also been postulated to play a role in its pathogenesis. Thapsigargin, a selective inhibitor of sarco/endoplasmic reticulum Ca2+-ATPase, inhibits autophagy, leading to an accumulation of autophagosomes/autophagophores in cells. Cells with defective CLN3 protein function have been found to be particularly sensitive to the anti-autophagic effects of thapsigargin. Here, we characterized the effects of thapsigargin on inflammatory cytokines and autophagic markers in ARPE-19 cells using ELISA and western blotting. We further examined these effects in cells deficient in CLN3 function by exposing the cells to CLN3 siRNA and testing whether the effects of thapsigargin could be modulated by the well-known autophagy activator 5-aminoimidazole-4-carboxamide ribonucleoside (AICAR). Thapsigargin induced the accumulation of LC3 and p62/SQSTM1, consistent with impaired autophagic flux in ARPE-19 cells. Additionally, we observed that thapsigargin possessed pro-inflammatory potential, as it induced the release of IL-6 in ARPE-19 cells, no inflammasome activation was detected. Both effects were enhanced by CLN3 siRNA and alleviated by AICAR. In conclusion, thapsigargin-induced impaired autophagic flux and the accompanying inflammatory response are more pronounced in CLN3-deficient ARPE-19 cells, indicating that loss of CLN3 function affects both autophagy and inflammatory signaling.
    Keywords:  Autophagy; CLN3; Inflammation; Lysosomal storage disease; Retinal pigment epithelium
    DOI:  https://doi.org/10.1016/j.bbrc.2026.154157
  13. Autophagy Rep. 2026 ;5(1): 2685472
      Parkinson's disease-associated proteins PINK1 and Parkin collaboratively regulate stress-induced mitophagy. While in vitro human neuronal cultures are valuable for studying the roles of PINK1 and Parkin in a disease-relevant context, the impact of culture conditions on these processes remains largely underexplored. Here, it is shown that human induced neurons (iNeurons) cultured in N2B27 and BrainPhys medium exhibit distinct PINK1-Parkin-dependent mitophagy phenotypes. Specifically, BrainPhys-cultured iNeurons show greater resistance to PINK1-dependent mitophagy initiation, linked to a reduction in glucose availability and reduced PINK1 protein availabilities, leading to decreases in stress-induced and basal mitophagy fluxes. These findings highlight the critical impact of culture conditions on mitophagy dynamics and emphasize the need to account for media-specific differences when using in vitro models to investigate mitophagy mechanisms in human neurons.
    Keywords:  PINK1; Parkin; iNeuron; mitoSRAI; mitophagy; pUb(Ser65)
    DOI:  https://doi.org/10.1080/27694127.2026.2685472
  14. Transl Pediatr. 2026 May 31. 15(5): 180
       Background: Mitochondrial dysfunction and impaired autophagy in podocytes contribute to the pathogenesis of kidney diseases, and the phosphatase and tensin homolog (PTEN)-PTEN-induced putative kinase 1 (PINK1)/Parkin signaling axis has emerged as a critical regulator of mitochondrial quality control and podocyte survival; however, the precise underlying mechanisms remain unclear. This study investigates how the PTEN-PINK1/Parkin axis governs mitochondrial quality control in podocytes.
    Methods: In vitro podocyte models with PTEN gene overexpression and silencing were developed to assess changes in podocyte mitochondrial function. Podocyte apoptosis was quantified using an apoptosis detection kit, while mitochondrial membrane potential alterations were measured with the JC-1 Mitochondrial Membrane Potential Detection Kit across all experimental groups. Immunofluorescence and Western blot were used to evaluate the expression and distribution of mitophagy-related proteins, while transmission electron microscopy was employed to observe mitochondrial autophagosomes.
    Results: PTEN depletion markedly suppressed PINK1 accumulation, leading to attenuated Parkin recruitment and LC3-I to LC3-II conversion. This defect correlated with defective clearance of depolarized mitochondria and exacerbated organelle damage. Conversely, PTEN upregulation potentiated PINK1 stabilization, enhanced Parkin translocation to mitochondria, and promoted LC3-II-mediated autophagosome formation, collectively restoring mitophagic autophagosome formation.
    Conclusions: Podocyte-specific PTEN overexpression confers protection against glomerular podocyte injury by mitigating mitophagy dysfunction via the PTEN-PINK1/Parkin signal pathway, highlighting a potential therapeutic target for glomerular diseases.
    Keywords:  Podocytes; apoptosis; mitophagy; phosphatase and tensin homolog (PTEN)
    DOI:  https://doi.org/10.21037/tp-2026-1-0135
  15. Virus Res. 2026 Jun 19. pii: S0168-1702(26)00088-2. [Epub ahead of print] 199769
      The persistence of latent HIV-1 reservoirs poses a major risk for rebound viremia, necessitating strategies that enhance the clearance of intracellular viral components. Autophagy is a critical homeostatic mechanism for clearance of damaged organelle and misfolded proteins, yet its role in HIV-1 infection is complex, as the virus often evolves mechanisms to evade autophagic degradation. In this study, we identify the lysosomal transporter SLC29A3/ENT3 as a key regulator of viral clearance. Using SLC29A3-knockdown (KD) and overexpressing (OE) HEK293-T cell models, we demonstrate that the loss of SLC29A3 significantly increases susceptibility to infection by both HIV enveloped (Clade B and C) and VSV-G enveloped HIV-1 viral particles. SLC29A3-deficient cells exhibited higher rates of host genome integration and prolonged retention of the viral capsid protein p24. Immunofluorescence microscopy revealed that the absence of SLC29A3 leads to the persistent accumulation of viral cores within endolysosomes. Conversely, SLC29A3 replenishment expedited viral clearance; a process confirmed to be autophagy-dependent through pharmacological modulation with rapamycin and chloroquine. Our findings suggest that augmenting SLC29A3 activity may provide a novel therapeutic avenue for curbing viral load by enhancing virophagy.
    Keywords:  Equilibrative nuceloside transporter; HIV-1; SLC29A3; endolysosomes; viral clearance; virophagy
    DOI:  https://doi.org/10.1016/j.virusres.2026.199769
  16. EMBO Mol Med. 2026 Jun 17.
      Distinct mitophagy pathways can eliminate not only damaged mitochondria but also healthy ones. In Mitochondrial DNA Depletion Syndrome 13 (MTDPS13), dysregulated BNIP3/NIX-driven mitophagy of functional mitochondria is thought to be the key pathological driver. Patient mutations in the E3 ubiquitin ligase FBXL4 impair the proteasomal degradation of the mitophagy receptors BNIP3 and NIX, causing their accumulation and excessive mitophagy. As a result, mitochondrial content and oxidative phosphorylation decline sharply across multiple tissues, leading to early mortality, with no effective treatments currently existing. Here, we build on our work showing that AMPK can inhibit mitophagy via sequestration of the ULK1 autophagy-initiating kinase ULK1 and demonstrate that it is also critically relevant for mitophagy induced by FBXL4 disruption. Using FBXL4-deficient cells, as well as fibroblasts derived from MTDPS13 patients and a chemically-induced mouse model, we show that small molecule AMPK activation inhibits BNIP3/NIX-mediated mitophagy and recovers functional mitochondrial content. This work therefore validates AMPK as a realistic target in treating MTDPS13.
    DOI:  https://doi.org/10.1038/s44321-026-00471-z
  17. MicroPubl Biol. 2026 ;2026
      The yeast protein Atg11, whose structure is not fully solved, is a central organizer of autophagosome formation that recruits Atg9 during selective autophagy. Although the residues in Atg9 responsible for this interaction are known, those in Atg11 are not. In an attempt to discover the binding site of Atg9 on Atg11, we screened a number of mutants within amino acid residues 455-627 of Atg11, guided in part by an AlphaFold2-generated model of the Atg11 dimer. However, we were not able to identify specific residues essential for the interaction with Atg9, suggesting that the binding region may lie elsewhere on Atg11.
    DOI:  https://doi.org/10.17912/micropub.biology.001941
  18. Int Rev Cell Mol Biol. 2026 ;pii: S1937-6448(25)00153-4. [Epub ahead of print]404 63-79
      Exercise induces profound mitochondrial adaptations in skeletal muscle, with different modalities uniquely influencing different branches of mitochondrial quality control (MQC). This review examines how endurance, resistance, and high-intensity interval training (HIIT) regulate mitophagy, the selective degradation of damaged mitochondria, in skeletal muscle (SkM). Research in rodents has shown that endurance exercise upregulates mitophagy primarily through the AMPK/PGC-1α signaling axis, promoting mitochondrial turnover and ensuring metabolic efficiency. In humans, high-intensity exercise increases mitophagy to a larger extent when compared to traditional endurance exercises. On the other hand, resistance exercise triggers alternative MQC mechanisms, including potential mitochondrial ejection. Collectively, these results suggest that mitophagy and MQC pathways are regulated in human SkM following exercise, but the specific molecular pathways seem to be specific to each exercise mode. Future studies should aim at disentangling the multiple mitophagy and MQC pathways in human SkM following exercise.
    Keywords:  Aging; Exercise training; Metabolic health; Mitochondrial autophagy; Skeletal muscle plasticity
    DOI:  https://doi.org/10.1016/bs.ircmb.2025.10.005
  19. Int Rev Cell Mol Biol. 2026 ;pii: S1937-6448(25)00154-6. [Epub ahead of print]404 197-231
      Brown adipose tissue (BAT) is the main site of adaptive thermogenesis, a heat-producing process essential for maintaining body temperature, especially in cold environments. While abundant in newborns, BAT is also present in adults, where it becomes activated under specific stimuli such as cold exposure or food intake. In addition, white adipose tissue (WAT) can undergo a "browning" process, generating beige adipocytes with thermogenic properties similar to classical brown adipocytes. BAT is highly innervated and vascularized, features that support its thermogenic function by facilitating sympathetic nervous system activation and efficient heat distribution. BAT activation increases energy expenditure and plays a protective role against obesity and metabolic disorders. A growing body of evidence highlights autophagy as a critical regulator of BAT and beige adipocyte function. During thermogenic activation, autophagy, especially mitophagy, is suppressed, promoting mitochondrial accumulation and heat production. Conversely, enhanced autophagy contributes to BAT whitening and functional decline, as seen in obesity and aging. Although the role of autophagy in thermogenesis remains unclear, modulating autophagic pathways represents a promising strategy to boost thermogenic activity and improve metabolic health. Understanding the molecular mechanisms underlying BAT plasticity and autophagic regulation could offer novel therapeutic avenues for combating obesity and related metabolic diseases.
    Keywords:  adipocyte; aging; autophagy; brown adipose tissue; chaperone-mediated autophagy; thermogenesis
    DOI:  https://doi.org/10.1016/bs.ircmb.2025.10.006
  20. Curr Opin Cell Biol. 2026 Jun 17. pii: S0955-0674(26)00052-9. [Epub ahead of print]101 102664
      mTORC1 is a central regulator of cell growth and metabolism, classically viewed as a binary switch that promotes anabolic programs while suppressing catabolic pathways. Recent work advances this simplified model by revealing that mTORC1 signaling is highly substrate-specific, with distinct classes of substrates differentially regulated according to their modes of recruitment and subcellular localization. In this review, we discuss emerging evidence demonstrating that mTORC1 activity and its lysosomal localization can be functionally uncoupled, enabling selective phosphorylation of lysosomal versus non-lysosomal targets. We highlight how upstream regulatory pathways and post-translational modifications shape these substrate-specific outputs, and consider the implications of downstream uncoupling for the fundamental understanding of mTORC1 biology as well as human health and disease.
    DOI:  https://doi.org/10.1016/j.ceb.2026.102664
  21. J Inherit Metab Dis. 2026 Jul;49(4): e70214
      Niemann-Pick type C (NPC) is a childhood dementia characterized by lysosomal lipid accumulation. In Npc1-/- mice, Rapamycin, an autophagy inductor, yielded opposite results depending on genetic background, suggesting the presence of pharmacogenomic modifiers. To identify them, we used a genotyped yeast panel designed for gene mapping and the NPC-mimetic U18666A (U18-drug) in the presence and absence of rapamycin. We evaluated cell growth, vacuolar fragmentation, and transcriptomics across diverse strains. Linkage analysis based on cell growth identified a significant locus, leading to the prioritization of nine genes. Notably, ccs1 (copper chaperone for superoxide dismutase) and avo2 (TORC2 subunit) deletions decreased cell growth compared to U18-Rapa in WT cells, while irc21 (DNA damage and ceramide metabolism) increased it. Our results suggest that genomic variants within these genes should be assessed before using rapamycin for NPC. This study represents a crucial step towards personalized rapamycin therapeutics.
    Keywords:  Niemann‐Pick type C; autophagy; lysosomal storage disease; pharmacogenomics; precision medicine; rapamycin; yeast
    DOI:  https://doi.org/10.1002/jimd.70214
  22. Mol Biomed. 2026 Jun 15. pii: 91. [Epub ahead of print]7(1):
      Acute pancreatitis is caused by a premature activation of digestive proteases. One hypothesis is based on the proteolytic activation of the serine protease trypsinogen by the lysosomal enzyme cathepsin B (CTSB) after co-localization in the same subcellular compartment. The ER-cargo receptor protein CLN8 (ceroid lipofuscinosis, neuronal) mediates cathepsin transport from the endoplasmic reticulum (ER), the site of enzyme synthesis, to the trans-Golgi system, from which they are distributed to their final destinations. The aim of this study is to investigate the role of CLN8 in acute pancreatitis and intracellular cathepsin trafficking by using isolated pancreatic acinar cells, a CLN8-deficient (Cln8mnd/MsrJ) mouse model, and 266-6 mouse pancreatic acinar tumor cells in which the Cln8 gene was inactivated by CRISPR/Cas9. Loss of CLN8 mitigated the early phase of acute pancreatitis but did not prevent it completely. We still observed CTSB expression in the endo-lysosomal and secretory compartment albeit enzyme activation was decreased. At later disease stages pancreatic injury increased along with an upregulation of ER-phagy shown by an overexpression of LC3B and the ER-phagy receptor FAM134B as well as autophagolysosome formation and increased ER stress. In summary, our data show that acute pancreatitis still occurs despite disruption of the EGRESS (ER-to-Golgi relaying of enzymes of the lysosomal system) complex implicating alternative intracellular enzyme delivery routes. They also illustrate that ER-stress and ER-phagy aggravate severity at later course of pancreatitis.
    Keywords:  Acute pancreatitis; CLN8; Co-localization; Endoplasmic reticulum; Lysosome
    DOI:  https://doi.org/10.1186/s43556-026-00479-4
  23. Autophagy. 2026 Jun 14.
      Rheumatoid arthritis (RA) is a chronic, systemic autoimmune disease primarily characterized by symmetrical synovial inflammation, leading to joint swelling, pain, and progressive cartilage and bone destruction. Unfortunately, the clinical treatment of RA still faces numerous challenges. Although melatonin (MT), the circadian rhythm hormone, is known to relieve the pathological process of RA, the underlying mechanism remains poorly understood. Herein, we assess the impacts of MT on collagen or K/BxN serum-induced arthritis (two well-established models of RA) and confirm its excellent therapeutic effect. Mechanistically, MT activates MTNR1A (melatonin receptor 1A) to promote mitophagy for the elimination of reactive oxygen (ROS) and leaked mitochondrial DNA triggered by damaged mitochondria, which in turn limits NLRP3 (NLR family pyrin domain containing 3) inflammasome activation and pro-inflammatory cytokine release. Mice with deletion of the autophagy-related gene Atg5 in myeloid cells (atg5fl/fl Lyz2/LysM-cre) barely display any benefits of MT in K/BxN serum-induced arthritis. Our results indicate that mitophagy promoted by MT is essential to deactivate NLRP3 inflammasome and alleviate the development of arthritis, which provides a candidate for the treatment of RA.
    Keywords:  Experimental arthritis; NLRP3 inflammasome; melatonin; mitophagy; rheumatoid arthritis
    DOI:  https://doi.org/10.1080/15548627.2026.2689419
  24. Aging Cell. 2026 Jun;25(6): e70590
      Intranasal (IN) administrations of extracellular vesicles (EVs) derived from human-induced pluripotent stem cell (hiPSC)-derived neural stem cells (hNSCs) have shown promise in reducing chronic neuroinflammation mediated by microglia and astrocytes in 5x familial Alzheimer's disease (5xFAD) mice, a model for early-onset Alzheimer's disease (AD). The current study rigorously investigated whether treatment with hiPSC-NSC-EVs could also alleviate several other neuropathological changes contributing to progressive cognitive decline. Three-month-old male and female 5xFAD mice received IN administrations of either hiPSC-NSC-EVs (~30 × 109/week for 2 weeks) or vehicle. Two months later, the hippocampus of both male and female 5xFAD mice treated with the vehicle showed increased levels of markers of oxidative stress and mechanistic target of rapamycin (mTOR) signaling, altered expression of genes and/or proteins linked to mitochondria and autophagy, and diminished neurogenesis. In contrast, treatment with hiPSC-NSC-EVs restored levels of oxidative stress markers and the expression of genes and/or proteins linked to various mitochondrial complexes, mitochondrial biogenesis, fission, fusion, and mitophagy closer to naïve control levels, indicating alleviation of mitochondrial impairments. These improvements were accompanied by reduced phosphorylated mTOR levels and multiple autophagy markers matching those in naïve controls, suggesting a dampening of mTOR signaling and an enhancement of autophagy. Furthermore, mice treated with hiPSC-NSC-EVs showed increased hippocampal neurogenesis, associated with enhanced brain-derived neurotrophic factor signaling. Overall, the results highlight that IN administrations of hiPSC-NSC-EVs in the early stages of AD can help slow the progression of multiple neuropathological changes associated with cognitive decline in 5xFAD mice and potentially AD.
    Keywords:  Alzheimer's disease; Mitophagy; autophagy; hippocampal neurogenesis; mTOR signaling; mitochondrial dysfunction
    DOI:  https://doi.org/10.1111/acel.70590
  25. Int Rev Cell Mol Biol. 2026 ;pii: S1937-6448(25)00156-X. [Epub ahead of print]404 81-134
      For eukaryotic organisms the maintenance and regulation of cellular homeostasis is essential. This process requires continuous elimination of cellular debris, including misfolded, oxidized, and aggregated proteins, and damaged/obsolete organelle. It also requires the remodelling of the cytoplasm compartments, and the provision of nutrients to support basic cellular functions. One of the central molecular mechanisms that maintain this precarious homeostasis is the recycling program of the cell: autophagy. Dysregulation of autophagy has a relationship with several diseases, including neurodegeneration, metabolic diseases, age-related disorders, heart dysfunction, cancer, and inflammatory diseases. The regeneration of some tissues and organs in humans is limited, which hinders our capacity to recover from diseases. Regenerative ability varies from species, organs, tissues, and development stages. Whereas mammals have a more limited regenerative capacity, restricted to few tissues or organs, such as skin or liver, other vertebrates, such as axolotls, salamanders, goldfish and zebrafish, possess a higher regenerative capacity. Zebrafish display exceptional regenerative abilities. Both embryo and adult zebrafish can regenerate organs like the fin, heart, liver, kidney, muscle, spinal cord, retina and optic nerves, and several brain regions. In recent years, several works remark the crucial role of autophagy in the repair of damaged tissues and the replacement of impaired organs or body parts after injury. Investigating the cellular function of autophagy in regenerative processes will allow us to develop new therapeutic strategies for human disorders. In this chapter, we discuss the current evidence supporting the important role of autophagy in mediating regenerative processes, emphasizing the relevance of zebrafish as a prominent vertebrate model to study autophagy.
    Keywords:  Autophagy; Bone; Cartilage; Heart; Kidney; Liver; Muscle; Nervous system; Regeneration; Zebrafish
    DOI:  https://doi.org/10.1016/bs.ircmb.2025.10.008
  26. Adv Sci (Weinh). 2026 Jun 19. e76165
      Prostate cancer (PCa) ranks among the most common and deadly malignancies worldwide. The clinical treatment of advanced prostate cancer is particularly challenging due to acquired drug resistance. Autophagy and lysosome-related pathways are key drivers of this resistance. Targeting the lysosome represents a potential therapeutic strategy for PCa. In this study, we identified Heat Shock Protein Family A Member 8 (HSPA8) as a critical functional node of Aloperine (ALO). ALO suppresses autophagic flux, disrupts lysosomal homeostasis, and induces lysosomal vacuolation in cancer cells by inhibiting the function of HSPA8, impairing chaperone-mediated autophagy (CMA)-mediated ATP6V1A degradation. The resulting pathological accumulation and enhanced V1-V0 association of the V-ATPase complex drive pronounced lysosomal hyperacidification and severe osmotic swelling. This biochemical and physical stress is associated with lysosomal membrane permeabilization (LMP) and downstream loss of lysosomal integrity. Furthermore, we reveal that ALO-induced vacuolation triggers a compensatory upregulation of cholesterol biosynthesis to buffer membrane expansion; preemptively disrupting this adaptive response with the DHCR7 inhibitor AY9944 yields significant synergistic lethality. Collectively, our findings reveal the specific cytotoxic mechanism of ALO and demonstrate that pharmacological targeting of the HSPA8-CMA-ATP6V1A axis is a valuable strategy for inducing lethal lysosomal vacuolation in advanced PCa.
    Keywords:  HSPA8; V‐ATPase; chaperone‐mediated autophagy; lysosomal membrane permeabilization; osmotic stress
    DOI:  https://doi.org/10.1002/advs.76165
  27. Autophagy. 2026 Jun 15.
      Fibrosis is increasingly viewed as a consequence of defective tissue regeneration rather than simply excessive extracellular matrix accumulation. However, the mechanisms that simultaneously regulate fibroblast activation and regenerative capacity remain poorly understood. In our recent study, we identify chaperone-mediated autophagy (CMA) as a conserved regulator of fibrosis across the lung, liver, and kidney. The CMA receptor lysosome-associated membrane protein 2 (LAMP2A) is consistently downregulated in experimental and human fibrotic diseases, accompanied by reduced CMA activity. Restoration of LAMP2A expression or pharmacological activation of CMA suppresses fibroblast activation through degradation of the mechanosensitive protein integrin subunit beta 1 (ITGB1) and simultaneously enhances regenerative programs in alveolar epithelial cells, hepatocytes, and renal tubular cells. These findings suggest that CMA functions as a regenerative checkpoint that coordinates tissue repair outcomes. Beyond its established role in proteostasis, CMA may determine whether injured tissues undergo successful regeneration or progress toward fibrosis, highlighting CMA activation as a potential therapeutic strategy for chronic fibrotic diseases.
    Keywords:  Chaperone-mediated autophagy; fibroblast activation; integrin subunit beta 1; lysosome-associated membrane protein 2; organ fibrosis; regenerative checkpoint
    DOI:  https://doi.org/10.1080/15548627.2026.2690147
  28. Circ Res. 2026 Jun 16.
       BACKGROUND: Pathological cardiac remodeling and afterload-induced increases in energy demand together contribute to heart failure (HF). Lysosome-assisted processes, such as autophagy, coupled with alterations in mitochondrial oxidative capacity, play important roles in cardiac remodeling and HF. Furthermore, the lysosome is a hub for multiple signaling pathways governing hypertrophic growth. The TFEB (transcription factor EB) has emerged as a key regulator of lysosomal genes and mitochondrial function in multiple tissues, especially in response to external stress.
    METHODS: Leveraging a cardiomyocyte-specific TFEB knockout mouse (CTKO), pressure overload was induced by transverse aortic constriction (TAC) to elucidate the role of TFEB under hypertrophic stress conditions. Echocardiography was employed to assess cardiac function, and hearts were subsequently harvested for transcriptomic, proteomic, and metabolomic analyses. To glean further insight into the molecular mechanisms involved, we studied neonatal rat ventricular myocytes exposed to phenylephrine, an in vitro model of cardiomyocyte hypertrophy.
    RESULTS: We report that TFEB is rapidly activated and translocates to the nucleus in cardiomyocytes exposed to hypertrophic stress conditions, triggering a lysosomal gene program independent of autophagy gene changes. At baseline, contractile function measured by echocardiography appeared normal in these mice compared with their Cre-negative littermates. However, in pressure-overload stress induced by TAC, CTKO mice manifested an amplified hypertrophic response, leading rapidly to HF. Unlike WT hearts, CTKO hearts failed to increase lysosomal capacity after TAC. They manifested an increase in the steady-state levels of autophagosome-associated proteins, such as LC3II and p62, as well as accumulation of ubiquitinated proteins, suggesting a defect in protein turnover. Interestingly, CTKO mice harbored altered mitochondrial structure, reduced oxidative capacity, and reduced abundance of peroxisome PGC-1α-b (proliferator-activated receptor-1 alpha-b). Furthermore, CTKO hearts manifested reduced expression of key enzymes within metabolic pathways essential for normal myocardial metabolism, including fatty acid metabolism, carbon metabolism, and branched-chain amino acid metabolism. Surprisingly, AMPK (AMP-activated protein kinase) signaling, while normal at baseline, was significantly decreased in CTKO hearts after TAC. This reliance on TFEB for growth trigger-induced AMPK signaling was also observed in vitro in cells exposed to phenylephrine, as were the antihypertrophic effects of TFEB activation, supporting a direct role of TFEB in this process. Finally, we report that exogenous activation of AMPK in the absence of TFEB can completely rescue the exacerbated hypertrophic response both in vitro and in vivo, independent of lysosomal function. Notably, blunting of the hypertrophic response did not impact the decreased contractile function observed in TAC-treated CTKO mice, highlighting the importance of TFEB in regulating mitochondrial function in response to stress.
    CONCLUSIONS: Our findings demonstrate that TFEB antagonizes pathological hypertrophic cardiac remodeling through upregulation of lysosomal capacity, maintaining mitochondrial energetic function, and promoting AMPK signaling.
    Keywords:  autophagy; heart failure; hypertrophy; lysosomes; proteomics
    DOI:  https://doi.org/10.1161/CIRCRESAHA.125.328083
  29. Cancer Biol Ther. 2026 Dec 31. 27(1): 2680347
      Macroautophagy (autophagy) enables cellular stress adaptation by degrading damaged components; ULK1, a serine/threonine kinase, initiates this process in response to nutrient and energy cues. While autophagy is well studied, few investigations have directly tested ULK1 in cancer progression. Emerging functional data across numerous cancers indicate that ULK1 can promote or restrain malignant behavior through both autophagy-dependent and autophagy-independent mechanisms, modulating mitochondrial quality, anoikis escape, invasion, therapy adaptation, and immune visibility. Pharmacology has advanced from early ULK1/2 inhibitors to structure-guided and machine learning-derived inhibitors with improved potency and selectivity. The first clinical agent, DCC-3116, demonstrates on-target engagement with acceptable tolerability and is being evaluated in combinations where therapy induces autophagy. Here, we review ULK1 as a regulator of cancer progression, synthesizing pan-cancer clinical and functional evidence alongside the evolving pharmacology of ULK1 modulation to define the settings in which its targeted inhibition may be most effectively translated.
    Keywords:  ULK1; autophagy; cancer; inhibitors; metastasis; non-canonical; pharmacology
    DOI:  https://doi.org/10.1080/15384047.2026.2680347
  30. Autophagy. 2026 Jun 18.
      Beyond their role in energy production, mitochondria also interact with other organelles through forming membrane contacts that serve as central hubs of cellular metabolism and signaling. Aberrant mitochondria-organelle communication has been implicated in various neurodegenerative diseases, but the underlying mechanisms and their pathological consequences remain poorly understood. Here, we reveal that tauopathy synapses exhibit excessive tethering of autophagosome/autophagic vacuole (AV)-mitochondria (Mito) contacts, driven by mitochondrial bioenergetic deficit-induced hyperactivity of adenosine monophosphate-activated protein kinase (AMPK) that results in accelerated turnover of the contact release factor TBC1D15. Such defects consequently disrupt autophagy-mediated clearance of MAPT/tau by preventing AV retrograde transport. Strikingly, elevating TBC1D15 levels normalizes AV-Mito contact dynamics and restores autophagy activity, thereby mitigating MAPT/tau pathology and ameliorating neurodegeneration and cognitive impairment in tauopathy mice. Together, these findings establish bioenergetic deficits and the resulting AV-Mito hyper-tethering as a critical mechanism driving autophagy dysfunction and pathological MAPT/tau buildup in tauopathy neurons and highlight TBC1D15-modulated AV-Mito contact release and autophagy as promising therapeutic targets for tauopathies, including Alzheimer disease.
    Keywords:  AMPK; Alzheimer; TBC1D15; autophagosome-mitochondria contact; autophagy; mitochondrial bioenergetics; retrograde transport; tauopathy
    DOI:  https://doi.org/10.1080/15548627.2026.2692613
  31. Autophagy. 2026 Jun 14.
      Obesity is recognized as a key contributor to the impaired endometrial receptivity that results in infertility; however, the molecular mechanisms underlying endometrial dysfunction remain incompletely understood. In this study, proteomic and ubiquitination analyses of secretory-phase endometrial tissue revealed a significant upregulation of SNCA/synuclein alpha and dysregulation of macroautophagy/autophagy in women with obesity. SNCA is best known for its role in neurodegenerative protein aggregation disorders. Proteomic and ubiquitination analysis of secretory-phase endometrial tissue revealed a significant upregulation of SNCA and dysregulation of autophagy in women with obesity. This study aimed to elucidate the role and mechanistic basis of SNCA and autophagy in obesity-associated endometrial receptivity defects. We demonstrated that elevated SNCA expression in endometrium and endometrial stromal cells (ESCs) correlated with impaired autophagy and disrupted decidualization in vivo and vitro. Mechanistically, SNCA directly interacted with the E3 ubiquitin ligase STUB1 (STIP1 homology and U-box containing protein 1) in ESCs, thereby disrupting the association between STUB1 and phosphorylated TFEB (transcription factor EB; p-TFEB). This interaction attenuated p‑TFEB degradation, leading to suppressed autophagic flux and ultimately compromised decidualization of ESCs. Conversely, snca knockout alleviated obesity-induced endometrial impairments in mice. Moreover, STUB1 overexpression rescued decidualization and autophagy defects. Notably, metformin intervention restored autophagic activity and endometrial receptivity in obese mice by downregulation of SNCA independent of its autophagy-modulating effects. Together, these findings uncovered a novel pathogenic mechanism in which obesity-driven SNCA overexpression impairs endometrial receptivity by inhibiting STUB1-TFEB-mediated autophagy, positioning the SNCA-STUB1-TFEB axis as a promising therapeutic target for obesity-related endometrial infertility.
    Keywords:  Autophagy; SNCA; decidualization; metformin; obesity
    DOI:  https://doi.org/10.1080/15548627.2026.2689455
  32. Nat Commun. 2026 Jun 17.
      Genome-edited human pluripotent stem cells (hPSCs) provide a powerful platform to study complex diseases such as Parkinson's disease (PD). Here, we describe iSCORE-PD, an isogenic collection of 65 genome-edited hPSC lines carrying disease-causing or high-risk variants in 11 PD-linked genes (SNCA, PRKN, PINK1, DJ1/PARK7, LRRK2, ATP13A2, FBXO7, DNAJC6, SYNJ1, VPS13C, and GBA1). All lines are derived from a well-characterized female hESC line and subjected to extensive quality control. Whole-genome sequencing reveals that genetic variation between lines, largely confined to non-coding regions, is minimal relative to inter-individual differences in patient-derived hiPSCs, with most variation arising from random mutations acquired during cell culture rather than genome-editing-induced off-target effects. Including multiple independently derived clones per mutation can control for this random genetic drift. Our systematic approach ensures high quality of this publicly available iSCORE-PD resource, highlights the advantages of prime editing over conventional CRISPR/Cas9 methods, and establishes best practices for generating disease-modeling hPSC collections.
    DOI:  https://doi.org/10.1038/s41467-026-74355-8
  33. Biotechnol Prog. 2026 Jun 20. e88528
      Autophagy, a cellular recycling process regulated by the CLEAR signaling pathway, plays a pivotal role in maintaining cellular homeostasis. We hypothesize that this process may regulate and reduce high-risk host cell proteins (HCPs) levels by targeting intracellular proteins and organelles for degradation. This study investigates the relationship between autophagy induction and the reduction of HCPs, including polysorbate-degrading enzymes (PSDEs), to enhance the stability of therapeutic biologics such as monoclonal antibodies (mAbs). Using clonal analysis, we identified upregulation of the CLEAR pathway in one clone, correlating with a significant reduction in lipase activity and PSDE abundance. Furthermore, autophagy modulators, such as 3-methyladenine (3-MA), selectively decreased PSDE levels in both glucose-supplemented batch culture and fed-batch cultures. This resulted in a 62% reduction in lipase activity that corresponded to a 22% improvement in polysorbate-80 stability. Additionally, 3-MA treatment increased mAb specific productivity and altered glycosylation profiles, increasing afucosylation and galactosylation levels. These findings highlight autophagy induction as a promising strategy to modulate product quality profiles and reduce high-risk HCPs in biologics production.
    Keywords:  CLEAR signaling pathway; Polysorbate‐degrading enzymes (PSDEs); autophagy; glycosylation profile optimization; host cell proteins
    DOI:  https://doi.org/10.1002/btpr.88528
  34. Poult Sci. 2026 Jun 02. pii: S0032-5791(26)00856-4. [Epub ahead of print]105(9): 107225
      Goose astrovirus genotype 2 (GAstV-2) is an emerging pathogen responsible for gout in goslings, posing a serious threat to the goose breeding industry in China. Although the disease has caused significant economic losses, the mechanisms underlying GAstV-2-induced pathogenesis, particularly gout formation, remain poorly understood. In this study, we investigated the effect of GAstV-2 infection on autophagy in primary goose renal tubular epithelial (GRTE) cells and explored the associated signaling pathways. Our results demonstrated that GAstV-2 infection induced autophagic flux in GRTE cells, and pharmacological induction of autophagy increased, whereas inhibition decreased, GAstV-2 replication, which is consistent with a pro-viral role of autophagy. Furthermore, we found that GAstV-2 induced autophagy in GRTE cells through the extracellular signal-regulated kinase 2 (ERK2) signaling pathway, as determined using specific inhibitors and RNA interference assays. Collectively, this study reveals that GAstV-2 induces autophagy in GRTE cells requiring the ERK2 signaling pathway, and pharmacological induction of autophagy increased, whereas inhibition decreased, viral replication, consistent with a pro-viral function of autophagy.
    Keywords:  Autophagy; ERK2; GAstV-2; Renal tubular epithelial cells; Viral replication
    DOI:  https://doi.org/10.1016/j.psj.2026.107225
  35. FEBS J. 2026 Jun 19.
      Insoluble protein aggregates are a hallmark of neurodegenerative diseases like amyotrophic lateral sclerosis (ALS). The ubiquitin-proteasome system (UPS) serves as a neuroprotective quality control mechanism that clears aggregates. PML nuclear bodies (NBs) were proposed to serve as hubs for SUMO-primed ubiquitylation and degradation of misfolded proteins. Georgiadou et al. provide evidence that an ALS-linked NEK1 truncation mutant is recruited to PML NBs, where it likely undergoes SUMOylation and ubiquitylation. In mice, PML loss exacerbates ALS-like symptoms, while induced PML expression delays disease onset. These findings establish PML as a key regulator of proteostasis and highlight PML induction as a potential therapeutic strategy for ALS and related proteinopathies.
    Keywords:  ALS; NEK1; PML; SUMO; SUMO‐targeted ubiquitylation; ubiquitin
    DOI:  https://doi.org/10.1111/febs.70630
  36. J Clin Invest. 2026 06 15. pii: e173913. [Epub ahead of print]136(12):
      Interrupting glucagon signaling decreases gluconeogenesis and the fractional extraction of amino acids by liver from blood, resulting in lower glycemia. The resulting hyperaminoacidemia stimulates α cell proliferation and glucagon secretion via a liver/α cell axis. We hypothesized that α cells detect and respond to circulating amino acids' levels via a unique amino acid transporter repertoire. We found that Slc7a2/SLC7A2 is the most highly expressed cationic amino acid transporter in α cells, with its expression being 3-fold greater in α than β cells in both mouse and human. Employing cell culture, zebrafish, and knockout mouse models, we found that the cationic amino acid arginine and SLC7A2 are required for α cell proliferation in response to interrupted glucagon signaling. Ex vivo and in vivo assessment of islet function in Slc7a2-/- mice showed decreased arginine-stimulated glucagon and insulin secretion. We found that arginine activation of mTOR signaling and induction of the glutamine transporter SLC38A5 was dependent on SLC7A2, showing that the role of both in α cell proliferation is dependent on arginine transport and SLC7A2. Finally, we identified single nucleotide polymorphisms in SLC7A2 associated with HbA1c. Together, these data indicate a central role for SLC7A2 in amino acid-stimulated α cell proliferation and islet hormone secretion.
    Keywords:  Amino acid metabolism; Cell biology; Endocrinology; Insulin; Islet cells; Metabolism
    DOI:  https://doi.org/10.1172/JCI173913
  37. FEBS Lett. 2026 Jun 17.
      Proteostasis and the gut microbiota are two major determinants of host health and longevity. Proteostasis ensures proper protein folding and degradation thereby preventing the accumulation of unwanted proteins. Similarly, microbiota contribute to host metabolism, immunity, and protection from pathogens. However, as aging progresses, the proteostasis network declines, and the composition and functionality of gut microbiota are altered, often resulting in dysbiosis. While the impact of the microbiota on various aspects of host physiology is extensively studied, its specific influence on host protein quality control remains relatively underexplored. In this review, we provide an integrated overview of the relationship between microbiota and host proteostasis. Accumulating findings, particularly from C. elegans models, provide substantial support for the concept that microbiota-derived factors (vitamins and RNA) can shape host proteostasis and influence aging-related phenotypes. We discuss emerging evidence showing that microbial communities and their metabolites can either support or impair cellular proteostasis, highlighting their potential as prebiotics or dietary intervention candidates for promoting healthy aging. Understanding the intricate interplay between microbiota and proteostasis opens new avenues for designing microbiota-based strategies for healthy aging.
    Keywords:  aging; autophagy; microbiota; proteostasis; ubiquitin‐proteasome system
    DOI:  https://doi.org/10.1002/1873-3468.70386
  38. Proc Natl Acad Sci U S A. 2026 Jun 23. 123(25): e2601752123
      The formation of the enteric nervous system (ENS) primarily involves the migration of enteric neural crest-derived cells (ENCCs) and the subsequent maturation of enteric neurons. The developmental dysfunction of ENCCs and enteric neurons can result in ENS disorders, such as hypoganglionosis (HG). Although neurite outgrowth is fundamental to neuronal maturation, the mechanisms by which neurite outgrowth influences neuronal maturation remain poorly defined. Here, we identified EMB as a critical regulator of enteric neuronal maturation. In EMB mutant patients, the expression of EMB is reduced in the enteric neurons of the HG-affected colon. In mice, knockdown of Emb exhibited HG-like features and defects. In vitro experiments, along with analyses using Smart-seq2 and immunoprecipitation-mass spectrometry, demonstrated that EMB is essential for autophagic flux and physically interacts with ATG7, recruiting it to the autophagosomal membrane to facilitate autophagosome formation, and then EMB/ATG7-mediated autophagy promotes neurite outgrowth. Our findings elucidate EMB-mediated autophagy as a pivotal pathway in regulating neurite outgrowth and promoting the maturation of enteric neurons, which provides a mechanistic basis for understanding ENS disorders.
    Keywords:  EMB; autophagy; enteric nervous system; hypoganglionosis; neurite outgrowth
    DOI:  https://doi.org/10.1073/pnas.2601752123
  39. Cell Biosci. 2026 Jun 19.
       BACKGROUND: Mitochondrial proteases are essential for mitochondrial protein import and constitute the core of the organelle's intrinsic protein quality control system. However, their physiological functions across tissues, as well as their influence on cytosolic proteostasis, remain incompletely understood.
    RESULTS: We generated loss- and gain-of-function alleles for 15 conserved mitochondrial proteases in Drosophila melanogaster to systematically dissect their in vivo functions. Disruption of specific proteases caused male sterility or organismal lethality, whereas tissue-specific knockouts in the eye, muscle, or fat body led to mitochondrial protein aggregates, structural defects, and age-dependent degeneration. Loss of UQCR-C1 or Afg3l2 robustly increased mitophagy, while overexpression of several proteases severely impaired muscle integrity. Loss of UQCR-C1, Mppa, or CG11771 promoted HTT72Q aggregation, and reducing UQCR-C1 or Afg3l2 markedly elevated cytosolic HTT72Q levels. Conversely, overexpressing Mppa-but with reduced efficacy in its disease-associated variants-suppressed HTT96Q aggregation and neuronal toxicity. Mppa forms a complex with UQCR-C1 to regulate mitochondrial pre-protein processing and import, indicating that enhancing mitochondrial protein import is sufficient to alleviate cytosolic proteotoxic stress caused by HTT polyglutamine (polyQ) proteins.
    CONCLUSIONS: This work establishes a comprehensive in vivo resource for mitochondrial protease functions and their roles in shaping cytosolic proteostasis.
    Keywords:   Drosophila ; Huntington disease (HTT) polyQ proteins; Mitochondria; Protease
    DOI:  https://doi.org/10.1186/s13578-026-01612-0
  40. Neurotoxicology. 2026 Jun 19. pii: S0161-813X(26)00118-X. [Epub ahead of print] 103497
      The mechanistic target of rapamycin complex 2 (mTORC2), a key regulator of cellular metabolism, growth, and survival, remains poorly characterized in the context of dopaminergic neurotoxicity. In this study, we investigated the role of mTORC2 signaling in the survival of SH-SY5Y neuroblastoma cells exposed to the Parkinsonian neurotoxins 1-methyl-4-phenylpyridinium (MPP⁺) and 6-hydroxydopamine (6-OHDA), and examined its interplay with oxidative stress and major stress-responsive signaling pathways. Both neurotoxins induced oxidative stress and mitochondrial damage, accompanied by PINK1 accumulation and culminating in caspase-3 activation, PARP1 cleavage, and apoptotic cell death. These effects were associated with reactive oxygen species (ROS)-dependent phosphorylation of the mTORC2 components Rictor and SIN1, as well as the downstream mTORC2 target Akt (Ser473), indicating activation of mTORC2 signaling in response to neurotoxic insult. RNA interference-mediated depletion of the mTORC2 subunits Rictor, SIN1, or mLST8 reduced Akt phosphorylation and potentiated 6-OHDA-induced cytotoxicity by exacerbating oxidative stress, mitochondrial damage, PINK1 accumulation, and the apoptotic cleavage of caspase-3 and PARP1. In contrast, only Rictor depletion, but not SIN1 or mLST8 knockdown, increased the susceptibility of SH-SY5Y cells to MPP⁺-induced toxicity. Genetic inactivation of mTORC2 reduced basal phosphorylation of the cellular energy sensor AMP-activated protein kinase (AMPK), but did not alter neurotoxin-induced phosphorylation of AMPK or the mitogen-activated protein kinases ERK and JNK. Together, these findings demonstrate a protective role of mTORC2 components against 6-OHDA-induced, and to a lesser extent, MPP+-induced, mitochondrial damage and apoptotic cell death.
    Keywords:  6-OHDA; MPP(+); Parkinson’s disease; apoptosis; mTORC2; oxidative stress
    DOI:  https://doi.org/10.1016/j.neuro.2026.103497
  41. Vet Res. 2026 Jun 13. pii: 107. [Epub ahead of print]57(1):
      Fowl adenovirus serotype 4 (FAdV-4) infection causes significant economic losses to the global poultry industry. Viruses often hijack host cellular machinery to facilitate their replication; however, the mechanisms by which FAdV-4 manipulates host pathways remain poorly defined. Mitochondria, the central hubs for energy metabolism and innate immunity in hepatocytes and cardiomyocytes, are critical targets for viral manipulation, yet their role in FAdV-4 pathogenesis remains unexplored. Here, we demonstrated that FAdV-4 infection caused direct mitochondrial damage and induced PINK1/Parkin-dependent mitophagy both in vitro and in vivo. Moreover, the virus actively hijacked the PINK1/Parkin-mediated mitophagy to enhance viral replication in LMH cells. Inhibition of mitophagy led to an average tenfold reduction in viral replication of pathogenic FAdV-4 in LMH cells (p < 0.05). Strikingly, residue 188 in the Hexon protein, a key virulence determinant, differentially regulated mitophagy: the R188I mutation in the pathogenic FAdV-4 attenuated mitophagy, whereas the I188R mutation in nonpathogenic FAdV-4 enhanced this process. This study elucidated the viral exploitation of mitophagy by FAdV-4 to promote viral replication, and established Hexon residue 188 and the mitophagy pathway as prime targets for developing novel therapeutics against avian adenoviral diseases.
    Keywords:  Fowl adenovirus serotype 4; mitochondrial damage; mitophagy; pathogenicity; viral pathogenesis
    DOI:  https://doi.org/10.1186/s13567-026-01791-1
  42. Nat Commun. 2026 Jun 16.
      Correct trafficking of lysosomal transporters is essential for intracellular homeostasis. While most lysosomal membrane proteins are directed to the lysosome via sorting motifs, the cobalamin exporter ABCD4 is distinct, instead relying on LMBD1 as a dedicated chaperone for its trafficking. Dysfunction of either protein causes inherited cobalamin metabolism disorders. Despite its physiological significance, the molecular mechanism underlying this chaperone-dependent trafficking remains unclear. Here, we report the cryo-EM structures of ABCD4 complex with LMBD1 in the lumen-open, substrate-bound and cytosol-open states. LMBD1 contains nine transmembrane-helices (TMs) and a cytosolic domain, both of which engage ABCD4. Cell imaging shows that disruption of these interactions impairs the trafficking of ABCD4 to lysosomes. Structural and biochemical analyses provide insights into cobalamin recognition and reveal conformational states associated with the proposed cobalamin transport cycle. These findings provide molecular insights into cobalamin metabolism and illustrate a chaperone-assisted mechanism that supports proper trafficking of a lysosomal transporter.
    DOI:  https://doi.org/10.1038/s41467-026-74552-5
  43. Int Rev Cell Mol Biol. 2026 ;pii: S1937-6448(25)00152-2. [Epub ahead of print]404 135-196
      Neurodegeneration with brain iron accumulation (NBIA) encompasses a set of rare disorders that present a diagnostic challenge due to their genetic and clinical diversity, with treatment options currently limited to symptom alleviation. One subtype, β-Propeller Associated Neurodegeneration (BPAN), results from pathogenic variants in the WDR45 gene on the X chromosome. This condition is marked by iron accumulation in the globus pallidus and substantia nigra, alongside early onset developmental delays, seizures, and motor impairments. The WDR45 gene produces the WDR45 protein, which plays a key role in the creation and maturation of autophagosomes-crucial components of the autophagy process, a cellular mechanism vital to the organism's proper function. In BPAN, reduced autophagy correlates with mitochondrial dysfunction, impaired antioxidant defenses, elevated lipid peroxidation, buildup of lipofuscin granules, and disrupted iron metabolism. However, the precise relationships between these pathological issues remain unclear. There is no curative treatment for BPAN, therefore care focuses on palliation and symptom management through a multidisciplinary approach. Nonetheless, research into various therapeutic strategies is ongoing, including gene therapy to correct the genetic anomaly and methods to influence pathological pathways like autophagy deficiency, lipid peroxidation, and iron accumulation. A novel approach has recently been suggested, aimed at reactivating the inactive X chromosome in females with BPAN.
    Keywords:  Autophagy; BPAN; Iron accumulation; NBIA; WDR45; X-linked diseases
    DOI:  https://doi.org/10.1016/bs.ircmb.2025.10.004
  44. Proc Natl Acad Sci U S A. 2026 Jun 23. 123(25): e2532309123
      Hypoxia is a common stress encountered by animal tissues during development, physiology, and disease. To cope with hypoxic stress, cells remodel metabolic and signaling networks to preserve viability and function. Lysosomes serve as central hubs for metabolic control and intracellular signaling, yet their role in hypoxic adaptation remains unclear. Here, we identify the lysosomal calcium transporter TMEM165 as a hypoxia-responsive regulator of cellular homeostasis. Under hypoxic conditions, TMEM165 expression increases, promoting calcium redistribution from the endoplasmic reticulum to lysosomes and expanding lysosomal calcium storage capacity. TMEM165 activation regulates autophagy and senescence through the AMPK-mTOR and ERK/p21 signaling pathways, respectively. In glioma, high TMEM165 expression correlates with poor prognosis, whereas its depletion suppresses glycolysis, proliferation, and tumor progression. These findings establish TMEM165 as a lysosomal hypoxia-responsive protein that integrates calcium signaling with metabolic and stress-response pathways, revealing a mechanistic link between oxygen availability, lysosomal function, and tumor adaptation.
    Keywords:  TMEM165; calcium signaling; cancer; hypoxia; lysosome
    DOI:  https://doi.org/10.1073/pnas.2532309123
  45. Adv Sci (Weinh). 2026 Jun 15. e76119
      TAR DNA-binding protein 43 (TDP-43) is a ubiquitously expressed RNA-binding protein that plays essential roles in RNA metabolism, including transcription, splicing, transport, and stability. Pathological TDP-43 aggregates have become a defining hallmark of neurodegenerative diseases such as amyotrophic lateral sclerosis (ALS) and a large subset of frontotemporal lobar degeneration (FTLD). In the last decade, increasing evidence has challenged the initial thought of TDP-43 condensates as a purely pathological event, highlighting instead the physiological relevance of reversible self-association, polymerization and liquid-liquid phase separation (LLPS) in regulating TDP-43 functions. In this review, we provide an integrated overview of the structural determinants governing TDP-43 two-faced polymerization, with a particular focus on the prion-like domain and its parallelism with prion proteins. Indeed, while physiological assemblies support normal RNA processing, the dysregulation of LLPS by either disease-associated mutations, altered RNA-binding, aberrant post-translational modifications, or proteolytic cleavage can promote the transition toward irreversible, pathogenic aggregates. Finally, we summarize strategies aimed at eliminating TDP-43 aggregates or modulating its phase-separation behavior. Altogether, this review frames TDP-43 polymerization in both healthy and pathological conditions, offering a prion-like centered view of TDP-43 proteinopathies.
    Keywords:  LLPS; TDP‐43; neurodegeneration; prion‐like domain; protein aggregation; therapeutic strategies
    DOI:  https://doi.org/10.1002/advs.76119
  46. J Biol Chem. 2026 Jun 19. pii: S0021-9258(26)02143-5. [Epub ahead of print] 113271
      Proper protein production is an essential biological process for all known living organisms. The cell depends on a functional protein homeostasis, or proteostasis, network to facilitate proper gene expression, transcription, translation, polypeptide folding, and degradation. Several condensates are involved in the "birth" and maturation of newly synthesized proteins. In conditions of cellular stress, gene expression and protein production are altered, and protein degradation often increases. Under various types of cellular stress, new condensates often form. This review will highlight the condensates that are involved in the protein lifespan. This includes condensates that regulate gene expression, protein translation, sequester misfolded proteins, and those associated with protein degradation. We will summarize what is known about these condensates under unstressed conditions, and how their regulation changes under stressed conditions. Understanding the functions and regulation of condensates during the protein life cycle will be critical to determining how things go awry in disease.
    Keywords:  aging; misfolded protein clearance; molecular chaperones; neurodegenerative diseases; phase separation; protein aggregation; protein quality control; proteostasis
    DOI:  https://doi.org/10.1016/j.jbc.2026.113271
  47. Circulation. 2026 Jun 17.
       BACKGROUND: Cardiac aging involves progressive mitochondrial dysfunction, contributing to heart failure. Cardiolipin (CL), essential for mitochondrial function, is increasingly depleted in aging cardiomyocytes, promoting mitochondrial decline. Lysosomal degradation relies on v-ATPase (vacuolar-type H+-ATPase)-mediated acidification, and although lysosomes regulate phospholipid metabolism, their roles in CL homeostasis during aging remains unclear. This study examines whether v-ATPase dysfunction drives age-related cardiac changes by disrupting CL metabolism and mitochondrial function.
    METHODS: To investigate underlying mechanisms and causality, we use RNA sequencing, targeted lipidomics, immunofluorescence microscopy, (co)immunoprecipitation, proximity ligation assays, subcellular fractionation, mitochondrial respiration analysis and echocardiography, a cardiolipin synthase-1 (Crsl1) knockout mouse model, and 2 v-ATPase knockout models. In addition, we assess whether a nutraceutical intervention targeting v-ATPase dysfunction can mitigate heart failure in aging mouse models and elderly people.
    RESULTS: Our present findings reveal a sequence of events driving age-related cardiomyopathy: declining cardiac nicotinamide adenine dinucleotide levels impair v-ATPase-mediated lysosomal acidification by weakening the interaction between nicotinamide adenine dinucleotide-dependent glycolytic enzyme aldolase and v-ATPase. This disruption increases lysosomal membrane permeability by reducing lysosomal acidification, allowing cathepsin B to leak into mitochondria. There, cathepsin B disrupts mitochondrial CRLS1 (cardiolipin synthase I), impairing CL synthesis and remodeling. The resulting CL deficiency causes mitochondrial oxidative stress and programmed cell death, leading to mitochondrial and cardiac dysfunction. Genetic or chemical inhibition of v-ATPase and of CRLS1 in mouse models reproduce these age-related defects, highlighting their central roles in cardiac aging. Restoring nicotinamide adenine dinucleotide levels rescues lysosomal acidification and CL metabolism, protecting against age-related cardiomyopathy in rodents and humans.
    CONCLUSIONS: Augmenting v-ATPase-mediated lysosomal acidification offers novel therapeutic strategies to combat age-related cardiomyopathy by rewiring CL homeostasis.
    Keywords:  aged heart; cardiolipin metabolism; cardiolipin synthase 1; lysosomal acidification; mitochondrial homeostasis; vacuolar H+-ATPase
    DOI:  https://doi.org/10.1161/CIRCULATIONAHA.125.078376