bims-lymeca Biomed News
on Lysosome metabolism in cancer
Issue of 2022–05–15
fiveteen papers selected by
Harilaos Filippakis, Harvard University



  1. FASEB J. 2022 May;36 Suppl 1
      Lysosomes are vital organelles vulnerable to injuries from diverse materials. Failure to repair or sequester damaged lysosomes poses a threat to cell viability. Here we report that cells exploit a sphingomyelin-based lysosomal repair pathway that operates independently of ESCRT to reverse potentially lethal membrane damage. Various conditions perturbing organelle integrity trigger a rapid calcium-activated scrambling and cytosolic exposure of sphingomyelin. Subsequent metabolic conversion of sphingomyelin by neutral sphingomyelinases on the cytosolic surface of injured lysosomes promotes their repair, also when ESCRT function is compromised. Conversely, blocking turnover of cytosolic sphingomyelin renders cells more sensitive to lysosome-damaging drugs. Our data indicate that calcium-activated scramblases, sphingomyelin, and neutral sphingomyelinases are core components of a previously unrecognized membrane restoration pathway by which cells preserve the functional integrity of lysosomes.
    DOI:  https://doi.org/10.1096/fasebj.2022.36.S1.0R237
  2. Adv Nutr. 2022 May 13. pii: nmac055. [Epub ahead of print]
      Mechanistic target of rapamycin complex 1 (mTORC1) is a multi-protein complex widely found in eukaryotes. It serves as a central signaling node to coordinate cell growth and metabolism by sensing diverse extracellular and intracellular inputs, including amino acid-, growth factor-, glucose-, and nucleotide-related signals. It is well documented that mTORC1 is recruited to the lysosomal surface, where it is activated and, accordingly, modulates downstream effectors involved in regulating protein, lipid, and glucose metabolism. mTORC1 is thus the central node for coordinating the storage and mobilization of nutrients and energy across various tissues. However, emerging evidence indicated that the overactivation of mTORC1 induced by nutritional disorders leads to the occurrence of a variety of metabolic diseases, including obesity and type 2 diabetes, as well as cancer, neurodegenerative disorders, and aging. That the mTORC1 pathway plays a crucial role in regulating the occurrence of metabolic diseases renders it a prime target for the development of effective therapeutic strategies. Here, we focus on recent advances in our understanding of the regulatory mechanisms underlying how mTORC1 integrates metabolic inputs as well as the role of mTORC1 in the regulation of nutritional and metabolic diseases.
    Keywords:  Metabolic diseases; Metabolism; Nutrient; Signal transduction; mTORC1
    DOI:  https://doi.org/10.1093/advances/nmac055
  3. FASEB J. 2022 May;36 Suppl 1
      In cancer, oncogene dependency is a phenomenon where a dominant driver oncogene promotes tumor cell proliferation and survival, and loss of this oncogene results in tumor cell death and, eventually, tumor regression. KRAS, a GTPase that regulates cell growth and proliferation, is an oncogene constitutively activated in over 90% of pancreatic cancer. However, clinically effective inhibitors of KRAS have been unsuccessful so efforts have been focused on identifying other potential targets associated with the KRAS signaling network. Spleen tyrosine kinase (SYK), which is expressed at high levels in KRAS-dependent pancreatic cancer cell lines, may be one of these targets. Our data indicate that SYK activates the mechanistic target of rapamycin kinase complex 1 (mTORC1), which promotes protein translation and cell growth. SYK activation also leads to decreased autolysosome count. In connecting SYK activation with increased mTORC1 activity and decreased autolysosome count, we hypothesis that the MiT/TFE transcription factors are involved. We propose that SYK inhibition in pancreatic cancer cells leads to reduced mTORC1 activity, which reduces phosphorylation of MiT/TFE transcription factors. The unphosphorylated MiT/TFE transcription factors may then enter the nucleus to activate genes for lysosomal biogenesis and autophagy. Autophagy is a process that recycles cellular macromolecules during nutrient deprivation by fusing autophagosomes and lysosomes, produced from lysosomal biogenesis, to generate autolysosomes. From our experiments, we were able to show that SYK inhibition blocks mTORC1-dependent phosphorylation of MITF and TFEB transcription factors, members of the MiT/TFE family. MITF and TFEB activation leads to increased autophagy due to autolysosomal biogenesis and accumulation. In summary, our studies of the SYK-mTORC1-autophagy pathway provide support to investigate SYK as a candidate therapeutic target for pancreatic cancer treatment.
    DOI:  https://doi.org/10.1096/fasebj.2022.36.S1.R3011
  4. FASEB J. 2022 May;36 Suppl 1
      The conserved kinase mTOR (mechanistic target of rapamycin) regulates cell metabolism and promotes cell growth, proliferation, and survival in response to diverse environmental cues (e.g., nutrients; growth factors; hormones). mTOR forms the catalytic core of two multiprotein complexes, mTORC1 and mTORC2, which possess unique downstream targets and cellular functions. While mTORC1 and mTORC2 often respond to distinct upstream cues, they share a requirement for PI3K in their activation by growth factors. While many studies agree that amino acids activate mTORC1 but not mTORC2, several studies reported paradoxical activation of mTORC2 by amino acids. We noted that stimulating amino acid starved cells with a commercial mixture of amino acids increased mTORC2-dependent Akt S473 phosphorylation rapidly while re-feeding cells with complete DMEM containing amino acids failed to do so. Interestingly, we found the pH of the commercial amino acid mixture to be ~ pH 10. Upon controlling for pH, stimulating starved cells with amino acids at pH 10 but not 7.4 increased mTORC2 signaling. Moreover, DMEM at alkaline pH was sufficient to increase mTORC2 catalytic activity and signaling. Using a fluorescent pH-sensitive dye (cSNARF-1-AM) coupled to ratio-metric live cell imaging, we confirmed that alkaline extracellular pH (pHe) translated into a rapid increase in intracellular pH (pHi). Moreover, blunting this increase with a pharmacological inhibitor of an H+ transporter attenuated the increase in mTORC2 signaling by pHe. Alkaline pHi also activated AMPK, a canonical sensor of energetic stress that promotes mTORC2 signaling, as reported previously by us. Functionally, we found that alkaline pHi attenuated apoptosis caused by growth factor withdrawal through activation of AMPK-mTORC2 signaling. These results indicate that alkaline pHi augments mTORC2 signaling to promote cell survival, in part through AMPK. In the course of this work, we noted that pHi increased phosphorylation of several downstream targets of PI3K (e.g., Akt P-T308 and P-S473; S6K1 P-T389 and P-T229; PRAS40 P-T246; Tsc2 P-S939), suggesting that PI3K itself responds to changes in pHi. Indeed, alkaline pHi increased PI-3',4',5'-P3 levels in a manner sensitive to the PI3K inhibitor BYL-719. Thus, alkaline pHi elevates PI3K activity, which increases both mTORC1 and mTORC2 signaling. Mechanistically, we found that activation of PI3K by alkaline pHi induced dissociation of Tsc2 from lysosomal membranes, thereby relieving TSC-mediated suppression of Rheb, a mTORC1-activating GTPase. Functionally, we found that activation of PI3K by alkaline pHi increased mTORC1-mediated 4EBP1 phosphorylation, which initiates cap-dependent translation by eIF4E. Alkaline pHi also increased mTORC1-driven protein synthesis. Taken together, these findings reveal alkaline pHi as a previously unrecognized activator of PI3K-mTORC1/2 signaling that promotes protein synthesis and cell survival. As elevated pHi represents an under-appreciated hallmark of cancer cells, these findings suggest that by alkaline pHi sensing by the PI3K-mTOR axis and AMPK-mTORC2 axes may contribute to tumorigenesis.
    DOI:  https://doi.org/10.1096/fasebj.2022.36.S1.L7803
  5. Chem Biol Interact. 2022 May 09. pii: S0009-2797(22)00168-5. [Epub ahead of print] 109963
      4-Hydroxynonenal (4-HNE), the most toxic end-product of lipid peroxidation formed during oxidative stress, has been implicated in many diseases including neurodegenerative diseases, metabolic diseases, myocardial diseases, cancer and age-related diseases. 4-HNE can actively react with DNA, proteins and lipids, causing rapid cell death. The accumulation of 4-HNE leads to induction of autophagy, which clears damaged proteins and organelles. However, the underlying mechanism of 4-HNE-regulated autophagy is still not known. Transcriptional factor EB (TFEB) is a master regulator of lysosomal and autophagic functions, which we show here that TFEB is activated by 4-HNE. 4-HNE induces TFEB nuclear translocation and activated TFEB then upregulates the expression of genes required for autophagic and lysosomal biogenesis and function. Reactive oxygen species and Ca2+ are required in this process and TFEB activity is required for 4-HNE-mediated lysosomal function. Most importantly, genetic inhibition of TFEB (TFEB-KO) exacerbates 4-HNE-induced cell death, suggesting that TFEB is essential for cellular adaptive response to 4-HNE-induced cell damage. Hence, targeting TFEB to promote autophagic and lysosomal function may represent a promising approach to treat neurodegenerative and metabolic diseases in which 4-HNE accumulation has been implicated.
    Keywords:  4-Hydroxynonenal; Apoptosis; Lysosome; ROS; TFEB
    DOI:  https://doi.org/10.1016/j.cbi.2022.109963
  6. Cells. 2022 Apr 29. pii: 1492. [Epub ahead of print]11(9):
      Lysosomes are membrane-bound vesicles that play roles in the degradation and recycling of cellular waste and homeostasis maintenance within cells. False alterations of lysosomal functions can lead to broad detrimental effects and cause various diseases, including cancers. Cancer cells that are rapidly proliferative and invasive are highly dependent on effective lysosomal function. Malignant melanoma is the most lethal form of skin cancer, with high metastasis characteristics, drug resistance, and aggressiveness. It is critical to understand the role of lysosomes in melanoma pathogenesis in order to improve the outcomes of melanoma patients. In this mini-review, we compile our current knowledge of lysosomes' role in tumorigenesis, progression, therapy resistance, and the current treatment strategies related to lysosomes in melanoma.
    Keywords:  chemoresistance; lysosome biogenesis; melanoma therapy target
    DOI:  https://doi.org/10.3390/cells11091492
  7. Angiogenesis. 2022 May 11.
      The dynamic integrin-mediated adhesion of endothelial cells (ECs) to the surrounding ECM is fundamental for angiogenesis both in physiological and pathological conditions, such as embryonic development and cancer progression. The dynamics of EC-to-ECM adhesions relies on the regulation of the conformational activation and trafficking of integrins. Here, we reveal that oncogenic transcription factor EB (TFEB), a known regulator of lysosomal biogenesis and metabolism, also controls a transcriptional program that influences the turnover of ECM adhesions in ECs by regulating cholesterol metabolism. We show that TFEB favors ECM adhesion turnover by promoting the transcription of genes that drive the synthesis of cholesterol, which promotes the aggregation of caveolin-1, and the caveolin-dependent endocytosis of integrin β1. These findings suggest that TFEB might represent a novel target for the pharmacological control of pathological angiogenesis and bring new insights in the mechanism sustaining TFEB control of endocytosis.
    Keywords:  Cell adhesion; Cholesterol; Endothelial cells; Integrin; TFEB
    DOI:  https://doi.org/10.1007/s10456-022-09840-x
  8. FASEB J. 2022 May;36 Suppl 1
      Each organelle in a eukaryotic cell has a tightly regulated pH important for organelle function and cell growth. This distinct pH defines organelle identity and is maintained principally by vacuolar H+-ATPases (V-ATPases). V-ATPases are highly conserved, ATP driven proton pumps comprised of a cytosolic V1 domain, and an integral membrane bound Vo domain. The cytosolic N-terminal domain of the Vo a-subunit is known to modulate the organelle specific regulation and targeting of V-ATPases. However, the mechanisms for targeting V-ATPases to distinct membranes and achieving organelle-specific regulation are incompletely understood. Importantly, loss of function in V-ATPase a-subunit isoforms is associated with human diseases such as osteopetrosis, distal renal tubule acidosis, and cutis laxa type-II. Organelles also have characteristic phosphatidylinositol phosphate (PIP) lipids in the outer leaflet of their membranes. Previous studies have demonstrated that the N-terminal domain of yeast Vo a-subunit isoforms, Vph1NT and Stv1NT, interact with distinct PIP lipids in their resident organelle and can affect activity, regulation, and localization of V-ATPases containing these isoforms. We hypothesize that V-ATPases and PIP lipids interact with the NT domains of human Vo a-subunit isoforms, and these interactions regulate activity and targeting of V-ATPase, thereby impacting pH-dependent functions of the organelle. The Hua1 isoform resides in lysosomes of many cells and in synaptic vesicles of neurons, and the Hua2 isoform functions in Golgi and endosomes of multiple cell types. We have expressed the N-terminal domains of human Vo a-subunit isoforms Hua1NT and Hua2NT in E.coli, then purified and tested their specificity for different PIP lipids in a liposome pelleting assay. Hua1NT shows a preference for liposomes containing PI(3)P or PI(3,5)P2, lipids typically enriched in endosomes and lysosomes, while Hua2NT shows a preference for Golgi-enriched lipid PI4P. Modeling on existing structures has identified potential PIP binding sites in the HuaNT domains, which were mutagenized and tested for PIP lipid specificity. We have identified PIP-specific binding sites for both Hua1NT and Hua2NT. We will assess PIP-specific membrane recruitment of wild-type and mutant HuaNTs by monitoring their localization when transiently expressed in mammalian cells. Together, these data show that the association between V-ATPase subunit isoforms and PIPs is preserved in mammalian cells. Defining PIP binding codes on V-ATPase will improve our understanding of organelle specific pH control and could provide new avenues for controlling V-ATPase subpopulations.
    DOI:  https://doi.org/10.1096/fasebj.2022.36.S1.R4651
  9. Cells. 2022 Apr 26. pii: 1465. [Epub ahead of print]11(9):
      Two-pore channels (TPCs) are ligand-gated cation-selective ion channels that are preserved in plant and animal cells. In the latter, TPCs are located in membranes of acidic organelles, such as endosomes, lysosomes, and endolysosomes. Here, we focus on the function of these unique ion channels in mast cells, which are leukocytes that mature from myeloid hematopoietic stem cells. The cytoplasm of these innate immune cells contains a large number of granules that comprise messenger substances, such as histamine and heparin. Mast cells, along with basophil granulocytes, play an essential role in anaphylaxis and allergic reactions by releasing inflammatory mediators. Signaling in mast cells is mainly regulated via the release of Ca2+ from the endoplasmic reticulum as well as from acidic compartments, such as endolysosomes. For the crosstalk of these organelles TPCs seem essential. Allergic reactions and anaphylaxis were previously shown to be associated with the endolysosomal two-pore channel TPC1. The release of histamine, controlled by intracellular Ca2+ signals, was increased upon genetic or pharmacologic TPC1 inhibition. Conversely, stimulation of TPC channel activity by one of its endogenous ligands, namely nicotinic adenine dinucleotide phosphate (NAADP) or phosphatidylinositol 3,5-bisphosphate (PI(3,5)P2), were found to trigger the release of Ca2+ from the endolysosomes; thereby improving the effect of TPC1 on regulated mast cell degranulation. In this review we discuss the importance of TPC1 for regulating Ca2+ homeostasis in mast cells and the overall potential of TPC1 as a pharmacological target in anti-inflammatory therapy.
    Keywords:  Ca2+; TPC; TPC1; anaphylaxis; calcium; endolysosome; endosome; histamine; immune cell; lysosome; mast cell; two-pore channel
    DOI:  https://doi.org/10.3390/cells11091465
  10. Nano Lett. 2022 May 12.
      Lysosome-targeting self-assembling prodrugs had emerged as an attractive approach to overcome the acquisition of resistance to chemotherapeutics by inhibiting lysosomal sequestration. Taking advantage of lysosomal acidification induced intracellular hydrolytic condensation, we developed a lysosomal-targeting self-condensation prodrug-nanoplatform (LTSPN) system for overcoming lysosome-mediated drug resistance. Briefly, the designed hydroxycamptothecine (HCPT)-silane conjugates self-assembled into silane-based nanoparticles, which were taken up into lysosomes by tumor cells. Subsequently, the integrity of the lysosomal membrane was destructed because of the acid-triggered release of alcohol, wherein the nanoparticles self-condensed into silicon particles outside the lysosome through intracellular hydrolytic condensation. Significantly, the LTSPN system reduced the half-maximal inhibitory concentration (IC50) of HCPT by approximately 4 times. Furthermore, the LTSPN system realized improved control of large established tumors and reduced regrowth of residual tumors in several drug-resistant tumor models. Our findings suggested that target destructing the integrity of the lysosomal membrane may improve the therapeutic effects of chemotherapeutics, providing a potent treatment strategy for malignancies.
    Keywords:  Bladder cancer; Drug resistance; Prodrug; Self-assembly; Self-condensation
    DOI:  https://doi.org/10.1021/acs.nanolett.2c00540
  11. Cell Calcium. 2022 May 05. pii: S0143-4160(22)00068-9. [Epub ahead of print]104 102594
      Intracellular Ca2+ signaling via changes or oscillation in cytosolic Ca2+ concentration controls almost every aspect of cellular function and physiological processes, such as gene transcription, cell motility and proliferation, muscle contraction, and learning and memory. Two-pore channels (TPCs) are a class of eukaryotic cation channels involved in intracellular Ca2+ signaling, likely present in a multitude of organisms from unicellular organisms to mammals. Accumulated evidence indicates that TPCs play a critical role in Ca2+ mobilization from intracellular stores mediated by the second messenger molecule, nicotinic acid adenine dinucleotide phosphate (NAADP). In recent years, significant progress has been made regarding our understanding of the structures and function of TPCs, including Cryo-EM structure determination of mammalian TPCs and characterization of a plastid TPC in a single-celled parasite.. The recent identification of Lsm12 and JPT2 as NAADP-binding proteins provides a new molecular basis for understanding NAADP-evoked Ca2+ signaling. In this review, we summarize basic structural and functional aspects of TPCs and highlight the most recent studies on the newly discovered TPC in a parasitic protozoan and the NAADP-binding proteins LSM12 and JPT2 as new key players in NAADP signaling.
    Keywords:  Calcium mobilization; Endolysosome; JPT2; Lsm12; Lysosome; NAADP; Two-pore channels
    DOI:  https://doi.org/10.1016/j.ceca.2022.102594
  12. Acta Pharm Sin B. 2022 Mar;12(3): 1460-1472
      Transporters are traditionally considered to transport small molecules rather than large-sized nanoparticles due to their small pores. In this study, we demonstrate that the upregulated intestinal transporter (PCFT), which reaches a maximum of 12.3-fold expression in the intestinal epithelial cells of diabetic rats, mediates the uptake of the folic acid-grafted nanoparticles (FNP). Specifically, the upregulated PCFT could exert its function to mediate the endocytosis of FNP and efficiently stimulate the traverse of FNP across enterocytes by the lysosome-evading pathway, Golgi-targeting pathway and basolateral exocytosis, featuring a high oral insulin bioavailability of 14.4% in the diabetic rats. Conversely, in cells with relatively low PCFT expression, the positive surface charge contributes to the cellular uptake of FNP, and FNP are mainly degraded in the lysosomes. Overall, we emphasize that the upregulated intestinal transporters could direct the uptake of ligand-modified nanoparticles by mediating the endocytosis and intracellular trafficking of ligand-modified nanoparticles via the transporter-mediated pathway. This study may also theoretically provide insightful guidelines for the rational design of transporter-targeted nanoparticles to achieve efficient drug delivery in diverse diseases.
    Keywords:  Diabetes; Endocytosis; Expression level; Intracellular trafficking; Ligand-modified nanoparticles; Oral insulin delivery; Proton-coupled folate transporter; Transporter
    DOI:  https://doi.org/10.1016/j.apsb.2021.07.024
  13. J Control Release. 2022 May 10. pii: S0168-3659(22)00261-9. [Epub ahead of print]347 164-174
      Metabolic glycan labeling provides a facile yet powerful tool to install chemical tags to the cell membrane via metabolic glycoengineering processes of unnatural sugars. These cell-surface chemical tags can then mediate targeted conjugation of therapeutic agents via efficient chemistries, which has been extensively explored for cancer-targeted treatment. However, the commonly used in vivo chemistries such as azide-cyclooctyne and tetrazine-cyclooctene chemistries only allow for one-time use of cell-surface chemical tags, posing a challenge for long-term, continuous cell targeting. Here we show that cell-surface ketone groups can be recycled back to the cell membrane after covalent conjugation with hydrazide-bearing molecules, enabling repetitive targeting of hydrazide-bearing agents. Upon conjugation to ketone-labeled cancer cells via a pH-responsive hydrazone linkage, Alexa Fluor 488-hydrazide became internalized and entered endosomes/lysosomes where ketone-sugars can be released and recycled. The recycled ketone groups could then mediate targeted conjugation of Alexa Fluor 647-hydrazide. We also showed that doxorubicin-hydrazide can be targeted to ketone-labeled cancer cells for enhanced cancer cell killing. This study validates the recyclability of cell-surface chemical tags for repetitive targeting of cancer cells with the use of a reversible chemistry, which will greatly facilitate future development of potent cancer-targeted therapies based on metabolic glycan labeling.
    Keywords:  Cell targeting; Chemotherapy; Click chemistry; Metabolic glycan labeling; cancer
    DOI:  https://doi.org/10.1016/j.jconrel.2022.05.007
  14. Cancer Lett. 2022 May 05. pii: S0304-3835(22)00202-6. [Epub ahead of print]539 215718
      Pancreatic ductal adenocarcinoma (PDAC) is characterized by a highly desmoplastic tumor microenvironment (TME) consisting of abundant activated pancreatic stellate cells (PSCs). PSCs play a key role in the refractory responses of PDAC to immunotherapy and chemotherapy and deactivating PSCs into quiescence through vitamin D receptor (VDR) signaling activation is a promising strategy for PDAC treatment. We observed p62 loss in PSCs hindered the deactivation efficacy of VDR ligands, and hypothesized that reversing p62 levels by inhibiting autophagy processing, which is responsible for p62 loss, could sensitize PSCs toward VDR ligands. Herein, we constructed a PSC deactivator with dual functions of VDR activation and autophagy inhibition, utilizing a pH-buffering micelle (LBM) with an inherent ability to block autophagic flux to encapsulate calcipotriol (Cal), a VDR ligand. This Cal-loaded LBM (C-LBM) could efficiently reprogram PSCs, modulate the fibrotic TME, and alter immunosuppression. In combination with PD-1 antagonists and chemotherapy, C-LBM showed superior antitumor efficacy and significantly prolonged the survival of PDAC mice. These findings suggest that synergistic autophagy blockade and VDR signaling activation are promising therapeutic approaches to reprogram PSCs and improve the PDAC response to immunotherapy.
    Keywords:  Lysosomal pH buffering; Pancreatic cancer; Polymeric micelle; Tumor microenvironment; Vitamin D receptor
    DOI:  https://doi.org/10.1016/j.canlet.2022.215718
  15. FASEB J. 2022 May;36 Suppl 1
      The autophagosome is a double-membrane organelle that traps cytoplasmic cargo and traffics it to the lysosome for degradation. How the autophagosome forms is uncertain, but a prevailing model suggests lipids are moved from the ER through the lipid transporter ATG2 to ATG9 vesicles, which then expand to comprise the growing autophagosomal membrane. However, evidence that ATG9 is ever resident within the autophagosome is scant; detection of this putative autophagosome-resident protein is made challenging both because most ATG9 vesicles in the cell are not involved in the biogenesis at any given time and because the dilution of one or a few vesicle membranes by potentially millions of transported lipids would result in a very low density of ATG9 on the mature autophagosome. Here we develop approaches to address each of these limitations. First, we show that in genetic knockouts of ATG2, ATG9 vesicles accumulate to very high numbers at sites of aborted autophagosome formation. Focused-ion beam scanning electron microscopy reveals that without ATG2, these putative autophagosome seed vesicles do not expand, but instead accumulate within a large vesicle cluster surrounded by ER. By fluorescence microscopy, we also detect downstream modifiers of the autophagosome membrane at these sites, including the lipid-anchored form of the LC3 proteins, which suggests that a biochemically competent seed membrane is present. To establish whether ATG9A is found on the same membrane as LC3B, we use styrene maleic acid (SMA) copolymer nanodiscs, to isolate very small intact sections of autophagosome membrane away from all other potential contaminants. Through rigorous combinations of isolation and purification, we reveal that ATG9A and LC3B are co-resident within the same 10 nm diameter membrane segment and likely engage in a protein-protein complex. We then apply the same SMA-based approach to show that even in wildtype autophagosomes, ATG9 and LC3 are co-resident. Thus, we assert that ATG9 vesicles are the seed membrane for the autophagosome.
    DOI:  https://doi.org/10.1096/fasebj.2022.36.S1.0R457