BMB Reports 2021; 54(4): 227-232  https://doi.org/10.5483/BMBRep.2021.54.4.037
Mitochondrial dysfunction induced by callyspongiolide promotes autophagy-dependent cell death
Soohyun Lee1,2 , Yoonjeong Jeong1 , Jae-Seok Roe2, Hoyoung Huh1, Sang Hoon Paik1,* & Jaewhan Song1,2,*
1pH Pharma Co., Ltd., Seongnam 13494, 2Department of Biochemistry, College of Life Science and Biotechnology, Yonsei University, Seoul 03722, Korea
Correspondence to: Jaewhan Song, Tel: +82-31-779-5302; Fax: +82-31-779-5329; E-mail: jso678@yonsei.ac.kr; Sang Hoon Paik, Tel: +82-31-779-5302; Fax: +82-31-779-5329; E-mail: sanghoon.paik@ph-pharma.com
Received: March 5, 2021; Revised: March 17, 2021; Accepted: April 1, 2021; Published online: April 30, 2021.
© Korean Society for Biochemistry and Molecular Biology. All rights reserved.

cc This is an open-access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
Abstract
Callyspongiolide is a marine macrolide known to induce caspaseindependent cancer cell death. While its toxic effects have been known, the mechanism leading to cell death is yet to be identified. We report that Callyspongiolide R form at C-21 (cally2R) causes mitochondrial dysfunction by inhibiting mitochondrial complex I or II, leading to a disruption of mitochondrial membrane potential and a deprivation of cellular energy. Subsequently, we observed, using electron microscopy, a drastic formation of autophagosome and mitophagy. Supporting these data, LC3, an autophagosome marker, was shown to co-localize with LAMP2, a lysosomal protein, showing autolysosome formation. RNA sequencing results indicated the induction of hypoxia and blocking of EGF-dependent pathways, which could be caused by induction of autophagy. Furthermore, mTOR and AKT pathways preventing autophagy were repressed while AMPK was upregulated, supporting autophagosome progress. Finally, the combination of cally2R with known anti-cancer drugs, such as gefitinib, sorafenib, and rapamycin, led to synergistic cell death, implicating potential therapeutic applications of callyspongiolide for future treatments.
Keywords: Autophagy, Callyspongiolide, Metabolism, Mitochondria, Mitophagy
INTRODUCTION

Autophagy is an essential biological process for the degradation and elimination of damaged proteins and cellular components. It plays a significant role in maintaining cellular homeostasis under conditions of starvation, low ATP levels, hypoxia, and endoplasmic reticulum stress (1-3). In cancer biology, autophagy could play dual roles in the process of tumor suppression and promotion. Autophagy-regulated chemotherapy can be involved in either cancer cell survival or death. However, in tumors, excessive autophagy can result in apoptosis and cell death, consequentially leading to death of drug-resistant tumor cells (4, 5). Cancer metabolism usually refers to the alterations in cellular metabolism pathways, which includes changes in aerobic glycolysis, oxidative phosphorylation and the generation of biosynthetic intermediates needed for cell growth and proliferation (6, 7). Numerous fuel sources for the synthesis of macromolecules could be achieved via aerobic glycolysis. Also, mitochondrial metabolism has been demonstrated to be critical for ATP production, a redox balance, and the biosynthesis of other key metabolites in various tumor types. However, under energy-deprived conditions, cancer cells can activate the autophagy pathway with the suppression of mTOR signals to prohibit cell growth (8). In addition, AMP-regulated kinase (AMPK) promotes autophagy through phosphorylation of ULK kinases, which is required for cell survival during starvation (9, 10). AMPK signaling activated during low energy conditions is also involved in direct inhibition of multiple targets, including mTORC1, to restore energy homeostasis (9). AMPK activation in response to electron transport chain dysfunction results in mitochondrial fragmentation through direct phosphorylation of mitochondrial fission factor, an OMM receptor for Drp1 (11). Finally, sustained energy deprivation can result in AMPK-mediated upregulation of mitochondrial biogenesis.

Many macrolides show potent anti-proliferative properties against cancer cells, making them promising leads to develop new chemotherapeutics agents. One of the macrolides, callyspongiolide, is a marine-derived macrolide natural product that displays caspase-independent cytotoxic activity (12). This implies a non-apoptotic mechanism for cell death (13, 14). Because apoptotic signaling is suppressed in many cancers, often underpinning drug resistance in clinical settings, compounds that kill cancer cells by non-apoptotic mechanisms are valuable to explore as plausible therapeutic tools (14, 15).

In this paper, we focused on the induction of cell death induced by R form of callyspongiolide (cally2R), one of the two callyspongiolide isoforms (R and S forms at C-21). Cally2R causes cellular energy deprivation by inducing mitochondrial dysfunction, resulting in autophagy-dependent cell death. Combinational treatment of known drugs with cally2R displayed potent effects on cell death, promising possible therapeutic application in the future. We conclude that cally2R could be an effective anti-cancer drug for breast cancer.

RESULTS

The R form of callyspongiolide shows anti-cancer activities in various cancer cell lines at a nanomolar range

To investigate the pharmacological potential of callyspongiolide, the toxicity of callyspongiolide isoforms at C-21 (Fig. 1A) was tested on various cancer cells over 72 hours at a range of concentrations (0.1-10,000 nM). The results showed that cally2R had higher potency than the S form and induced cell death at nanomolar ranges (Fig. 1B). The half-maximal inhibi-tory concentrations (IC50) of cally2R on SKOV3, N87, SKBR3, HT29, BT474, HPAFII, SW480, MCF7, HCT116, A549, HepG2, and 786-O were 10.3 nM, 15.9 nM, 25.3 nM, 5.7 nM, 21.5 nM, 7.1 nM, 16.4 nM, 11.1 nM, 9.6 nM, 5.3 nM, 7.3 nM and 10.0 nM, respectively (Fig. 1B). Z-vad-fmk (pancaspase inhibitor), GSK963 (RIPK1 inhibitor; Necroptosis inhibitor), or Ferrostatin-1 (Ferroptosis inhibitor) were treated on cells in the presence of cally2R to elucidate how cally2R induces cell death. All the tested inhibitors failed to suppress cell death induced by cally2R. This indicates that cally2R generates cell death independent of caspase, necroptosis and ferroptosis (Fig. 1C). The results suggest that cally2R induces specific toxicity on cancer cells independent of apoptosis, necroptosis, or ferroptosis.

Cally2R triggers the formation of autolysosomes in breast cancer cells

Among various cell lines tested, we focused on breast cancer to assess the mechanism of cally2R. First, to identify the type of cell death induced by cally2R on breast cancer cell lines, the morphologies of SKBR3 and MDA-MB-453 treated with cally2R were visualized using a transmission electron microscope (TEM). Consistent with the observations that cally2R acts on cell death pathway independent of apoptosis or necrosis, no distinguishing feature of cell death types such as cell shrinkage, blebbing, or plasma membrane rupture with swelling were observed. Interestingly, vast numbers of autophagic vacuoles appeared under cally2R treatment (Fig. 2A). We observed the appearance of autophagosomes, which are early autophagic vacuoles (red arrows), and autolysosomes, which are late autophagic vacuoles (blue arrows), in cells treated with cally2R. Also, the process of mitophagy was observed, indicated by yellow arrows (Fig. 2A). As a control, cells treated with metformin, which is known to induce autophagy, were compared with cells treated with cally2R (16). Only limited numbers of small-sized autophagosomes were observed using metformin as previously reported (16). This suggests that cally2R has more potent autophagic inducing effects on cancer cells than metformin (Fig. 2A). The effects of cally2R on the formation of autophagosome were further analyzed in SKBR3 and HT29 cells. Both cell lines displayed (I) formation of a cup-shaped membrane structure enclosing a portion of the cytoplasm, (II) visible mature autophagic bodies, and (III) autophagic bodies in the final stage with most cytoplasmic materials degraded (Fig. 2B). The colocalization of LC3 (green), an autophagosome marker, and LAMP2 (red), a lysosome marker, further confirms the effects of cally2R on the induction of autolysosome (Fig. 2C). In addition, we showed with western blots that there was the conversion of LC3 from LC-1 to LC3-II under cally2R treatment. This indicates an increase of autophagosome formation in breast cancer cells in a time-dependent manner. Of note, the levels of p62, which is incorporated into complete autophagosomes and is degraded by lysosomes (17), was maintained with cally2R treatment (Fig. 2C). This might be due to cancer cells going through the production of continuous autophagosomes without disruption of these processes under cally2R treatment. In addition to the changes of direct autophagic factors, we observed the hallmarks of autophagic processes with decreased p-mTOR and p-4E-BP and increased protein levels of p-AMPK under cally2R treatment (Fig. 2D). Moreover, proteins related to mitophagy, such as BNIP3, NDP52, and PINK, increased with cally2R treatment, and the results are corresponding to the TEM data shown above (Fig. 2A, D). These results demonstrate that cally2R can induce autophagosome accumulation and autophagosome-lysosome fusion. In addition, the signaling pathways stimulating autophagosome and mitophagy were activated, while the opposing pathways were downregulated in breast cancer cells.

Cally2R induces mitochondrial dysfunction causing energy deprivation and cell cycle arrest

What would be the cause of vast autolysosome appearances under cally2R treatment? Since we observed significant amounts of mitochondria taken up by autophagosomes, the mitochondrial functional integrity was further examined. First, the mitochondrial membrane potential was tested using Tetramethylrhodamine ester perchlorate (TMRE). The mitochondrial membrane potential was reduced by 20% and 53% in SKBR3 and 2% and 26% in MDA-MB-453 cells when treated with Cally2R for 24 and 48 h, respectively (Fig. 3A). Since the mitochondrial membrane potential is disrupted under cally2R treatment, we subsequently tested oxygen consumption rates (OCR) under similar conditions.

The results showed that all respiratory parameters, including basal respiration, spare respiratory capacity, proton leak, and ATP production were significantly reduced in SKBR3 cells when treated with cally2R or metformin (control). Similarly, there was a reduction in the spare respiratory capacity, basal respiration, and ATP production in MDA-MB-453 cells but not in proton leak. (Fig. 3B). It is known that the reduction in mitochondrial activity has an effect on cell cycle efficiency in cancer cells (18). Therefore, we analyzed the cell cycle in SKBR3 and MDA-MB-453 cells. The data showed that cally2R treatment induces cell cycle arrest in the G0/G1 phase (Fig. 3C), suggesting that cally2R-induced ATP depletion affects cell cycle arrest in breast cancer cells. Next, western blots were performed to analyze mitochondrial complexes in breast cancer cells after cally2R treatment. Protein levels of mitochondrial complexes I and II were decreased in a time-dependent manner with cally2R treatment, suggesting toxic effects of cally2R on reducing NADH and FADH2 (19). There were no significant changes to the levels of complexes III, IV, and V when treated with cally2R (Fig. 3D). We further tested whether cally2R could induce hypoxia, because studies have shown that mitochondrial dysfunction and ATP deprivation induces hypoxia (20). As expected, Hypoxia Inducible Factor 1 Subunit Alpha (HIF1A) was increased within 10 min of cally2R treatment, suggesting that cally2R could induce hypoxia in breast cancer cells. Lastly, the RNA sequencing analysis showed that cally2R treatment in SKBR3 cells could induce hypoxia-related genes and hif1 target genes, but reduce cell cycle associated genes (Fig. 3F). Following mTOR data shown in Fig. 2C, genes associated with EGFR signaling pathways were also downregulated (Fig. 3F). Overall, the data suggests that cally2R could induce mitochondrial dysfunction with energy deprivation, resulting in the induction of hypoxia pathway with the suppression of cell growth signaling, including cell cycle and EGFR pathways.

Combined treatment of cally2R with growth inhibitors led to synergistic induction of cell death in breast cancer cells

Chemicals affecting cancer cell metabolism can have more destructive effects on cell death when co-treated with cell growth inhibitors (3, 21). Therefore, we tested whether cally2R could induce more deleterious results when combined with cell growth inhibitors such as gefitinib, sorafenib, or rapamycin. There was a significant increase in cell death when cally2R was treated in combination with sorafenib, gefitinib, or rapamycin in SKBR3 and MDA-MB-453 cells (Fig. 4A, B). Metformin and phenformin were used to compare the combined effect with cally2R. The combination treatment of cally2R with growth inhibitors was much effective than the combination treatment with metformin or phenformin (Fig. 1A). Since cally2R could induce a drastic formation of autophagosomes and autolysosomes, we further tested whether serum deprivation could accelerate cell death. As expected, there was a significant cell death increase in serum-starved SKBR3 and MDA-MB-453 cells with treatment of cally2R (Fig. 4C). Metformin, a positive control, showed similar effects. Overall, these data suggest that cally2R could have therapeutic potential particularly when applied with known anti-cancer drugs.

DISCUSSION

The effects of cally2R on cancer cells are very peculiar in that it induces large numbers of autophagosomes without the dissolution of these vacuoles. Under normal starved conditions, it is known that the autophagic vacuoles, once energy homeostasis is achieved, are dissolved possibly via mTOR activation. Under cally2R treatment, there was continuous repression of mTOR pathway with activation of signaling pathways including AMPK, mitophagy, and autophagy, which might inhibit autophagic vacuoles eventual disappearances. The TEM data clearly showed the morphology of early autophagosomes, mitophagic vacuoles, and late autolysosomes, which was also detected with colocalization of LC3 and LAMP2. We speculate that the eruption of these vacuoles is due to the dysfunction of mitochondria under the presence of cally2R. It seems that cally2R could have a negative effect on complex I and II because there was a decrease of the components of these complexes under cally2R treatment. This could lead to disruption of mitochondrial membrane potential and energy deprivation which could instantly cause energy deprivation. These processes seem to initiate AMPK activation, HIF1A stabilization and BNIP3 induction, all of which could be involved in the induction of autophagy as well as mitophagy. Under these conditions, mTOR pathways are completely blocked leading to cell cycle and growth arrest. Eventually, without recuperation of mitochondria, cellular homeostasis’ irreversible disruption would occur, leading to cell death (Fig. 4D). It did not escape our notice that cally2R might affect ATP synthase as it is known that cally2R could suppress vacuolar ATPase of yeast, which have somewhat similar complex structures of ATP synthase of mitochondria (22, 23). Of note, there could be promising therapeutic effects of cally2R in the future. First of all, the IC50 range for cally2R is approximately a few nM depending on the cancer cell types, which might enable its application for antibody-drug conjugates. Secondly, this compound’s combinational treatment could multiply the effects of other drugs, especially inducing cell growth arrest and death. Further experiments to identify analogs of cally2R with more potent therapeutic effects are needed in future studies.

MATERIALS AND METHODS

Reagents

pH Pharma acquired an exclusive license from Purdue Research Foundation and synthesized Callyspongiolide at Chem-veda. The primary antibodies of mTOR, p-mTOR s2448, AMPK, p-AMPK, AKT, p-AKT, p-4E-BP t37/46, p-4E-BP t70, 4E-BP, BNIP3, NDP52, parkin, HIF1A, and GAPDH were purchased from Cell Signaling Technology. The primary antibodies of p62 were purchased from BD Biosciences, LC3 from Medical & Biological Laboratories, OXPHOS cocktail, and LAMP2 from Abcam, and β-actin from Santa Cruz Biotechnology.

Cell culture

SKBR3, MDA-MB-453, HT29, MCF7, HCT116, N87, and BT474 cells were purchased from the Korean Cell Line Bank. All cells were grown in RPMI 1640 medium (HyClone) containing 10% fetal bovine serum (HyClone), penicillin, and streptomycin (HyClone). Cells were incubated at 37°C and maintained at 5% CO2.

TEM

Cells were treated with Cally2R for the indicated time. Cells were then fixed with 2.5% glutaraldehyde (Sigma) in 0.1 M phosphate (pH 7.4). The samples were placed on grids and subsequently captured results using a LIBRA 120 EF-TEM (Carl Zeiss) with the help from SNU to prepare the samples for TEM imaging at the SNU microscopy facility.

Cell Titer-Glo (CTG) assay

Cells were incubated with callys2R and indicated inhibitors for indicated times. After incubation, treated cells were imaged by a microscope and analyzed by CTG Luminescent Cell Viability Assay (Promega) according to the manufacturer’s instructions. % Cell death was determined by following calculation: %Cell death = (1 − ATP sample/ATP control) × 100.

Immunocytochemistry

Cells were seeded on glass coverslips and were treated with Cally2R for the indicated time. Cells were fixed with 4% paraformaldehyde (Sigma) for 20 min at RT and then per-meabilized with 0.1% Triton-X 100 (Sigma) for 20 min at 4°C. After blocking with 3% BSA in PBS, cells were stained overnight at 4°C with LC3 and LAMP2 antibody, followed by Alexa Fluor 555-conjugated anti-mouse and Alexa Fluor 488-conjugated anti-rabbit (Invitrogen) secondary antibodies diluted in 3% BSA/PBS for 1 h at RT in the dark. Cells were then mounted with 4’,6-diamidino-2-phenylindole (DAPI) mounting medium (VECTASHIELD) to visualize nuclei. Samples were examined under Olympus confocal microscope.

Western blot analysis

Cells were treated with Callys2R or indicated inhibitors for the indicated time. Harvested cells were lysed with RIPA buffer in the presence of protease and phosphatase inhibitor cocktail (Biorad). The protein concentration of the cell lysates was quantified by a BCA Protein Assay Kit (Invitrogen). The same amount of protein samples was loaded onto 4-15% SDS-PAGE and transferred onto PVDF membranes. After blocking by 5% BSA in TBST, the membranes were incubated in the primary antibodies diluted in 5% BSA buffer overnight at 4°C and then in the HRP-conjugated secondary antibody (Invitrogen) for 1 h at RT. The protein band images were captured with an ECL reagent (Biorad).

Cell cycle assay

Cells were treated with indicated inhibitors for indicated time. Cells were fixed with 70% ethanol by adding drop by drop to the cell pellet and kept at 4°C overnight. Cells were washed and resuspended with 0.5 ml of FxCycleTM PI/RNAse Solution (Invitrogen), incubated for 30 min, and analyzed by flow cytometry.

OCR analysis

XF Cell Mito Stress kit (Seahorse Bioscience) was used to determine OCR, and the experiment was done according to the manufacturer’s instructions. Cells were seeded in XFe24 cell culture microplate and treated with cally2R or metformin (Sigma) for 48 h at 37°C. Cells were incubated in an XF base medium supplemented with 10 mM glucose and 2 mM L-glutamine and equilibrated in a non-CO2 incubator for 1 h before starting the assay. The samples were mixed (3 min) and measured (3 min) using XFe24 extracellular flux analyzer. 2.5 μM Oligomycin, 1 μM FCCP, and 0.5 μM Rotenone/Antimycin A were injected at the indicated time points. The experiment was normalized by SRB assay.

Measurement of mitochondrial membrane potential

TMRE-Mitochondrial Membrane Potential Assay Kit (Abcam) was used to measure mitochondrial membrane potential, and the experiment was done according to the manufacturer’s in-structions. Cells were treated with indicated inhibitors for the indicated time. 200 nM TMRE was added to the culture medium and incubated for 30 min at 37°C. Cells were harvested, resuspended with 0.5 ml PBS and were analyzed by flow cytometry.

Sulforhodamine B (SRB) assay

Cells were fixed by adding 33% TCA and kept for 1 h at 4°C. After washing with tap water, 0.4% SRB (Sigma) solution in 1% acetic acid (Sigma) was added to each well, and the plates were kept for 5 min at RT. After staining, the plates were washed with 1% acetic acid and air-dried. The bound stain was solubilized with 1% Trizma buffer (Sigma), and the absorbance of the dye in solution is measured at OD 515 nm.

Statistical analysis

Statistical analysis was performed in Microsoft Excel using the Student’s t-test with a P value of < 0.05 as the basis for rejection of the null hypothesis.

ACKNOWLEDGEMENTS

The authors are grateful for the use of Seoul National University’s imaging facility and we thank the technicians for technical support. We are grateful to Drs. Sammy C.S. Lee and Myeong Jin Yoon for their help with critical reading and improving the manuscript.

CONFLICTS OF INTEREST

The authors have no conflicting interests.

Figures
Fig. 1. Various cancer cell lines undergo cell death under the treatment of cally2R. (A) A structure of callyspongiolide R and S form at C-21. (B) IC50 of cally2R after 72 h of cally2R treatment in various cell lines (n = 3). (C) CTG assay in SKBR3 cells were treated of cally2R, ferrostatin-1, z-VAD-fmk or GSK963 for 48 h (n = 3). Each bar represents the mean + s.d. n.s. no significance; *P < 0.05, **P < 0.01, ***P < 0.001 compared to the cally2R-treated group.
Fig. 2. Cally2R treatment induces autolysosome fusion with suppression of the mTOR/AKT pathway and activation of AMPK. (A) The typical TEM images of autophagic vacuoles in SKBR3 and MDA-MB-453 cells after treatment of 3 mM metformin or 100 nM cally2R. Scale bar = 2 μm. (B) TEM images of the three stages of autophagic vacuoles in colon (HT29) and breast (SKBR3) cancer cells after cally2R treatment for 24 h. Stage (I): A cup-shaped membrane structure enclosing a portion of cytoplasm. Stage (II): Visible autophagic bodies in the vacuole. Stage (III): Autophagic bodies in the vacuole, showing degradation of the segregated cytoplasm. Scale bar = 2 μm. (C) Immunocytochemistry analysis by staining with anti-LC3 antibody (green) and anti-LAMP2 antibody (red) shows the formation of autolysosomes (merged as yellow) after cally2R treatment in SKBR3 cells. Nuclei were counterstained with DAPI (blue). Scale bar = 20 μm. (D) Immunoblotting showing protein levels of mTOR pathway and mitophagy after cally2R treatment. C, cytosol; M, mitochondria; N, nucleus; yellow arrow, mitochondria in autophagosome; red arrow, autophagosomes; blue arrow, autolysosomes.
Fig. 3. Cally2R induces mitochondrial dysfunction causing energy deprivation and cell cycle arrest. (A) TMRE assay showing that cally2R reduces membrane potential in SKBR3 and MDA-MB-453 cells (n = 3). 20 μM FCCP was used as a positive control. (B) Cell cycle analysis showing that cally2R induces G0/G1 phase arrest in 24 h at 100 nM (n = 3). 1 μM doxorubicin was used as a positive control. (C) Mito stress test shows that cally2R reduces OCR and respiration parameters in SKBR3 and MDA-MB-453 cells in 24 h (n = 3). Immunoblotting showing protein levels of (D) mitochondrial complexes in SKBR3 and MDA-MB-453 cells and (E) HIF1A in SKBR3 cells after 3 mM metformin or 100 nM cally2R treatment. (F) Gene set enrichment analysis (GSEA) of RNA sequencing after 100 nM cally2R treatment in SKBR3 cells. GSEA analysis showed that Hypoxia and Hif1 target genes are upregulated, and cell cycle, EGFR signaling are downregulated after cally2R treatment. Each bar represents the mean + s.d. n.s., no significance; *P < 0.05, **P < 0.01, ***P < 0.001.
Fig. 4. Combined treatment of cally2R with growth inhibitors led to synergistic induction of cell death. (A) CTG assay showing the synergistic effect of cally2R and growth inhibitors, 20 μM sorafenib, 20 μM gefitinib, or 20 μM rapamycin, on cell death in SKBR3 and MDA-MB-453 cells after 48 h (n = 3). (B) SKBR3 cells were treated with cally2R combined with sorafenib, gefitinib, or rapamycin for 48 h, the cells were imaged through a microscope. Scale bar = 20 μm. (C) CTG assay showing the synergistic effect of cally2R and serum starvation on cell death in SKBR3 and MDA-MB-453 cells after 48 h (n = 3). (D) A proposed model for the mechanism of cally2R underlying inhibition of mitochondria and mTOR pathway in breast cancer. Each bar represents the mean + s.d. n.s., no significance; *P < 0.05, **P < 0.01, ***P < 0.001.
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