The tumor-suppressor cylindromatosis (CYLD) is a deubiquitinating enzyme and key regulator of cell proliferation and inflammation. A genome-wide siRNA screen linked CYLD to receptor interacting protein-1 (RIP1) kinase-mediated necroptosis; however, the exact mechanisms of CYLD-mediated cell death remain unknown. Therefore, we investigated the precise role of CYLD in models of neuronal cell death in vitro and evaluated whether CYLD deletion affects brain injury in vivo. In vitro, downregulation of CYLD increased RIP1 ubiquitination, prevented RIP1/RIP3 complex formation, and protected neuronal cells from oxidative death. Similar protective effects were achieved by siRNA silencing of RIP1 or RIP3 or by pharmacological inhibition of RIP1 with necrostatin-1. In vivo, CYLD knockout mice were protected from trauma-induced brain damage compared to wild-type littermate controls. These findings unravel the mechanisms of CYLD-mediated cell death signaling in damaged neurons in vitro and suggest a cell death-mediating role of CYLD in vivo.
Necroptosis is a form of programmed cell death induced by the activation of death receptors such as tumor necrosis factor receptor (TNFR) or Fas and terminated through activation of receptor-interacting kinase protein-1 (RIP1), receptor-interacting kinase-3 (RIP3), and mixed lineage kinase domain-like protein (MLKL) and without the involvement of executor caspases . Downstream of death receptor stimulation, the RIP homotypic interaction motif domains RIP1 and RIP3 forms RIP1–RIP3 necrosome complex [2, 3]. Activated RIP3 phosphorylates MLKL to self oligomerise and to execute necrosis . However, recent observations identified alternative modes of RIP3/MLKL activation independent of RIP1 [5, 6]. Inhibition of RIP1 kinase by necrostatin-1, prevents the formation of the detrimental RIP1/RIP3 complex and necroptosis in different cell types, including neurons [7, 8]. Additional components of the necrosome may include Fas-associated protein with death domain, tumor necrosis factor receptor associated death domain (TRADD), and caspase-8 . Whether all of these components are essential for programmed necrosis has not been unequivocally defined . Additional triggers of necroptosis may mediate regulated necrosis independently of death receptor stimulation.
The deubiquitinating enzyme CYLD was originally identified in cylindromatosis , a rare inherited condition of benign skin tumors caused by CYLD mutations lacking a functional catalytic domain . CYLD was described as a negative modulator of nuclear factor (NF)-κB signaling , TNFR-associated factor 2, NF-κB essential modulator and RIP1. A role for CYLD has been suggested in cellular processes including proliferation and inflammation, and a genome-wide small interfering RNA (siRNA) screen linked CYLD to necroptosis . For example, cellular inhibition of apoptosis proteins 1 and 2 (cIAP1 and cIAP2, respectively) prevented cell death by enhancing RIP1 ubiquitination, thereby antagonizing the effect of CYLD in pathways of necroptosis [3, 15,16,17]. Further, caspase-8-mediated CYLD processing was revealed as a master switch between RIP1-dependent programmed necrosis and apoptosis downstream of death receptor activation .
Although pathways of RIP1-dependent necroptosis have been linked to brain injury, the role of CYLD in paradigms of neuronal cell death is unknown. Therefore, we sought to elucidate a potential role of CYLD in caspase-independent cell death pathways that were triggered by oxidative stress in neuronal cells in vitro. For this purpose, we chose a model of glutamate-induced oxidative cell death in HT-22 cells. In these immortalized hippocampal neurons, millimolar glutamate concentrations block the glutamate-cystine (Xc−) transporter thereby depleting the intracellular glutathione . The resulting increase in oxidative stress triggers caspase-independent mitochondrial damage, apoptosis-inducing factor (AIF) release to the nucleus and death in the absence of a death receptor stimulus [20,21,22].
So far, the role of CYLD in the regulation of cell death has only been investigated in cultured cell lines in vitro. Whether CYLD also plays a role in neural cell death in vivo, in paradigms relevant for human disease, has not yet been reported. After acute brain injury following ischemia or brain trauma, neurons largely die via caspase-independent mechanisms of cell death that do not require death receptor activation but instead translocation of mitochondrial AIF to the nucleus [21, 23]. Additionally, traumatic brain damage (traumatic brain injury (TBI))-induced secondary brain damage involves acute glutamate release, loss of intracellular Ca2+ homeostasis, and oxidative cell death . In the present study, we therefore investigated whether CYLD deletion exerted protective effects in a mouse model of brain trauma.
CYLD siRNA prevents glutamate toxicity
To investigate the role of CYLD in neuronal HT-22 cells, we used two different CYLD siRNA sequences that depleted CYLD mRNA and protein levels (Fig. 1a, b; Supplementary Fig. S1a). Glutamate-induced morphological changes in the HT-22 cells were substantially mitigated in CYLD-depleted cells (Fig. 1c). The 3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide (MTT) assay revealed a significant degree of protection exerted by both CYLD siRNA sequences in comparison to their respective controls (Fig. 1d; Supplementary Fig. S1b), and fluorescence-activated cell sorter (FACS) analysis of AnnexinV/propidium iodide (PI)-stained cells confirmed that CYLD depletion prevented oxidative cell death (Fig. 1e). Real-time impedance measurements using the xCELLigence system showed a decrease in impedance for HT-22 cells treated with glutamate, while CYLD siRNA prevented this drop of impedance (Fig. 1f). Furthermore, CYLD depletion significantly attenuated lipid peroxidation compared to glutamate controls (Supplementary Fig. S3d).
Neither glutamate nor CYLD siRNA alters NF-κB activity
Stimulation of the NF-κB pathway was associated with neuroprotection, although some groups claimed that NF-κB aggravates neural cell death due to its pro-inflammatory function [25, 26]. Previously, lack of CYLD and the resulting increased cellular proliferation and survival was linked to an increase in NF-κB activity, e.g., in keratinocytes [27, 28]. We studied NF-κB activity by luciferase reporter assay under basal conditions and upon CYLD depletion in the HT-22 cells, in response to either glutamate or TNF-α. We found that CYLD depletion did not enhance NF-κB reporter activity at basal conditions or after glutamate treatment at different time points but by TNF-α (100 ng/ml) (Fig. 2a, b; Supplementary Fig. S3a). CYLD siRNA did not further enhance the TNF-α-induced NF-κB activity, suggesting that CYLD depletion was not linked to a protective regulation of NF-κB activity in these cells (Fig. 2b).
Western blot analysis showed altered phosphorylation of inhibitor of κB-α (IκB-α) only in TNF-α but not after glutamate treatment and this was unaltered by CYLD siRNA (Fig. 2c). Additionally, TNF-α did not enhance the glutamate toxicity but rather mediated a protective effect, suggesting that TNF-α did not contribute to glutamate toxicity (Fig. 2d). This conclusion was further supported by TNF-α enzyme-linked immunosorbent assay measurements of the supernatant medium of controls and after glutamate treatment for 6 and 18 h . In these conditions, TNF-α was either not detectable or detected at very low levels of, e.g., 9.67 ± 2.08 pg/ml in controls and 8.33 ± 1.53 pg/ml after glutamate exposure for 18 h. The missing role for TNF-α in supporting glutamate-induced cell death was confirmed using TNF-α antagonist infliximab (1 µg/ml), which prevented only necrosis induced by a cocktail of TNF-α (100 ng/ml), SMAC mimetics (SM-160 100 nM), and Caspase inhibitor (QVD 10 µM) but not glutamate-induced oxytosis (Supplementary Fig. S1c). The necrosis-inducing cocktail instigated the RIP1/RIP3 complex formation as observed earlier , and the subsequent cell death was abolished by RIP1 inhibitor, necrostatin-1 (30 µM) (Supplementary Fig. S1d, e). Overall, these data suggested that TNF-α did not contribute to mechanisms of cell death in this model of oxidative stress.
Glutamate toxicity is associated with RIP1/RIP3 complex formation
CYLD disassembles ubiquitin from lysin-63 (K63) of its target like RIP1 , but a role of CYLD-mediated effects on RIP1-K63 de-ubiquitination in glutamate-induced oxytosis is unknown. Hence, cells depleted of CYLD were subjected to glutamate and analyzed for RIP1-K63 ubiquitination levels by the immunoprecipitation of RIP1. We identified massive ubiquitination of RIP1 in CYLD-depleted cells only in conditions of glutamate-induced oxytosis compared to controls (Fig. 3a), suggesting that CYLD-mediated deubiquitination of RIP1 in oxidative stress was essential for RIP1/RIP3 complex formation.
Glutamate-induced cell death in HT-22 cells has been studied intensively in the past, with particular focus on reactive oxygen species (ROS) formation and oxidative stress-induced cell death [20,21,22]. The protective effects of CYLD siRNA prompted us to further investigate whether glutamate toxicity in HT-22 cells occurred via pathways of programmed necrosis. Therefore, we checked for the formation of RIP1/RIP3 complex as an important regulator of necroptosis. Immunoprecipitation experiments revealed that oxytosis was associated with a time-dependent increase in RIP1/RIP3 interaction, peaking at 12 h post glutamate exposure (Fig. 3b, d). Silencing of CYLD by siRNA averted this RIP1/RIP3 complex formation in glutamate-exposed cells (Fig. 3c, e).
Our data unveil a role of RIP1/RIP3-dependent necroptosis pathways in glutamate-induced oxytosis that is similar to the induction of necroptosis via extrinsic death receptor stimulation. These results suggest that intrinsic activation of CYLD by oxidative stress is a key step in RIP1/RIP3 necrosome formation and subsequent necroptotic death pathways.
Depletion of RIP1 and RIP3 but not MLKL prevents oxytosis by glutamate
The molecular stability of RIP1 and RIP3 depends in large parts on the activity of heat shock protein 90 (HSP90). Therefore, we applied the competitive HSP90 inhibitor geldanamycin to reduce RIP1 and RIP3 levels . Western blot confirmed the downregulation of both RIP proteins by geldanamycin (1 µM) in HT-22 cells. Importantly, this decrease in RIP1 and RIP3 proteins coincided with significantly attenuated glutamate toxicity (Fig. 4a, b). The individual roles of RIP1 and RIP3 in the oxytosis model were investigated using the respective siRNAs. As shown in Fig. 4c, d, RIP1 siRNA significantly protected cells against glutamate toxicity. Similarly, RIP3 silencing also provided significant protection against glutamate-induced cell death (Fig. 4e, f), however, with lower efficacy as compared to the effects of RIP1 siRNA.
Necrostatins are widely used as inhibitors of RIP1 kinase to block necroptosis pathways. Here we confirmed a protective effect of necrostatin-1 in the model system of oxytosis. Both the MTT assay and impedance-based detection of cell death reflected the strong and persistent protective effect of necrostatin-1 against glutamate toxicity, thus also confirming the previous results obtained by siRNA-mediated knockdown of RIP1 (Fig. 4g, h). Additionally, the RIP1-specific inhibitor Nec-1s prevented glutamate-induced oxytosis as measured by the MTT assay (Supplementary Fig. S3b) and FACS analysis of Annexin V/PI staining (Supplementary Fig. S3c). However, knockdown or pharmacological inhibition of MLKL protected only TNF-cocktail-induced cell death but not glutamate-induced oxytosis (Supplementary Fig. S4a, b). In summary, our findings strongly support the significant contribution of RIP1 and RIP3 to oxytosis downstream of CYLD activation.
CYLD−/ − animals were protected against TBI
To investigate whether CYLD was relevant for neuronal cell death in vivo, we used CYLD-deficient mice and their wild-type littermates in a clinically relevant model of TBI. TBI was induced by the well-established controlled cortical impact model, i.e., by driving a piston with high velocity into the right parietal cortex. Secondary brain damage and subsequent brain edema formation were significantly reduced in CYLD−/− animals as compared to wild-type littermates (Fig. 5a, b). Further, the increase in intracranial pressure, a clinically highly relevant parameter for the management of TBI patients, was significantly reduced in CYLD−/− mice (Fig. 5c). Importantly, neuroprotection mediated by CYLD deficiency was not transient but persisted beyond the acute phase of brain injury, i.e., 7 days after TBI (Fig. 5d).
Accordingly, CYLD mediates cell death and secondary brain damage in vitro and in vivo and may therefore represent a potential novel target for the treatment of brain injury.
In this study, we unveil a novel role of CYLD in paradigms of neuronal cell death in vivo and in vitro. CYLD−/− animals were significantly protected from the secondary brain damage induced by TBI, demonstrating, for the first time, a major role for CYLD in neuronal death in vivo. In vitro, we further demonstrated that CYLD linked paradigms of oxidative stress and necroptosis in neuronal cells. CYLD depletion by siRNA prevented RIP1 deubiquitination, formation of the RIP1/RIP3 complex, and cell death. Our results expose CYLD as a mediator of necroptosis inducing RIP1/RIP3 complex formation in neurons in vitro and demonstrate a major role of such CYLD-mediated death pathways in acute brain injury in vivo.
The discovery of a controlled signaling network regulating programmed necrosis dispensed the view that necrotic cell death always occurs in an uncontrolled manner . The exact mechanisms of programmed necrosis are unknown and only few key regulators have been identified so far . The formation of RIP1/RIP3 necrosome complex is considered as a central regulating component in necroptosis [14, 33]. Previous studies revealed increased ROS formation in paradigms of RIP3-dependend necrosis induced by TNF, where ROS mediated a positive feedback loop to enhance necrosome formation . A recent study showed that ROS promoted RIP1 autophosphorylation at S161, suggesting RIP1 as a ROS sensor in paradigms of TNF-induced necroptosis . In support of these studies, we identified increased RIP1/RIP3 complex formation in response to glutamate-induced oxidative stress in neuronal cells. Furthermore, we demonstrated that CYLD played an important role in ROS-mediated RIP1/RIP3 complex formation and cell death, suggesting CYLD as a sensor for oxidative stress in neuronal cells. However, neither genetic nor pharmacological inhibition of MLKL prevented glutamate toxicity (Supplementary Fig. S4a, b). In contrast to classic necrosis, where MLKL activation and associated cell membrane disruption is considered as final step of cell death, in neurons, MLKL activation might be less important as compared to mitochondrial damage as it is established as the point of no return in the current model of oxidative cell death. This also applies in vivo, where mitochondrial damage and AIF release was demonstrated as a major hallmark of TBI-mediated secondary brain damage .
We found that RIP1 inhibition by necrostatin-1 or necrostatin-1s prevented oxytosis in HT-22 cells (Fig. 4g, Supplementary Fig. S3b, c), and depletion of either RIP1 or RIP3 using siRNA or geldanamycin ameliorated glutamate toxicity. Importantly, depletion of CYLD resulted in increased K63 ubiquitination of RIP1 after exposure to glutamate and failed to form the RIP1/RIP3 complex. These findings indicated that CYLD regulated RIP1/RIP3–necrosome formation in glutamate-induced oxytosis via the deubiquitination of RIP1. In line with our findings, it has been shown that CYLD regulates RIP1 ubiquitination in the necrosome to facilitate RIP1 activation in TNF-α induced programmed necrosis .
Death receptors are tightly interwoven with downstream effectors, thereby, determining several different pathways of regulated cell death. For example, TNF-α may induce cell death through distinct death-inducing signaling complexes (DISC) [7, 9]. These DISC complexes contain the TNFR and TRADD and may promote cell death either through caspase-8 dependent apoptosis or RIP1–RIP3-dependent necroptosis.
In our model system of oxytosis, TNF-α alone failed to induce necroptotic cell death as also observed in other cell systems, where TNF-α requires a further stimulus. When applied together with the caspase inhibitor QVD and the cIAP inhibitor and SMAC-mimetic SM-164, TNF-α induced necroptosis via RIP1-RIP3 necrosome formation, which was significantly inhibited by necrostatin-1, MLKL inhibitor or MLKL–siRNA (Supplementary Figs. S1d and S4a, b). Although the molecular entities forming the necrosome are almost identical to death receptor-initiated complex II, the RIP1/RIP3 complex formed independently of death receptor stimulation in the present model system of oxytosis. Our findings are in line with recent reports, suggesting that the pathways initiating regulated necrosis may include oxidative stress attributed to superoxide and nitric oxide production . According to these studies, superoxide production in the mitochondria causes NO-dependent reduction of mitochondrial complex I activity and RIP1/RIP3-mediated necroptosis. These findings support the conclusion that RIP1/RIP3-dependent cell death can also be triggered by intracellular stimuli, as in our oxytosis model. Additionally, we now identified a major role of CYLD in mediating RIP1/RIP3-dependent necroptosis triggered by oxidative stress.
Further, an interconnection between established oxytosis model in HT-22 cells and programmed necrosis was provided by an earlier study reporting a putative role of glutathione metabolism and, namely, glutathione peroxidase 4 (Gpx4) in necroptosis . As previously established, the early initiation of cell death in HT-22 cells is closely linked to a decline in glutathione levels and subsequent increases in ROS levels through enhanced activity of 12/15 lipoxygenases [20, 39]. In earlier studies using an inducible Gpx4 knockout system in fibroblasts and neurons, we and others confirmed the functional loss of Gpx4 as the underlying mechanism linking decreased glutathione levels and increases in lipid peroxidation [20, 40]. In light of these findings, loss of Gpx4 activity after glutamate exposure of HT-22 cells likely initiates the detrimental pathways of 12/15-LOX-dependent oxidative cell death. Depletion of CYLD prevented glutamate-induced lipid peroxidation (Supplementary Fig. S3d). These results expose a key role for CYLD in oxytosis and the subsequent formation of RIP kinase complexes, thereby interconnecting apoptotic and necroptotic pathways in this model system.
Cleavage of CYLD by caspase-8 has been identified as the key event in shifting RIP kinase-dependent necrosis to caspase-dependent apoptosis, exposing caspase 8 and CYLD as master switches between apoptosis and necrosis . In the present model system of oxytosis, caspase-8 activity remained at control levels in HT-22 cells undergoing glutamate dependent cell death, and pan-caspase-inhibitors (Supplementary Fig. S2d) or caspase-8 inhibitors did not affect glutamate . These observations are consistent with previous studies demonstrating that depleted glutathione (GSH) levels due to ROS resulted in the inactivation of caspase-8, thus implicating oxidative stress-induced cell death to be caspase independent . Therefore, in the present model system of oxytosis, cell death is promoted in a RIP1/RIP3-dependent manner and independently of caspase activity. The observation that neither CYLD nor RIP1 nor RIP3 were markedly degraded during cell death further supported this conclusion, suggesting that caspase-8 activity was restrained in this model system, thereby allowing for the proposed CYLD-dependent necroptotic pathways.
Previously, CYLD was characterized as an important negative regulator of NF-κB signaling and functional impairment of CYLD was linked to enhanced NF-κB activity, tumorigenesis, and impaired immune response . Notably, in our model system of neural HT-22 cells, repression of CYLD did not alter NF-κB activity in either control or glutamate conditions. These results propose novel CYLD-dependent death signaling pathways independent of NF-κB regulation. This is in contrast, for example, to the effect of CYLD depletion in human cholesteatoma epithelial cells, where increases in NF-κB activity were proposed as key mechanisms of enhanced cell proliferation and survival . Although neuroprotection was linked to increased NF-κB activity , the observed protection against oxidative death by CYLD siRNA in the present study occurred independently of NF-κB activation. Recent studies demonstrated that the contribution of RIP1 to TNF-α-mediated death was not regulated by NF-kB but by an NF-kB-independent function of IKK [43, 44].
While the ubiquitinated form of RIP1 has been linked to the enhanced binding to transforming growth factor-β activated kinase 1 and the subsequent activation of NF-κB survival signaling, deubiquitinated RIP1 facilitates the formation of death receptor-initiated complex II, thereby promoting cell death [3, 15, 17]. Ubiquitination of RIP1 is predominantly mediated by the ubiquitin ligases cIAP1 and cIAP2 . Consequently, the depletion of cIAPs by SMAC mimetics promoted cell death by affecting RIP1 ubiquitination . Similarly, SMAC mimetics sensitized cells to necroptosis in response to TNF-α [3, 16]. The deubiquitinating enzyme CYLD, in turn, cleaves off ubiquitin residues from RIP1 and loss of CYLD or caspase-8-mediated CYLD processing prevents TNF-α-induced necroptosis [14, 18, 28]. In our study, however, we did not detect any effect of SMAC mimetics on cellular viability, although cIAP levels were markedly reduced (Supplementary Fig. S2a, b). Further, depletion of cIAPs did not affect protection mediated by CYLD depletion (Supplementary Fig. S2c). This is of particular interest, since cIAPs are believed to functionally antagonize the effects of CYLD on RIP1 ubiquitination and an effect at this level was expected. The degree of RIP1 ubiquitination fell below the level of detection by western blot analysis, likely due to the small amount of ubiquitin bound to RIP1. However, we detected increased RIP1 ubiquitination following CYLD depletion in HT-22 cells exposed to glutamate, indicating that under oxidative stress, CYLD regulates RIP1 ubiquitination leading to RIP1/RIP3 complex formation. In contrast, cIAP depletion did not facilitate glutamate-induced CYLD and RIP kinase-dependent death signaling in HT-22 cells, though the loss of cIAP1 and cIAP2 could be compensated by other, yet unidentified E3-ligases.
In line with the detrimental role of CYLD in oxidative neuronal death in vitro, CYLD−/− animals were significantly protected against brain damage induced by TBI. Compared to their wild-type littermates, CYLD−/− mice showed pronounced reduction in brain edema formation and significantly reduced intracranial pressure and contusion volume. Many studies indicated acute posttraumatic release of glutamate causes excitotoxicity involving the mechanisms of oxidative stress and neuronal cell death . This secondary loss of brain tissue caused by glutamate excitotoxicity is reflected in the increase in brain damage detected after 24 h compared to the cortical impact after 15 min of TBI (Fig. 5a). Earlier studies proposed a role for RIP1-dependent necroptosis in rodent models of ischemic brain injury, retinal ischemia reperfusion injury, and in neonatal hypoxia/ischemia [46, 47]. Additionally, the critical downstream regulators of necroptosis RIP1, RIP3, and MLKL were recently shown to be involved in TBI-induced necrotic brain damage [48,49,50,51,]. However, necrostatin-1 raised some critical discussions regarding specificity and the effective concentration for in vivo applications . While a role for CYLD has been identified in an in vitro screen for regulators of necroptosis, none of the previous studies on in vivo neuronal injury identified a major role for CYLD. Further, CYLD was linked to cell proliferation, survival, inflammation, and immune responses, which may all be activated after brain injury and contribute to neuronal damage. Using CYLD−/− mice, we now revealed the impact of this regulator of necroptosis in the model of TBI. Previous studies using the RIP1 inhibitor necrostatin-1 revealed pronounced protective effects in models of TBI, supporting a role for necroptosis in traumatic neuronal injury in vivo [50, 51].
Overall, our findings describe an important role for CYLD in neuronal cell death. In HT-22 cells, CYLD mediates programmed necrosis by RIP1/RIP3 complex formation independently of death receptor signaling. Showing the significant protective effect of CYLD depletion in a model of TBI in mice, we identify this novel pathway of oxidative necroptosis, and CYLD in particular, as a key regulator of brain injury in vivo.
Materials and methods
Cell culture and viability assays
HT-22 cells were cultured in Dulbecco’s Modified Eagle Medium (DMEM, Invitrogen, Karlsruhe, Germany) supplemented with 10% heat-inactivated fetal calf serum, 100 U/ml penicillin, 100 µg/ml streptomycin, and 2 mM glutamine. Glutamate toxicity was assessed at a final concentration of 2–4 mM glutamate, and cell viability was evaluated 12 h later. Quantification of cell viability in HT-22 cells was performed in 96-well plates by MTT reduction at 0.25 mg/ml for 1 h. The reaction was terminated by removing the medium and freezing the plate at −80 °C for at least 1 h. Absorbance was then determined after solving MTT dye in dimethyl sulfoxide (DMSO) at 570 nm vs. 630 nm (FluoStar, BMG Labtech, Offenburg, Germany). Necrostatin-1, zVAD-fmk (both by Enzo Life Sciences, Farmingdale, NY, USA), or geldanamycin (Biozol, Eching, Germany) were added to the medium at a final concentration of 25, 50 or 1 µM, respectively. Controls always received the vehicle (DMSO) at the same concentration as the groups receiving the pharmacological compounds.
Continuous real-time detection of cellular viability was performed by measurement of cellular impedance using the xCELLigence system (Roche, Penzberg, Germany) . For Annexin-V/PI staining, HT-22 cells were cultured in 24-well plates and exposed to glutamate. The cells were harvested using Trypsin/EDTA, washed once in phosphate-buffered saline, and resuspended in binding buffer (PromoKine, Heidelberg, Germany). PI and Annexin-V–fluorescein isothiocyanate (PromoKine Annexin V-FITC Detection Kit) were added (1 µl per 100 µl buffer) and incubated for 5 min at room temperature. Apoptotic and necrotic cells were detected using a FACScan (Becton Dickinson, San Jose, CA, USA). Annexin-V and PI fluorescence was exited at a wavelength of 488 nm and emission was detected at 530 ± 40 nm and at 680 ± 30 nm, respectively. For each sample, 10,000 cells were analyzed.
Plasmid and siRNA transfection
Transfection of siRNA was conducted using RNAiMax (Invitrogen) according to the manufacturer’s instructions. In brief, 5 pmol of siRNA duplexes were diluted in 100 µl Opti-MEM medium (Invitrogen), to which 1 µl of RNAiMax was added. The mixture was immediately transferred to the culture plate. Following an incubation period of 20 min, HT-22 cells were seeded at a density of 33,000 cells/well in a 24-well format in 500 µl DMEM medium without antibiotics. Single sequence-specific siRNA duplexes were used for murine CYLD (5ʹ-UGAAAUGACUGAGCGAUAA-3ʹ) and RIP1 (5ʹ-GAAUGAGGCUUACAACAGA-3ʹ), and a predesigned non-targeting siRNA was used as a negative control (all siRNAs from Eurofins MWG Operon, Ebersberg, Germany). The validated smart-pool ONTARGETplus siRNA for RIP3 5ʹ-UCAAGAUCGUGAACUCGAA-3ʹ; 5ʹ-CAAGUUCGGCCAAGUAUGA-3ʹ; 5ʹ-GGUAAAGCAUUAUCUGUCU-3ʹ; and 5ʹ-ACACGGCACUCCUUGGUAU-3ʹ was applied (Dharmacon, Lafayette, CO, USA). Gene silencing efficiency after siRNA treatment was verified by mRNA and protein analysis 24 and 72 h after transfection, respectively.
For plasmid transfections, HT-22 cells were seeded at a density of 60,000 cells in 900 µl/well in a 24-well plate. The medium was substituted immediately before transfection by DMEM (Invitrogen) without antibiotics and serum. A stock solution of 25 kD polyethylenimine (PEI; kind gift from BASF, Germany) was prepared beforehand by dissolving PEI in sterile water. PEI polyplexes were generated in situ, by incubating PEI at a final concentration of 17.5 µg/ml and the respective plasmid at 20 µg/ml in a 5% glucose solution. After 20 min of incubation, 100 µl of the polyplexes were added to 900 µl HT-22 cells, followed by an incubation period of 4 h. Afterwards the medium was replaced again by standard DMEM-medium containing serum and antibiotics. For control transfections, a plasmid encoding for mitochondrial targeting green fluorescent protein was used .
RNA extracts were prepared from HT-22 cells using the Nucleo Spin Kit II (Machery-Nagel, Duerren, Germany). One-step reverse transcriptase-PCR (RT-PCR) was performed using the SuperscriptIII One Step RT-PCR (Invitrogen). Specific primers were used for murine CYLD (fw: 5ʹ-CTCAGCCTATTTAGAAACAGACT-3ʹ; rv 5ʹ- TACACCTCTTGACATAAAGGC-3ʹ) and for murine GAPDH (fw: 5ʹ-GTCTTCACCACCATGGAGAAGGC-3ʹ; rv 5ʹ-AAGGCCATGCCAGTGAGCTTCCC-3ʹ). PCR products were separated on 1.5% agarose gel and visualized by SYBR Safe DNA gel stain (Invitrogen).
Western blotting and immunoprecipitation
Cells were lysed in standard cell lysis buffer at pH 7.8 containing 0.25 M D-Mannitol, 0.05 M Tris-base, 1 mM EDTA, 1 mM EGTA, and 1% Triton X-100. The buffer was supplemented with a tablet complete mini protease inhibitor cocktail tablet and a phosphatase inhibitor PhosphoSTOP tablet (both from Roche, Mannheim, Germany). Protein content was determined by the Pierce BCA Kit (Thermo Fisher Scientific, Rockford, IL, USA). Immunoprecipitation was performed using DynaBeads coupled with Protein A according to the manufacturer's protocol (Invitrogen). Crosslinking of the beads was achieved by Bis-Sulfosuccinimidyl-substrate (BS3, Thermo Fisher Scientific). Western blot analysis was performed as previously described . Briefly, the blots were probed at 4 °C overnight using the following antibodies: anti-CYLD polyclonal antibody (Santa Cruz Biotechnology, Santa Cruz, CA, USA), anti-RIP1 monoclonal antibody (BD Biosciences, Pharmingen, CA, USA), anti-RIP3 (ProSci, San Diego, CA, USA), anti-K63 ubiquiting (Millipore, #05-1308) anti-cIAP (R&D Systems, Minneapolis, MN, USA), and anti-IκB-α and -PIκB-α (both Cell Signaling Technology, Beverly, MA, USA). Equal protein loading was controlled by probing the membrane with a monoclonal anti-Actin antibody (MP-Biomedicals, Solon, OH, USA). Membranes were then exposed to the appropriate horseradish peroxidase (HRP)-conjugated goat anti-rabbit or horse anti-mouse secondary antibody (1:2500, Vector Laboratories, Burlingame, CA, USA) followed by a chemiluminescence detection of antibody binding using HRP-Juice (PJK GmbH, Kleinblittersdorf, Germany). Chemiluminescence was detected and quantified using a ChemiDoc XRS system running the Quantity One Software (both from Bio-Rad, Munich, Germany).
NF-κB activity was determined by dual luciferase reporter assay by co-transfecting HT-22 cells with a NF-κB-luciferase reporter plasmid with firefly luciferase reporter (#6053-1, Clontech, Heidelberg, Germany) and pRL-TK (#E2241, Promega, Madison, WI, USA) with renila luciferase reporter as a transfection control. Luciferase activity was performed with the Dual-Luciferase Assay Kit (Promega) following the manufacturer’s protocol. Luminescence was measured with FluoStar (BMG Labtechy) .
Animals and in vivo studies
All experimental procedures were approved by the Ethical Review Board of the Government of Upper Bavaria (protocol no. 18.104.22.168-2531/118-05). The manuscript was prepared according to the ARRIVE guidelines . Mice were maintained as per the guidelines of FELASA in standarad housing cages with access to food and water ad libitum .
All animals were randomly assigned to the treatment or control group by drawing lots; the surgical preparation and neurological testing was performed by a researcher blinded to the treatment. All data were prepared and analyzed by a researcher blinded to the treatment.
Controlled cortical impact
Six–8-week-old CYLD homozygous, hetereozygous, and wild-type mice weighing 24–26 g were used for the experiments. Anesthesia was induced with 4% isoflurane for 30 s and then continued with 1–1.5% isoflurane in 30% oxygen and 69% N2O delivered via face mask to spontaneously breathing animals. TBI was induced after right parietal craniotomy by controlled cortical impact (CCI) as previously described  using an impact depth of 1 mm, a velocity of 8 m/s, and 150 ms contact time. Body temperature was continuously kept at 37 °C. After replacement of the bone flap with tissue glue and wound closure, animals were allowed to wake up and kept in a heating chamber kept at 34 °C for 1 h in order to avoid hypothermia. Buprenorphine (100 mg/kg) was administered i.p. t.i.d. in the first 48 h.
Measurement of intracranial pressure (ICP)
Twenty-four hours after trauma, animals were re-anesthetized. A burrhole was placed anterior to CCI craniotomy. ICP was measured via an intraparenchymal pressure sensor (ICP EXPRESS, Codman, Raynham, MA) over 5 min.
Assessment of lesion volume
Twenty-four hours or 7 days after CCI, animals were killed in deep isoflurane anesthesia; brains were removed and immediately frozen in powdered dry ice. In all, 10 µm coronal Cryo sections were prepared every 500 µm, stained according to Nissl, and then digitally photographed. The contusion area was measured using a standard image analysing system (analySIS 3.2 for Olympus DP-soft, soft imaging system, Muenster, Germany).
Brain water content
Brains were removed after 24 h and immediately cooled to 4 °C. Optical bulbs and cerebellum were removed, hemispheres were separated, and the wet weight was assessed. Dry weight was obtained after keeping the hemispheres at 100 °C for 24 h. Brain water content was calculated as the percentage of whole brain weight .
This study was partly supported by the DFG (Cu43/6-1). SM-164 was a kind gift from Shamoeng Wang, University of Michigan, Ann Arbor, Michigan, USA. We thank Mathieu JM Bertrand, Inflammation Research Center, VIB, Ghent University, Gent, Belgium for valuable suggestions and comments in redrafting this manuscript. We thank the excellent technical support by Mrs. Katharina Elsässer and Ms. Eileen Daube.
GKG, NAT, and SD performed the in vitro experiments, interpreted data. NAT performed in vivo experiments and analyzed in vivo data. IE, LH, and CR performed additional immunoprecipitation and siRNA experiments and analyzed data. NP and CC conceived the concept of the study, interpreted all experiments and wrote the manuscript supported by GKG, NAT, and SD.