Skip to main content
eLife logoLink to eLife
. 2025 Jul 23;13:RP98372. doi: 10.7554/eLife.98372

Targeting the WSB2–NOXA axis in cancer cells for enhanced sensitivity to BCL-2 family protein inhibitors

Dongyue Jiao 1,, Kun Chang 2,3,, Jiamin Jin 1, Yingji Chen 1, Mo Ren 4, Yucong Zhang 5, Kun Gao 6,7, Yaoting Xu 8,‡,, Lixin Wang 5,‡,, Chenji Wang 1,‡,
Editors: Agnieszka Chacinska9, Jonathan A Cooper10
PMCID: PMC12286604  PMID: 40699886

Abstract

Anti-apoptotic B-cell lymphoma-2 (BCL-2) family proteins are frequently overexpressed in various cancers, playing a pivotal role in cancer initiation and progression, as well as intrinsic or acquired resistance to therapy. Although inhibitors targeting BCL-2, such as Venetoclax, have shown efficacy in hematological malignancies, their therapeutic potential in solid tumors remains limited. Identifying novel molecular targets to overcome resistance to these inhibitors is of significant clinical importance. Here, we provide evidence of a strong synthetic lethality between WSB2, a previously underexplored substrate-binding receptor of the Cullin 5–RBX2–Elongin B/C (CRL5) E3 ubiquitin ligase complex, and anti-apoptotic BCL-2 family proteins. Mechanistically, WSB assembles a CRL5 E3 ubiquitin ligase complex that facilitates the ubiquitination and subsequent proteasomal degradation of NOXA, a pro-apoptotic BCL-2 family protein. Loss of WSB2 leads to a substantial accumulation of NOXA in both cultured cell lines and knockout mouse tissues. While WSB2 deficiency alone does not significantly impact spontaneous apoptosis, it sensitizes cells to apoptosis when anti-apoptotic BCL-2 family proteins are either genetically depleted or pharmacologically inhibited. Moreover, WSB2 is overexpressed in several human cancer types. These findings identify WSB2 as a critical regulator of mitochondrial apoptosis and reveal the dysregulation of the WSB2–NOXA axis as a key factor contributing to apoptosis resistance in cancer cells. Targeting both WSB2 and anti-apoptotic BCL-2 family proteins holds promising therapeutic potential for overcoming resistance in human cancers.

Research organism: Human

Introduction

One of the defining hallmarks of human cancers is their ability to evade apoptosis, a form of programmed cell death essential for maintaining cellular homeostasis (Hanahan and Weinberg, 2011). This evasion not only drives tumor initiation and progression but also underlies resistance to many cancer therapies. Most anticancer treatments—including chemotherapy, radiotherapy, targeted therapy, and immunotherapy—rely on the activation of apoptotic pathways in cancer cells to achieve their therapeutic effects (Carneiro and El-Deiry, 2020). Apoptosis is predominantly regulated at the mitochondrial level by the B-cell lymphoma-2 (BCL-2) family of proteins, which are classified into anti-apoptotic and pro-apoptotic subgroups. Anti-apoptotic members such as BCL-2, BCL-XL, BCL-W, and MCL-1 contain one to four BH domains and preserve mitochondrial outer membrane integrity by neutralizing pro-apoptotic counterparts. In contrast, pro-apoptotic proteins include multidomain effectors (e.g., BAX, BAK, and BOK) and ‘BH3-only’ proteins (e.g., NOXA, BIM, PUMA, and BAD), which respond to cellular stress by triggering mitochondrial membrane permeabilization, leading to apoptosis (Kale et al., 2018; Youle and Strasser, 2008). Tumors frequently develop resistance to apoptosis by upregulating anti-apoptotic proteins or suppressing pro-apoptotic counterparts, emphasizing the need for therapeutic strategies that can restore this critical balance (Cory et al., 2016).

Small-molecule BH3 mimetics have emerged as a promising class of drugs that specifically inhibit anti-apoptotic BCL-2 proteins. Venetoclax (ABT-199), a BCL-2-specific inhibitor, has achieved clinical approval for treating BCL-2-dependent hematological malignancies, such as small lymphocytic lymphoma and chronic lymphocytic leukemia (Cory et al., 2016). Moreover, Venetoclax demonstrates enhanced efficacy in acute myeloid leukemia when combined with other therapies (Wei et al., 2020; DiNardo et al., 2020). However, its application in solid tumors remains limited, potentially due to the lower dependency of solid tumors on BCL-2 for survival (Ploumaki et al., 2023). Identifying alternative molecular targets to sensitize solid tumors to BCL-2 inhibitors represents a critical unmet need.

Cullin 5 (CUL5), a member of the cullin-RING ubiquitin ligase family, plays a pivotal role in protein turnover by assembling with RBX2, Elongin B/C, and a SOCS box-containing substrate-binding receptor to form the CRL5 E3 ubiquitin ligase complex (Zhao et al., 2020). Among these, WD repeat and SOCS box-containing protein 2 (WSB2) has been identified as a substrate receptor (Mahrour et al., 2008). WSB2 is frequently overexpressed in cancers such as lung, breast, and melanoma, where it promotes malignancy by driving cell proliferation, cycle progression, and migration (Zhang et al., 2019; Ma et al., 2020). Despite its oncogenic potential, the lack of identified physiological substrates for the CRL5WSB2 complex has limited its exploration as a therapeutic target.

Using data from the DepMap Portal (https://depmap.org/), we uncovered a functional interplay between WSB2 and BCL-2 family proteins. Biochemical analyses revealed that WSB2 facilitates the degradation of NOXA, a pro-apoptotic BCL-2 family protein, through assembling the CRL5WSB2 E3 ubiquitin ligase complex. Through a combination of cell line studies, xenograft tumor models, and knockout mice experiments, we investigated the biological significance and therapeutic potential of targeting WSB2. Our findings suggest that disrupting the WSB2–NOXA axis could synergize with BCL-2 inhibitors to induce apoptosis in cancer cells, offering a novel strategy for combating apoptosis resistance in human cancers.

Results

Multiple BCL-2 family proteins identified as interactors of WSB2

WSB2 has been identified as a substrate receptor of the CRL5 E3 ubiquitin ligase complex; however, its physiological roles in specific cellular processes remain largely unknown. Interestingly, several genome-wide RNAi and CRISPR/Cas9 screening studies have revealed strong synthetic interactions between WSB2 and key regulators of mitochondrial apoptosis, including MCL-1, BCL-xL, and MARCH5 (McDonald et al., 2017; DeWeirdt et al., 2020; DeWeirdt et al., 2021). To elucidate the potential molecular functions of WSB2, we analyzed the genetic co-dependency between WSB2 and other proteins using Broad’s 21Q2 DepMap dataset (Tsherniak et al., 2017). This dataset, derived from large-scale loss-of-function single-guide RNA (sgRNA) screens for vulnerabilities in 990 cancer cell lines, allows the identification of genes with similar functions or pathways (Bayraktar et al., 2020; Price et al., 2019). Gene ontology analysis of the top 100 WSB2 co-dependent genes revealed significant enrichment in apoptosis-related processes (Figure 1—figure supplement 1A, Supplementary file 1 and Supplementary file 2). Among the most correlated genes, WSB2 displayed a positive association with anti-apoptotic proteins BCL2L2 (BCL-W) and MCL-1, while negatively correlating with pro-apoptotic proteins BAX and PMAIP1 (NOXA) (Figure 1A). Notably, WSB2, along with key BCL-2 family members (BCL-2, BCL-W, BAX, MCL-1, NOXA, and BAK1), constituted a co-essential module that also included UBE2J2/MARCH5, an E2–E3 ligase complex known to regulate MCL-1/NOXA turnover (Figure 1B; Nakao et al., 2023; Djajawi et al., 2020; Haschka et al., 2020).

Figure 1. WSB2 interacts with multiple members of BCL-2 family proteins in cells.

(A) The top 20 co-dependent genes of WSB2 in Broad’s 21Q2 DepMap dataset. Red, anti-apoptotic BCL-2 family proteins. Blue, pro-apoptotic BCL-2 family proteins. (B) A co-essential module containing WSB2 and other BCL-2 family proteins using a dataset of CRISPR screens from the Achilles DepMap project (hhttps://mitra.stanford.edu/bassik/michael/cluster_heatmaps/). Cellular component: Bcl-2 family protein complex. Molecular function: BH domain binding. (C–E) Western blot (WB) analyses of the indicated proteins in the WCL and co-immunoprecipitation (Co-IP) samples of anti-FLAG antibody obtained from 293T cells transfected with the indicated plasmids. WB analyses of the indicated proteins in the WCL and Co-IP samples of IgG or anti-NOXA (F), anti-MCL-1 (G), anti-BCL-2 (H), anti-BCL-XL (I), or anti-BAD (J) antibodies obtained from 293T cells. (K) Representative immunofluorescence (IF) images from HeLa cells transfected with FLAG-WSB2, stained with FLAG (WSB2), HSP60, and DAPI. Scale bar, 20 μm. (L) The cytoplasmic (Cyto), mitochondrial (Mito), and nuclear fractions (Nuc) from HeLa cells were prepared as described in the Methods section. Histone H3 (nucleus), GAPDH (cytoplasm), and HSP60 (mitochondria) were used as subcellular fraction markers. WB analyses were performed to detect the indicated proteins in three fractions from HeLa cells. (M) Mitochondria from HeLa cells were purified as intact mitochondria or treated with hypotonic swelling buffer or lysed with Triton X-100 buffer. Different mitochondrial preparations were then digested with or without Proteinase K. WB analyses of the indicated proteins in three fractions were then performed. OM: outer membrane; IMS: intermembrane space.

Figure 1—source data 1. Original file for the western blot analysis in Figure 1.
Figure 1—source data 2. Labeled file for the western blot analysis in Figure 1.
Figure 1—source data 3. Original file for the images in Figure 1.

Figure 1.

Figure 1—figure supplement 1. WSB2 is involved in apoptosis-related pathways and shows significant associations with BH3 mimetic compounds.

Figure 1—figure supplement 1.

(A) GO enrichment analysis of biological processes was performed on the top 100 co-dependent genes of WSB2 in the Broad’s 21Q2 DepMap dataset. The biological processes were ranked based on fold enrichment values, with the most significant processes highlighted in red and the less significant processes highlighted in blue, according to log10(FDR) values. In the graph, larger dots represent a higher number of genes involved in a particular process. (B, C) Gene effect scores of query gene and the drug selected. Each dot is a cell line of the selected cancer type(s). Drug sensitivity is represented by log-fold change (PRISM) or IC50 (GDSC), where a more negative value denotes stronger treatment response.

Using the DepLink web server (Nayak et al., 2023) to analyze genetic and pharmacological perturbations (Corsello et al., 2020; Iorio et al., 2016), we observed that WSB2 knockout exhibited the highest correlations with the BH3 mimetics ABT-737 and ABT-263 among hundreds of drugs tested (Figure 1—figure supplement 1B, C, Supplementary file 3). These molecular links prompted us to investigate whether WSB2 has any impact on mitochondrial apoptosis through the regulation of BCL-2 family proteins. To test this hypothesis, we first examined the interaction between WSB2 and BCL-2 family proteins. Exogenous co-immunoprecipitation (Co-IP) assays revealed that WSB2 interacted with MCL-1, NOXA, BAD, BCL-XL, and BCL-2 but not with BAX, BCL-W, or BAK (Figure 1C). These interactions were further confirmed through semi-endogenous and endogenous Co-IP assays (Figure 1D, F–J). In contrast, WSB1, a closely related paralog of WSB2, did not interact with BCL-2 family proteins (Figure 1E).

Since BCL-2 family proteins reside on the outer mitochondrial membrane, we sought to determine the subcellular distribution of WSB2. Immunofluorescence (IF) analysis demonstrated that WSB2 is predominantly cytoplasmic, with partial colocalization with the mitochondrial marker HSP60 (Figure 1K). Subcellular fractionation of HeLa cells further confirmed that WSB2 is primarily cytoplasmic, with a moderate mitochondrial presence and negligible nuclear localization (Figure 1L). To determine its submitochondrial localization, we purified mitochondria and performed Protease K digestion under different mitochondrial preparations. Cleavage by Protease K only occurred in intact mitochondria and targeted outer membrane proteins exposed to the cytosol, such as TOM70. Swelling the mitochondria with a hypotonic buffer disrupted the outer mitochondrial membrane but left the inner membrane intact, resulting in the cleavage of intermembrane space proteins like SMAC. Lysis with Triton X-100 caused the cleavage of all mitochondrial proteins including matrix proteins like HSP60. Similar to TOM70, WSB2 was cleaved by Protease K digestion in intact mitochondria preparation (Figure 1M). Cleavage patterns confirmed that WSB2 is exposed on the cytosolic side of the mitochondrial outer membrane.

Collectively, these data indicate that a proportion of WSB2 is located on the mitochondrial outer membrane, selectively interacting with certain members of the BCL-2 protein family.

The CRL5WSB2 E3 ubiquitin ligase complex mediates the ubiquitin–proteasomal degradation of NOXA

WSB2 was co-purified with CRL5 complex components (RBX2, CUL5, ELOB, and ELOC), confirming its role as a potential CRL5 adaptor (Figure 1D). To investigate whether WSB2 regulates the stability of BCL-2 family proteins, we analyzed protein levels following WSB2 overexpression or depletion. Overexpression of WSB2 markedly reduced NOXA levels, while the levels of other BCL-2 family proteins remained unaffected or minimally affected (Figure 2—figure supplement 1A). Furthermore, depletion of WSB2 through short hairpin RNA (shRNA)-mediated knockdown (KD) or CRISPR/Cas9-mediated knockout (KO) in prostate cancer C4-2B cells or liver cancer Huh-7 cells led to a marked increase in the steady-state levels of endogenous NOXA, without affecting other BCL-2 family proteins examined (Figure 2A–C, Figure 2—figure supplement 2A, B). Therefore, our main focus in this study was to investigate the impact of WSB2 on the protein stability of NOXA.

Figure 2. The CRL5WSB2 E3 ubiquitin ligase complex controls NOXA protein turnover.

(A) Western blot (WB) analyses of the indicated proteins in the WCL from C4-2B cells infected with lentivirus expressing WSB2-specific short hairpin RNA (shRNA) or negative control (NC). (B, C) WB analyses of the indicated proteins in the WCL from parental or WSB2 KO C4-2B or Huh-7 cells. (D) WB analyses of the indicated proteins in the WCL from 293T cells transfected with the indicated plasmids for 24 hr and treated with DMSO or MG132 (20  μM) for 8 hr. (E) WB analyses of the indicated proteins in the WCL from 293T cells transfected with the indicated plasmids. (F) WB analyses of the indicated proteins in the WCL from parental or WSB2 KO C4-2B cells stably overexpressing empty vector (EV), WSB2-WT or its mutants. (G) WB analyses of the indicated proteins in the WCL from C4-2B cells transfected with the indicated siRNAs. (H, I) WB analyses of indicated proteins in the WCL of parental and WSB2 KO C4-2B cells treated with cycloheximide (CHX, 50 μg/ml) and harvested at different time points. (I) At each time point, the intensity of NOXA was normalized to the intensity of GAPDH and then to the value at 0 hr. Data are shown as means ± SE (n = 3). (J) RT-qPCR measurement of NOXA mRNA expression in parental or WSB2 KO C4-2B or Huh-7 cells. Data are shown as means ± SE (n = 3). (K, L) WB analyses of the products of in vivo ubiquitination assays performed using WCL from 293T cells transfected with the indicated plasmids and treated with MG132 (20 μM). (M) WB analyses of the products of in vivo ubiquitination assays. Co-immunoprecipitation (Co-IP) using anti-IgG or anti-NOXA antibody in the WCL prepared from parental and WSB2 KO C4-2B cells transfected with HA-Ub for 24 hr and treated with MG132 (20 μM) for 8 hr. p values are calculated by the two-way ANOVA test in (I) and one-way ANOVA test in (J). n.s., non-significant.

Figure 2—source data 1. Original file for the western blot analysis in Figure 2.
Figure 2—source data 2. Labeled file for the western blot analysis in Figure 2.

Figure 2.

Figure 2—figure supplement 1. The CRL5WSB2 E3 ubiquitin ligase complex controls NOXA protein turnover.

Figure 2—figure supplement 1.

(A) Western blot (WB) analyses of the indicated proteins in the WCL from 293T cells transfected with the indicated plasmids. (B) The canonical BC box and CUL5 box sequences of WSB2, as well as the amino acid deletions corresponding to each mutant, are indicated. (C) WB analyses of the indicated proteins in the WCL from Huh-7 cells transfected with the indicated siRNAs. (D) WB analyses of the indicated proteins in the WCL and Co-IP samples of IgG or anti-NOXA antibodies obtained from 293T cells. (E) WB analyses of the products of in vivo ubiquitination assays performed using the WCL from 293T cells transfected with the indicated plasmids and treated with MG132 (20 μM).
Figure 2—figure supplement 1—source data 1. Original file for the western blot analysis in Figure 2—figure supplement 1.
Figure 2—figure supplement 1—source data 2. Labeled file for the western blot analysis in Figure 2—figure supplement 1.
Figure 2—figure supplement 2. Validation of WSB2 knockout in two cancer cell lines.

Figure 2—figure supplement 2.

(A) Schematic of CRISPR/Cas9-mediated knockout of WSB2 by sgRNA#1 or sgRNA#2 in C4-2B cells. Sanger sequencing confirming that the WSB2 gene was edited by sgRNA#1 or sgRNA#2 in C4-2B cells. (B) Schematic of CRISPR/Cas9-mediated knockout of WSB2 by sgRNA#1 or sgRNA#2 in Huh-7 cells. Sanger sequencing confirmed that the WSB2 gene was edited by sgRNA#1 or sgRNA#2 in Huh-7 cells.

We further demonstrated that the proteasome inhibitor MG132 completely reversed the reduction in NOXA protein levels caused by WSB2 overexpression. In contrast, overexpression of WSB1 had no effect on NOXA levels (Figure 2D). WSB2 contains a C-terminal SOCS box, comprising a BC box and a Cullin 5 (CUL5) box, which are essential for interacting with Elongin B/C and CUL5, respectively (Mahrour et al., 2008). Deletion of either domain (BC box or CUL5 box) abolished WSB2’s ability to decrease NOXA protein levels, as confirmed by experiments using WSB2 mutants (Figure 2E, Figure 2—figure supplement 1B). Reintroduction of these mutants into WSB2 KO C4-2 cells failed to reverse the accumulation of NOXA, further confirming the functional importance of these domains (Figure 2F). Consistently, depletion of CRL5 complex components (RBX2, CUL5, ELOB, or ELOC) through siRNAs in C4-2B or Huh-7 cells also resulted in a significant increase in NOXA protein levels (Figure 2G, Figure 2—figure supplement 1C). Moreover, NOXA co-immunoprecipitated with all subunits of the CRL5WSB2 complex (Figure 2—figure supplement 1D). Cycloheximide chase assays revealed that WSB2 KO cells exhibited an extended half-life for NOXA (Figure 2H, I). Additionally, the mRNA levels of NOXA were even reduced in WSB2 KO cells compared to control cells, likely to counteract the accumulation of NOXA protein (Figure 2J). This suggests that the accumulation of NOXA in WSB2 KO cells is primarily due to impaired protein degradation. We also found that WSB2-WT, but not the BCM or CULM mutant could promote polyubiquitination of NOXA (Figure 2K, L). A previous study showed that UBE2F promotes the survival of lung cancer cells by activating CRL5 to degrade NOXA via the K11 Linkag (Zhou et al., 2017). By employing linkage-specific K11/K48/K63-Ub mutants, we observed that WSB2-mediated ubiquitination of NOXA likely involves all the tested ubiquitin linkage types (Figure 2—figure supplement 1E). Conversely, WSB2 KO cells showed reduced levels of ubiquitinated NOXA (Figure 2M), further confirming that WSB2 is essential for NOXA turnover.

Collectively, these data indicate that the CRL5WSB2 complex mediates the ubiquitin–proteasomal degradation of NOXA.

The C-terminal region of NOXA is crucial for WSB2-mediated NOXA degradation

In addition to its BC and CUL5 boxes, WSB2 also contains five WD repeats, which typically function as modules facilitating protein–protein interactions. To identify the region responsible for binding NOXA, we generated a series of WSB2 deletion mutants and performed Co-IP assays. Surprisingly, we found that the SOCS box, rather than the WD repeats, is essential for WSB2 binding to NOXA (Figure 3A, B, Figure 3—figure supplement 1A). Deletion of the SOCS box abolished WSB2’s ability to interact with NOXA and to mediate its ubiquitination and degradation, indicating that this domain is indispensable for its function (Figure 3C, D).

Figure 3. Identification of the mutual-binding regions of WSB2 and NOXA.

(A) Schematic representation of WSB2 deletion mutants. (B) Western blot (WB) analyses of the indicated proteins in the WCL and co-immunoprecipitation (Co-IP) samples of anti-FLAG antibody obtained from 293T cells transfected with the indicated plasmids. (C) WB analyses of the indicated proteins in the WCL from 293T cells transfected with the indicated plasmids. (D) WB analyses of the products of in vivo ubiquitination assays performed using WCL from 293T cells transfected with the indicated plasmids for 24 hr and treated with MG132 (20 μM). (E) Schematic representation of NOXA deletion or point mutants. (F–H) WB analyses of the indicated proteins in the WCL and Co-IP samples of anti-FLAG antibody obtained from 293T cells transfected with indicated plasmids. (I) WB analyses of the indicated proteins in the WCL from 293T cells transfected with the indicated plasmids. (J) WB analyses of the products of in vivo ubiquitination assays performed using WCL from 293T cells transfected with the indicated plasmids and treated with MG132 (20 μM). (K, L) WB analyses of the indicated proteins in the WCL from 293T cells transfected with the indicated plasmids treated with cycloheximide (CHX, 50  μg/ml) and harvested at different time points. (L) At each time point, the intensity of NOXA was normalized to the intensity of GAPDH and then to the value at 0 hr. Data are shown as means ± SE (n = 3). p values are calculated by the two-way ANOVA test. (M) 293T cells were transfected with the indicated plasmids. WSB2–NOXA complex was co-immunoprecipitated by anti-FLAG antibody, and then the bound complex was incubated with the increasing amounts of C-terminal NOXA peptide (200 and 400 μg/ml) or the corresponding scramble peptide for 12 hr. Bound material was subjected to WB analyses. C-ter: C-terminal NOXA peptide. (N) WB analyses of the indicated proteins in the WCL from C4-2B and Huh-7 cells treated with the increasing concentration of C-terminal cell-penetrating peptide of NOXA or the R8 peptide for 12 hr.

Figure 3—source data 1. Original file for the western blot analysis in Figure 3.
Figure 3—source data 2. Labeled file for the western blot analysis in Figure 3.

Figure 3.

Figure 3—figure supplement 1. Identification of the mutual-binding regions of WSB2 and NOXA.

Figure 3—figure supplement 1.

(A, B) Western blot (WB) analyses of the indicated proteins in the WCL and co-immunoprecipitation (Co-IP) samples of anti-FLAG antibody obtained from 293T cells transfected with the indicated plasmids. (C) WB analyses of the products of in vivo ubiquitination assays performed using WCL from 293T cells transfected with the indicated plasmids and treated with MG132 (20 μM). (D) WB analyses of the indicated proteins in the WCL and Co-IP samples of IgG or anti-NOXA antibodies obtained from 293T cells treated with the C-terminal cell-penetrating peptide of NOXA or the R8 peptide for 12 hr. (E, F) WB analyses of indicated proteins in the WCL of parental and WSB2 KO C4-2B cells treated with the C-terminal cell-penetrating peptide of NOXA or the R8 peptide for 12 hr, and then treated with cycloheximide (CHX, 50  μg/ml) and harvested at different time points. (F) At each time point, the intensity of NOXA was normalized to the intensity of GAPDH and then to the value at 0 hr. Data are shown as means ± SE (n = 3). p values are calculated by the two-way ANOVA test.
Figure 3—figure supplement 1—source data 1. Original file for the western blot analysis in Figure 3—figure supplement 1.
Figure 3—figure supplement 1—source data 2. Labeled file for the western blot analysis in Figure 3—figure supplement 1.

Reciprocally, we sought to determine the region in NOXA that is required for its interaction with WSB2. By generating a series of NOXA deletion mutants and conducting Co-IP assays, we identified the C-terminal region (40–54 aa), which contains the mitochondrial-targeting domain (MTD) (Seo et al., 2003), as the critical binding site (Figure 3E–G). Mutation of key residues within this domain (5A mutant) abolished the interaction between NOXA and WSB2, whereas mutations in the BH3 domain (3E mutant) did not affect their interaction (Figure 3H, Figure 3—figure supplement 1B). Furthermore, the NOXA-5A mutant was resistant to WSB2-mediated ubiquitination and degradation (Figure 3I, J), resulting in an extended protein half-life compared to NOXA-WT (Figure 3K, L). NOXA contains three lysine residues that can be attached by ubiquitin (Pang et al., 2014). By simultaneously mutating these lysine residues to arginine, we found that WSB2-mediated NOXA ubiquitination was completely abolished, although this mutant (KR) exhibits a comparable WSB2-binding capacity to NOXA-WT (Figure 3H, J). Additional in vivo ubiquitination assays revealed that lysine 48 is the primary residue mediating WSB2-dependent ubiquitination of NOXA (Figure 3—figure supplement 1C). These results indicate that the C-terminal region of NOXA, particularly its mitochondrial-targeting domain and lysine 48, is essential for its recognition and ubiquitination by WSB2.

To explore the therapeutic potential of disrupting the WSB2–NOXA interaction, we synthesized a peptide derived from the C-terminal region of NOXA (40–54 aa). This peptide competitively inhibited the interaction between WSB2 and NOXA in a dose-dependent manner (Figure 3M). Based on this, we hypothesized that transduction of the C-terminal NOXA peptide into cells could competitively inhibit WSB2-mediated NOXA degradation. To efficiently deliver this peptide into cells, we synthesized a fusion peptide in which the C-terminal peptide was connected to the cell-penetrating poly-arginine (R8) sequence. Treatment of cells with this fusion peptide reduced endogenous WSB2-NOXA interaction (Figure 3—figure supplement 1D), dose-dependently increased endogenous NOXA protein levels, and prolonged endogenous NOXA turnover (Figure 3N, Figure 3—figure supplement 1E, F).

Collectively, these data indicate that the C-terminal region of NOXA is indispensable for its interaction with WSB2 and subsequent ubiquitination.

Co-inhibition of WSB2 and anti-apoptotic BCL-2 family proteins causes synthetic lethality via apoptotic cell death

Despite the significant accumulation of NOXA in WSB2-deficient cells, we did not observe obvious spontaneous apoptosis under standard cell culture conditions. This suggests that NOXA upregulation alone is insufficient to trigger spontaneous apoptosis.

Consequently, we hypothesized that simultaneous depletion of an anti-apoptotic BCL-2 family protein might synergize with WSB2 deficiency to induce apoptosis. To test this, we established stable cell lines with BCL-XL or MCL-1 KD via shRNAs, followed by further depletion of WSB2 using siRNA. Remarkably, co-depletion of BCL-XL and WSB2 or MCL-1 and WSB2 resulted in robust apoptosis, as evidenced by increased caspase cleavage in western blot (WB) analyses and a significant rise in apoptotic marker detected by flow cytometry (Figure 4A–D). The E3 ubiquitin ligase MARCH5 co-exists with WSB2 in a functional module (Figure 1B), and previous studies have shown that depletion of MARCH5 sensitizes cells to MCL-1 inhibitors or BCL-2/BCL-XL inhibitors (Nakao et al., 2023; Subramanian et al., 2016; Arai et al., 2020). Consistently, we observed that co-depletion of MARCH5 and WSB2 also induced substantial apoptosis (Figure 4E, F), supporting their cooperative role in regulating mitochondrial apoptosis.

Figure 4. Combined inhibition of anti-apoptotic BCL-2 family members and WSB2 induces synthetic lethality.

(A, B) Western blot (WB) analyses of the indicated proteins in the WCL from C4-2B cells infected with lentivirus expressing MCL-1-specific short hairpin RNA (shRNA) or NC and then transfected with the indicated siRNAs for 36 hr. (B) Annexin-V-FITC/PI assays were used to stain the harvested cells in (A), of which later flow cytometry analysis was performed. Data are shown as means ± SE (n = 3). (C, D) Similar to (A, B), but BCL-XL was knocked down in C4-2B cells. (E, F) Similar to (A, B), but MARCH5 was knocked down in C4-2B cells. (G, H) WB analyses of the indicated proteins in the WCL from parental and WSB2 KO C4-2B cells treated with ABT-737 (20 μM) for 6 hr. (H) Annexin-V-FITC/PI assays were used to stain the harvested cells in (H), of which later flow cytometry analysis was performed. Data are shown as means ± SE (n = 3). (I, J) Similar to (A, B), but AZD5991 was used for treatment in C4-2B cells. (K, L) Similar to (A, B), but BAY-1143572 was used for treatment in C4-2B cells. p values are calculated by the one-way ANOVA test in (B, D, F) and two-way ANOVA test in (H, J, L). n.s., non-significant.

Figure 4—source data 1. Original file for the western blot analysis in Figure 4.
Figure 4—source data 2. Labeled file for the western blot analysis in Figure 4.

Figure 4.

Figure 4—figure supplement 1. Combined inhibition of anti-apoptotic BCL-2 family members and WSB2 induces synthetic lethality.

Figure 4—figure supplement 1.

(A, B) Western blot (WB) analyses of the indicated proteins in the WCL from parental and WSB2 KO Huh-7 cells treated with ABT-737 (20 μM). (B) Annexin-V-FITC/PI assays were used to stain the harvested cells in (A), of which later flow cytometry analysis was performed. Data are shown as means ± SE (n = 3). (C, D) Similar to (A, B), but AZD5991 was used for treatment in Huh-7 cells. p values are calculated by the two-way ANOVA test in (B, D). n.s., non-significant.
Figure 4—figure supplement 1—source data 1. Original file for the western blot analysis in Figure 4—figure supplement 1.
Figure 4—figure supplement 1—source data 2. Labeled file for the western blot analysis in Figure 4—figure supplement 1.

Next, we used pharmacological inhibitors targeting anti-apoptotic BCL-2 family proteins to assess their efficacy in WSB2-deficient cells. In parental C4-2B and Huh-7 cells, treatment with either ABT-737 (an inhibitor of BCL-2/BCL-XL) or AZD5991 (an inhibitor of MCL-1) resulted in only modest apoptosis induction. However, in WSB2-deficient cells, these drugs caused substantial apoptosis (Figure 4G–J, Figure 4—figure supplement 1A–D). In addition to direct inhibitors of the BCL-2 family proteins, inhibitors of cyclin-dependent kinase 9 (CDK9) can indirectly target MCL-1 by suppressing the transcriptional activation of MCL-1 mRNAs (Kabir et al., 2019). Indeed, we found that the CDK9 inhibitor BAY-1143572 induced moderate apoptosis in parental cells but induced substantial apoptosis in WSB2-deficient cells (Figure 4K, L).

Collectively, these data indicate that co-targeting WSB2 and anti-apoptotic BCL-2 family proteins triggers synthetic lethality in cancer cells.

The anti-apoptotic function of WSB2 is primarily reliant on NOXA downregulation

To determine whether WSB2’s anti-apoptotic function is mediated primarily through its regulation of NOXA, we knocked down NOXA expression in WSB2-deficient C4-2B and Huh-7 cells using shRNA. Strikingly, reducing NOXA levels largely reversed, though not completely, the substantial apoptosis induced by ABT-737 treatment (Figure 5A, D). Similar effects were observed when cells were treated with the MCL-1 inhibitor AZD5991, where NOXA KD substantially mitigated apoptosis in WSB2-deficient cells (Figure 5E, F). These results underscore the pivotal role of NOXA in mediating the apoptotic sensitivity of cells lacking WSB2.

Figure 5. WSB2 primarily exerts its anti-apoptotic function largely via destabilizing NOXA.

Figure 5.

(A, B) Western blot (WB) analyses of indicated proteins in the WCL from parental or WSB2 KO C4-2B cells infected with lentivirus expressing NOXA-specific short hairpin RNA (shRNA) or NC, treated with DMSO or ABT-737 (20 μM) for 6 hr. (B) Annexin-V-FITC/PI assays were used to stain the harvested cells, of which later flow cytometry analysis was performed. Data are shown as means ± SE (n = 3). (C, D) Similar to (A, B), but AZD5991 (10 μM) was used for treatment in C4-2B cells. (E, F) Similar to (A, B), but Huh-7 cells were treated. (G, H) WB analyses of the indicated proteins in the WCL from Huh-7 cells treated with the cell-penetrating C-terminal NOXA peptide (5 μM) or the corresponding R8 peptide (5 μM) for 12 hr and then the cells were treated with increasing doses of ABT-737 (10 and 20 μM). Annexin-V-FITC/PI assays were used to stain the harvested cells, of which later flow cytometry analysis was performed. Data are shown as means ± SE (n = 3). (I, J) Huh-7 cells were injected subcutaneously (s.c.) into the right flank of BALB/c mice and treated with ABT-737 (30 mg/kg), R8-C-ter (20 mg/kg), or R8 (20 mg/kg) as control at different day points. 6 mice per experimental group. Tumors in each group at day 20 were harvested and photographed (I) and tumor weight (J) was documented. Data are shown as means ± SD (n = 6). p values are calculated by the two-way ANOVA test in (B, D, F, H). n.s., non-significant.

Figure 5—source data 1. Original file for the western blot analysis in Figure 5.
Figure 5—source data 2. Labeled file for the western blot analysis in Figure 5.

We further explored whether NOXA upregulation could enhance sensitivity to BCL-2 inhibitors in cancer cells. Huh-7 cells treated with a cell-penetrating peptide derived from the C-terminal region of NOXA exhibited significantly increased sensitivity to ABT-737 (Figure 5G, H). This effect was dose dependent, with higher concentrations of the peptide correlating with greater accumulation of NOXA protein and higher levels of apoptosis. Importantly, the control peptide had no such effect. To validate these findings in vivo, we conducted xenograft tumor assays. Huh-7 tumors treated with either ABT-737 or the C-terminal NOXA peptide showed moderate reductions in tumor growth. Remarkably, co-administration of ABT-737 and the C-terminal NOXA peptide resulted in synergistic tumor inhibition, demonstrating the potential therapeutic efficacy of targeting the WSB2-NOXA axis in combination with BCL-2 family inhibitors (Figure 5I, J).

Collectively, these data indicate that WSB2 deficiency-induced hypersensitivity to BCL-2 family protein inhibitors was at least in part caused by NOXA accumulation.

Wsb2 knockout mice are more susceptible to apoptosis triggered by Venetoclax

To investigate the physiological role of WSB2 in apoptosis in vivo, we established a Wsb2 knockout mouse model (Figure 6—figure supplement 1A). Homozygous Wsb2−/− mice were observed to be born at Mendelian ratios and exhibited a normal lifespan with no apparent morphological or behavioral abnormalities (Figure 6—figure supplement 1B, C). Although some Wsb2−/− mice displayed reduced body size after birth, their adult size generally matched that of wild-type mice. At week 4, we collected multiple mouse tissues, including heart, liver, lung, kidney, and brain. WB analyses demonstrated varying degrees of upregulation in NOXA proteins in the tissues from Wsb2−/− mice compared to WT littermates. A strong upregulation of NOXA proteins was observed in the liver and heart tissues from Wsb2−/− mice, but not in lung, kidney, and brain tissues, indicating WSB2 modulates NOXA protein levels in a tissue-specific manner. However, the protein levels of caspases 3, 7, and 9 in these tissues were comparable between Wsb2−/− mice and WT littermates (Figure 6—figure supplement 1D). IF and WB analyses of heart and liver tissues revealed that cleaved caspases were nearly undetectable in both Wsb2−/− mice and WT littermates (Figure 6A–E). Consistent with the results from in vitro cell culture, Wsb2 ablation alone was insufficient to induce significant apoptosis in mouse organs.

Figure 6. Validation of the anti-apoptotic function of WSB2 using Wsb2 knockout mouse models.

Western blot (WB) analyses of the indicated proteins in the WCL from heart (A) or liver (B) tissues obtained from Wsb2+/+ and Wsb2−/− mice after gavage administration of vehicle or ABT-199 (100 mg/kg/day) for 7 days. (C) Representative immunofluorescence (IF) images from the heart or liver tissues of Wsb2+/+ and Wsb2−/− mice after oral administration of vehicle or ABT-199 (100 mg/kg/day) for 7 days, and stained with cl-CASP3 and DAPI. Scale bar, 20 μm. The mean fluorescence intensity of cl-CASP3 from the heart (D) or liver tissues (E) obtained from Wsb2+/+ and Wsb2−/− mice. Data were shown as means ± SE (n = 5). (F) WB analyses of the indicated proteins in the WCL from the primary hepatocytes of Wsb2+/+ and Wsb2−/− mice treated with ABT-199 (10 and 20 μM) for 6 hr. (G) The levels of myocardial zymogram in serum from Wsb2+/+ and Wsb2−/− mice after gavage administration of vehicle or ABT-199 (100 mg/kg/day) for 7 days. (H) WB analyses of the indicated proteins in the WCL from Wsb2+/+ and Wsb2−/− mouse embryonic fibroblasts (MEFs) infected with lentivirus expressing NOXA-specific short hairpin RNA (shRNA) or NC, treated with DMSO or ABT-199 (10 and 20 μM) for 6 hr. (I) Annexin-V-FITC/PI assays were used to stain the harvested cells, of which later flow cytometry analysis was performed. Data are shown as means ± SE (n = 3). p values are calculated by the one-way ANOVA test in (G) and two-way ANOVA test in (D, E). n.s., non-significant.

Figure 6—source data 1. Original file for the western blot analysis in Figure 6.
Figure 6—source data 2. Labeled file for the western blot analysis in Figure 6.
Figure 6—source data 3. Original file for the images in Figure 6.

Figure 6.

Figure 6—figure supplement 1. Generation and validation of Wsb2 KO mouse models.

Figure 6—figure supplement 1.

(A) Strategy to generate Wsb2 KO mice using CRISPR/Cas9 methods. (B) Representative images of male Wsb2−/− and matched Wsb2+/+ mice at 3 months of age. (C) Genotyping analysis of offspring from mating between Wsb2 heterozygous mice at P10. p values are calculated by the chi-squared test. (D) Western blot (WB) analyses of the indicated proteins in WCL from the indicated tissues of Wsb2+/+ and Wsb2−/− mice.
Figure 6—figure supplement 1—source data 1. Original file for the western blot analysis in Figure 6—figure supplement 1.
Figure 6—figure supplement 1—source data 2. Labeled file for the western blot analysis in Figure 6—figure supplement 1.
Figure 6—figure supplement 2. WSB2 deficiency enhances the susceptibility of ABT 199-induced apoptosis in the heart and liver tissues of Wsb2−/− mice.

Figure 6—figure supplement 2.

(A) Representative immunofluorescence (IF) images from the heart or liver tissues of Wsb2+/+ and Wsb2−/− mice after oral administration of vehicle or ABT-199 (100 mg/kg/day) for 7 days, and stained with cl-CASP7 and DAPI. Scale bar, 20 μm. The mean fluorescence intensity of cl-CASP7 from the heart (B) or liver tissues (C) obtained from Wsb2+/+ and Wsb2−/− mice. Data were shown as means ± SE (n = 5). (D) Similar to (A), but cl-PARP1 was stained. (E, F) Similar to (B, C), but the mean fluorescence intensity of cl-PARP1 was counted. (G) Similar to (A), but TUNEL was stained. The TUNEL+ cell number in the heart (H) or liver tissues (I) obtained from Wsb2+/+ and Wsb2−/− mice. Data were shown as means ± SE (n = 5). p values are calculated by the two-way ANOVA test in (B, C, E, F, H, I).
Figure 6—figure supplement 2—source data 1. Original file for the images in Figure 6—figure supplement 2.

To evaluate whether pharmacological inhibition of anti-apoptotic BCL-2 family proteins could trigger significant apoptosis in the organs from Wsb2−/− mice, we administered the BCL-2-specific inhibitor ABT-199 (Venetoclax) by oral gavage for 7 days. In the liver and heart tissues of ABT-199-treated Wsb2−/− mice, we detected pronounced apoptosis, as evidenced by increased levels of cleaved caspases, cleaved PARP1, and TUNEL-positive cells, which were absent in WT littermates under the same treatment conditions (Figure 6A–E, Figure 6—figure supplement 2A–I). These findings were corroborated by in vitro experiments, where primary hepatocytes isolated from Wsb2−/− mice exhibited significantly greater susceptibility to ABT-199-induced apoptosis compared to wild-type controls (Figure 6F).

To assess whether the cardiac injury was caused by ABT-199 treatment, we measured the levels of several cardiac enzyme markers, including CK (creatine kinase), CK-MB (creatine kinase isoenzyme MB), α-HBDH (α-hydroxybutyrate dehydrogenase), and LDH (lactate dehydrogenase) in serum. As shown in Figure 6G, ABT-199 administration led to a significant elevation in the levels of these cardiac enzymes in Wsb2−/− mice, whereas no such effect was observed in WT littermates. These results suggest that co-inhibition of WSB2 and BCL-2 exacerbates apoptosis in cardiomyocytes, leading to tissue injury. To investigate whether the anti-apoptotic function of WSB2 is primarily reliant on mouse NOXA, we isolated mouse embryonic fibroblasts (MEFs). NOXA protein levels were markedly upregulated in Wsb2−/− MEFs compared to wild-type controls (Figure 6H). Moreover, reducing the expression of NOXA through shRNA-mediated KD in Wsb2−/− MEFs largely reversed the substantial apoptosis induced by ABT-199 treatment (Figure 6I).

Collectively, these data indicate that WSB2-mediated NOXA destabilization is evolutionarily conserved, and this regulatory axis is critical for maintaining tissue homeostasis.

WSB2 is overexpressed in several human cancer types

To explore the clinical relevance of WSB2, we analyzed its expression across various human cancer types using RNA-sequencing (RNA-seq) data from The Cancer Genome Atlas (TCGA). Remarkably, WSB2 mRNA levels were significantly elevated in multiple cancers, including prostate adenocarcinoma (PRAD) and liver hepatocellular carcinoma (LIHC), compared to corresponding normal tissues (Figure 7A). In PRAD, higher WSB2 expression positively correlated with key clinical parameters such as Gleason score (Figure 7B), pathological stage (Figure 7C), clinical stage (Figure 7D), and nodal metastasis status (Figure 7E). Similarly, in LIHC, increased WSB2 expression was associated with higher clinical stage (Figure 7F), pathological grade (Figure 7G), and nodal metastasis status (Figure 7H). Kaplan–Meier survival analysis revealed that high WSB2 expression was significantly linked to shorter overall survival in LIHC patients, while no such association was observed in PRAD (Figure 7I, J).

Figure 7. WSB2 expression is upregulated in multiple human cancers.

(A) WSB2 mRNA expression in normal and tumor tissues from the The Cancer Genome Atlas (TCGA) cohort. Relationship between WSB2 mRNA expression and Gleason score (B), pathological T stage (C), clinical T stage (D), and nodal metastasis status (E) in prostate adenocarcinoma (PRAD) patients from the TCGA cohort. Relationship between WSB2 mRNA expression and clinical stage (F), pathological grade (G), and nodal metastasis status (H) in liver hepatocellular carcinoma (LIHC) patients from the TCGA cohort. Kaplan–Meier survival plots of overall survival (OS) according to WSB2 mRNA expression in PRAD (I) and LIHC (J) patients from the TCGA cohorts. (K) Representative immunohistochemistry (IHC) staining results for WSB2 in PRAD TMA, scale bar, 50 μm. (L) Quantification analysis of WSB2 IHC staining in PRAD patients by Gleason score categories. n = 84. (M) Representative IHC staining results for WSB2 in LIHC TMA, scale bar, 50 μm. (N) Quantification analysis of WSB2 IHC staining in LIHC patients by tumor grade categories. n = 29. (O) The WSB2 mRNA levels in 81 sorafenib-response and 66 sorafenib-non-response LIHC patients from GSE104580 dataset. (P) The WSB2 mRNA levels in 42 sorafenib-response and 98 sorafenib-non-response LIHC patients from GSE109211 dataset. p values are calculated by the unpaired t test in (A–H, L, N–P) and log-rank test in (I, J). *p<0.05, **p<0.01, ***p<0.001, ****p<0.0001.

Figure 7—source data 1. Original file for the images in Figure 7.

Figure 7.

Figure 7—figure supplement 1. Validation of WSB2 antibody specificity by immunohistochemistry (IHC).

Figure 7—figure supplement 1.

(A) Representative images of WSB2 immunohistochemistry (IHC) staining in Parental and WSB2 KO C4-2B cells. Scale bar, 100 μm.

To validate these findings, we conducted immunohistochemistry (IHC) analysis using a WSB2-specific antibody after confirming its specificity (Figure 7—figure supplement 1A). Notably, IHC analysis of a PRAD tissue microarray revealed a positive correlation between WSB2 protein expression and Gleason score (Figure 7K, L). IHC analysis of an LIHC tissue microarray revealed a positive correlation between WSB2 protein expression and clinical grade (Figure 7M, N). Moreover, analysis of publicly available RNA-seq datasets revealed that WSB2 expression was significantly higher in sorafenib-resistant LIHC patients compared to sorafenib-sensitive patients, further underscoring its role in therapeutic resistance (Figure 7O, P).

Collectively, these data suggest that WSB2 overexpression is a common feature in several aggressive cancers and may contribute to tumor progression, metastasis, and resistance to therapy.

Discussion

The WSB2 protein has been identified in several large-scale proteome mapping analyses as being co-purified from the CUL5 scaffold complex (Huttlin et al., 2017; Bennett et al., 2010). With the presence of a SOCS box in its protein sequence, WSB2 is believed to serve as a receptor for substrates, assisting in their recognition by the CRL5 E3 ubiquitin ligase complex. Its close paralog, WSB1, is induced by hypoxia and can form a CRL5WSB1 complex that promotes cancer metastasis by inducing VHL degradation (Kim et al., 2015). Additionally, the CRL5WSB1 complex overcomes oncogene-induced senescence by targeting ATM for degradation (Kim et al., 2017). However, the physiological substrates of the CRL5WSB2 complex remain poorly understood. Nevertheless, prior to our current study, there are several pieces of evidence suggesting that this complex may play a role in regulating cell death, possibly involving BCL-2 family proteins. In a large-scale RNAi screening aimed at understanding cancer dependencies and synthetic lethal relationships, the top correlates of WSB2 co-essentiality were found to be MCL-1, BCL-2, and MARCH5, while the most strongly anti-correlated gene with WSB2 was BAX (McDonald et al., 2017). Two CRISPR/Cas9 knockout screens also showed strong synthetic relationships between WSB2 and MCL-1, BCL-2, or MARCH5 (DeWeirdt et al., 2020; DeWeirdt et al., 2021). A comprehensive phenotypic CRISPR/Cas9 screen of the ubiquitin pathway revealed that knockout of CUL5, RBX2, or WSB2 resulted in cells becoming hypersensitive to the CRM1 inhibitor leptomycin (Hundley et al., 2021). Furthermore, a genome-wide CRISPR inhibition (CRISPRi) screen conducted in lung cancer cells demonstrated that knockout of CUL5, RBX2, or UBE2F (a specific E2 for CRL5 E3s) caused cells to become hypersensitive to a CDK9 inhibitor or MCL-1 inhibitor (Kabir et al., 2019). By connecting the dots from these studies, our findings provide a comprehensive scenario. We have shown that WSB2 assembles an active CRL5WSB2 complex, which mediates the ubiquitination and proteasomal turnover of NOXA, maintaining its low-level expression under basal conditions. WSB2 deficiency leads to a remarkable accumulation of NOXA, but it alone is not sufficient to trigger spontaneous apoptosis. This is consistent with previous studies showing that enforced expression of NOXA alone is ineffective at triggering apoptosis in various cell types (Akhtar et al., 2006; Shibue et al., 2006). Striking when combined with genetic or pharmacological inhibition of anti-apoptotic BCL-2 family proteins, massive apoptosis occurs in WSB2-deficient cells (Figure 8). However, it is important to note that KD of NOXA expression in WSB2-deficient cells largely, but not completely, reverses the massive apoptosis induced by BCL-2 family protein inhibitors, implying that WSB2 may also modulate apoptosis through other unidentified targets. Indeed, WSB2 interacts with multiple BCL-2 family proteins (MCL-1, BCL-2, BCL-XL, and BAD) (Figure 1F–J). Although WSB2 does not alter their turnover, it is still possible that WSB2 modulates the apoptotic function of these proteins through direct binding. Further investigation is warranted to fully elucidate the molecular mechanisms underlying WSB2-mediated anti-apoptotic function. Lastly, it would also be interesting to explore whether there are any upstream signals capable of overriding WSB2-mediated NOXA destabilization under specific stress conditions.

Figure 8. The schematic diagram illustrates that the disruption of the CRL5WSB2 E3 ubiquitin ligase complex results in NOXA stabilization and increased sensitivity to BCL-2 family protein inhibitors.

Figure 8.

Created using BioRender.com.

In the current study, our focus was primarily on investigating the in vivo anti-apoptotic function of WSB2. Thus, we did not extensively characterize the potential morphological and behavioral abnormalities in Wsb2−/− mice. However, recent large-scale mouse phenotype analyses conducted by the International Mouse Phenotyping Consortium (IMPC) have reported abnormalities in tooth morphology, locomotor activity, retina, heart, osmotic and electrolyte balance, as well as male infertility in Wsb2−/− mice (da Silva-Buttkus et al., 2023). It remains unclear whether these abnormalities are a result of NOXA accumulation and subsequent dysregulated apoptosis. Generating Wsb2/NOXA double knockout mice would be beneficial in determining whether these abnormalities can be reversed by further ablating NOXA expression. Despite the fact that WSB2 is upregulated in various types of cancer and exhibits a strong anti-apoptotic function, which makes it a promising target for cancer therapy, it is crucial to comprehensively understand the downstream substrates regulated by the CRL5WSB2 E3 ligase complex. This insight will help us better evaluate the potential consequences of pharmacologically inhibiting WSB2, considering that such inhibition could disrupt the regulation of additional substrates, potentially resulting in unwanted side effects.

Since its initial discovery as a novel phorbol-12-myristate13-acetate responsive gene in T cells, and subsequently as a transcriptional target of the genotoxic response regulator p53, NOXA has emerged as a critical player in regulating cell death pathways in various cell types under stressed conditions (Ploner et al., 2008). Notably, NOXA is implicated in fine-tuning apoptosis induction in cancer cells treated with genotoxic anticancer drugs, including paclitaxel (a microtubule targeting agent), bortezomib (a proteasome inhibitor), and MLN4924 (a CRL E3 ligase inhibitor) (Ploner et al., 2008). These different agents engage distinct mechanisms, such as transcriptional activation or protein stabilization, to upregulate NOXA protein levels and initiate apoptotic cell death (Ploner et al., 2008). The half-life of NOXA protein was very short, as it undergoes ubiquitin-proteasomal degradation mediated by the addition of ubiquitin to specific lysine residues (Mahrour et al., 2008). In mantle cell lymphoma (MCL) cell lines, despite high NOXA transcript levels, low NOXA protein expression is observed due to rapid protein degradation (Dengler et al., 2014). Similarly, paradoxical downregulation of NOXA protein is observed in Cushing’s disease (CD) adenomas, despite transcriptional upregulation caused by recurrent promoter hypomethylation (Asuzu et al., 2022). These observations suggest that certain tumor cells may exploit pathways to accelerate NOXA degradation, thus suppressing apoptosis. The elevated NOXA mRNA levels observed in tumor cells may potentially serve as a compensatory mechanism to counteract the reduction in NOXA protein levels. Previous studies have only partially characterized the ubiquitin-proteasomal degradation of NOXA, showing that UBE2F, in conjunction with RBX2, induces CUL5 neddylation, leading to CRL5 E3 activation and subsequent NOXA degradation (Kabir et al., 2019). In lung cancer tissues, high levels of UBE2F and CUL5 correlate with reduced NOXA levels and poorer survival in patients. However, the specific CRL5 substrate receptor responsible for NOXA destabilization has yet to be identified (Zhou et al., 2017). In our study, we identified WSB2 as the substrate receptor for NOXA, thereby shedding light on its role in regulating NOXA turnover. Further investigation is needed to determine whether WSB2 dysregulation is responsible for the accelerated protein turnover observed in various cancer types, such as MCL and CD adenomas. It should also be noted that WSB2 only facilitates NOXA destabilization in certain tissues/organs, such as heart and liver, in mouse models. It is not surprising that a specific substrate can be targeted by multiple E3 ubiquitin ligases. A previous study has indicated that treatment with a proteasome inhibitor could further increase NOXA protein levels in CUL5 knockout cells, suggesting that the turnover of NOXA can be regulated by additional ubiquitin ligases apart from the CRL5 E3s (Kabir et al., 2019). In fact, the RING domain-containing E3 ubiquitin ligases MARCH5 have been reported to mediate NOXA degradation (Nakao et al., 2023; Djajawi et al., 2020; Haschka et al., 2020; Subramanian et al., 2016; Arai et al., 2020). Further investigation is needed to determine which E3 ubiquitin ligase(s) play the predominant roles in specific tissues/organs or types of cancer.

Although bortezomib and MLN4924 have proven effective in stabilizing the NOXA protein and promoting NOXA-dependent apoptosis, their broad inhibition of the proteasome or all CRL E3 ligases, respectively, inevitably leads to side effects. In this study, we have conducted preliminary investigations on the use of a competitive peptide to effectively inhibit the binding of WSB2 and NOXA, resulting in the accumulation of NOXA proteins and increased sensitivity to ABT-737. In the future, other potential therapeutic strategies can be explored, such as designing PROTAC molecules specifically for degrading WSB2 or developing small molecules to disrupt the interaction between WSB2 and NOXA. Extensive research is needed to determine the safety and efficacy of these approaches in preclinical cancer models.

Materials and methods

Acquisition and analysis of DepMap and drug sensitivity datasets

Gene co-dependencies were determined using the Achilles datasets (https://depmap.org/portal/). The Achilles dataset contains dependency scores from genome-scale essentiality screens scores of 789 cell lines. As a measure of co-dependency, the Pearson’s correlation coefficient of essentiality scores was computed for all gene pairs. GO analysis for the top 500 genes co-dependent with WSB2 was performed using PANTHER to search enriched biological processes and pathways. Co-essential module assignments of cellular component: Bcl-2 family protein complex was obtained from a previously published dataset (Gene co-dependency, https://mitra.stanford.edu/bassik/michael/cluster_heatmaps/; Wainberg et al., 2021). To identify genetic and pharmacologic perturbations that induce similar effects on cell viability, a Web tool, DepLink (https://shiny.crc.pitt.edu/deplink/), was used (Nayak et al., 2023).

Cell line, cell culture, transfection, and lentiviral infection

293T, HeLa, C4-2B, and Huh-7 cells were obtained from the American Type Culture Collection (ATCC). 293T, HeLa, and Huh-7 cells were maintained in Dulbecco’s modified Eagle’s medium (DMEM) supplemented with 10% fetal bovine serum (FBS). C4-2B cells were maintained in RPMI1640 medium supplemented with 10% FBS. We routinely perform DNA fingerprinting and PCR to verify the authenticity of the cell lines and to ensure they are free of mycoplasma infection. We conducted transient transfection using EZ Trans (Shanghai Life-iLab Biotech). For lentiviral transfection, we transfected pLKO shRNA KD and virus-packing constructs into 293T cells. The viral supernatant was collected after 48 hr. The cells were then infected with the viral supernatant in the presence of polybrene (8 µg/ml) and selected in growth media containing puromycin (1.5 μg/ml). The gene-specific shRNA or siRNA sequences can be found in Supplementary file 4.

Antibodies, chemicals, and kits

The information on antibodies, chemicals, and kits used in this study is listed in Appendix 1—key resources table.

Plasmid construction

The plasmids used for transient overexpression were constructed using the pCMV-FLAG/Myc vector (Clontech). Point and deletion mutants were engineered utilizing the KOD-Plus-Mutagenesis Kit (TOYOBO) following the manufacturer’s instructions. sgRNAs targeting WSB2 (https://crispor.gi.ucsc.edu) were subcloned into the pSpCas9(BB)-2A-Puro (PX459) vector for gene knockout (KO). shRNAs targeting WSB2 or BCL-2 family proteins were subcloned into the pLKO.1 puro vector (Addgene) for gene KD. The sequences of gene-specific sgRNAs and shRNAs are listed in Supplementary file 4.

Isolation of nucleic, cytoplasmic, and mitochondrial fractions

HeLa cells were prepared for nuclear, cytoplasmic, and mitochondrial extraction by density-gradient centrifugation. Briefly, HeLa cells were washed three times with PBS. Then the cells are suspended by using hypotonic solution (140 mM KCl, 10 mM EDTA, 5 mM MgCl2, 20  mM HEPES (pH 7.4), and the protease inhibitor). Then 5 × 106 HeLa cells were ground with a glass homogenizer in an ice bath for 25 strokes. Nuclear, cytoplasmic, and mitochondrial fractions were separated through differential centrifugation (800 × g, 10  min, 4°C and 12,000 × g, 35 min, 4°C). The supernatant (cytoplasmic fraction) and pellet (mitochondrial fraction) were collected, and the pellet was further washed with wash buffer (800 mM KCl, 10 mM EDTA, 5 mM MgCl2, and 20 mM HEPES (pH 7.4), and the protease inhibitor) three times and yielded the final mitochondrial fraction. To confirm that pure extracts were obtained, the mitochondrial, nuclear, and cytoplasmic fractions were separated by SDS–PAGE, and the presence of mitochondrial VDAC1, BCL2, nuclear Histone H3, and cytoplasmic GAPDH was detected by immunoblot.

Isolation of submitochondrial fractions

Six mitochondrial fraction samples were divided into three groups, with two samples in each group. The first group was resuspended in 300 μl of homogenization buffer, the second group in 300 μl of hypotonic swelling buffer (10 mM HEPES/KOH, pH 7.4, 1 mM EDTA), and the third group in 300 μl of homogenization buffer supplemented with 0.5% (vol/vol) Triton X-100, followed by a 10-min incubation on ice. Subsequently, one sample from each group was exposed to proteinase K (70 μg/ml) for 20 min on ice, while the other sample was kept untreated as a control. Following the treatments, mitochondrial proteins were precipitated using 300 μl of 30% TCA (wt/vol) and incubated on ice for 10 min. The proteins were collected by centrifugation at 18,000 × g for 10  min at 4°C, washed with 1 ml of 100% ethanol, and centrifuged again. The resulting pellets were dissolved in 100 μl of SDS Lysis Buffer, boiled at 105°C for 8 min, and subjected to WB analyses.

CRISPR/Cas9-mediated gene KO cell lines

C4-2B or Huh-7 cells were plated and transfected with PX459 plasmids overnight. 24 hr after transfection, 1 μg/ml puromycin was used to screen cells for 3 days. Living cells were seeded in a 96-well plate by limited dilution to isolate a monoclonal cell line. The knockout cell clones are screened by WB and validated by Sanger sequencing. Sequences of gene-specific sgRNAs are listed in Supplementary file 4.

RT-qPCR assays

Total RNA from cells was extracted by using TRIzol reagent (TIANGEN), followed by reverse transcription into cDNA using the HiScript III First Strand cDNA Synthesis Kit (Vazyme). The synthesized cDNAs were then subjected to PCR amplification using ChamQ SYBR qPCR Master Mix (Vazyme) in CFX Real-Time PCR system (Bio-Rad). The relative mRNA levels of NOXA were quantified using the 2−ΔΔCT method with normalization to GAPDH. The primer sequences are listed in Supplementary file 4.

In vivo ubiquitination assay I

293T cells were transfected with HA-ubiquitin and indicated constructs. After 36 hr, cells were treated with MG132 (30 μM) for 6 hr and then lysed in 1% SDS buffer (Tris [pH 7.5], 0.5 mM EDTA, 1 mM DTT) and boiled for 10 min. For immunoprecipitation, the cell lysates were diluted 10-fold in Tris-HCl buffer and incubated with anti-NOXA or IgG-conjugated beads (Sigma) for 4 hr at 4°C. The bound beads are then washed four times with BC100 buffer (20 mM Tris-HCl, pH 7.9,100 mM NaCl, 0.2 mM EDTA, 20% glycerol) containing 0.2% Triton X-100. The proteins were eluted with FLAG peptide for 2 hr at 4°C. The ubiquitinated form of NOXA was detected by WB using anti-HA antibody.

In vivo ubiquitination assay II

293T cells were co-transfected with (His)6-tagged ubiquitin and the indicated constructs. After 24 hr, cells were lysed in buffer A (6 M guanidine-HCl, 0.1 M Na2HPO4/NaH2PO4, 10 mM imidazole (pH 8.0)). After sonication, the cell lysates were incubated with Ni–NTA beads (QIAGEN) for 3 hr at room temperature (RT). Subsequently, the pull-down products were washed once with buffer A, twice with buffer A/TI (buffer A:buffer TI = 1:3), and once with buffer TI (25 mM Tris-HCl and 20 mM imidazole; (pH 6.8)). Pull-down proteins and WCL were detected by WB.

IF and confocal microscopy

HeLa cells were seeded on glass coverslips in 12-well plates and harvested at 70% confluence. The cells were washed with PBS and fixed with 4% paraformaldehyde in PBS. After permeabilization with 0.3% Triton X-100 for 5 min and then in the blocking solution (PBS plus 5% donkey serum), for 1 hr at RT. The cells were then incubated with primary antibodies at 4°C overnight. After washing with PBST buffer, fluorescence-labeled secondary antibodies were applied. DAPI was utilized to stain nuclei. The glass coverslips were mounted on slides and imaged using a confocal microscope (LSM880, Zeiss) with a 63×/1.4 NA Oil PSF Objective. Quantitative analyses were performed using ImageJ software.

For mouse tissues staining, the mouse tissues were isolated from mice after perfusion with 0.1 M PBS (pH 7.4) and fixed for 3 days with 4% PFA at 4°C. The tumor tissues were then placed in a 30% sucrose solution for 5 days for dehydration. The tumors were embedded into the OCT block and frozen for cryostat sectioning. Cryostat sections (45 μm thick) were washed with PBS, and then incubated in blocking solution (PBS containing 10% goat serum, 0.3% Triton X-100, pH 7.4) for 2 h at RT. The samples were stained with primary antibodies overnight at 4°C, after washing with PBST buffer, fluorescence-labeled secondary antibodies were applied at RT for 2 hr. DAPI was utilized to stain nuclei. The sections were then sealed with an anti-fluorescence quencher. The samples were visualized and imaged using a confocal microscope (LSM880, Zeiss) with a 63×/1.4 NA Oil PSF Objective. Quantitative analyses were performed using ImageJ software.

Apoptosis assays

Annexin V-FITC (fluorescein isothiocyanate) and propidium iodide (PI) double staining (Dojindo) were used to detect the apoptosis rates. The cells were cultured in 6-well plates at a density of 1.2 × 105/well and allowed to adhere to the culture plate overnight. Then the medium was replaced with fresh medium containing indicated drugs for a certain time. The cells were then trypsinized by EDTA-free trypsin and washed twice with cold PBS. Aliquots of the cells were resuspended in 100 µl of binding buffer and stained with 5 µl of annexin V-FITC and 5 µl of PI working solution for 15 min at RT in the dark. All flow cytometry analyses were carried out using a Fortessa flow cytometer (BD Bioscience). The subsequent data analysis was conducted using FlowJo software.

Generation and breeding of Wsb2 KO mice

Mice with murine Wsb2 KO were designed and generated from Shanghai Model Organisms Center (Shanghai, China). In brief, the CRISPR/Cas9 system was microinjected into the fertilized eggs of C57BL/6JGpt mice. Fertilized eggs were transplanted to obtain positive F0 mice, which were confirmed by PCR and sequencing. A stable F1 generation mouse model was obtained by mating positive F0 generation mice with C57BL/6JGpt mice. The genotype of F1 mice was identified by PCR and confirmed by sequencing. The sequences used for CRISPR-Cas9 editing and the primers used for genotyping are listed in Supplementary file 4.

Mice were maintained under a 12 hr/12 hr light/dark cycle at 22–25°C and 40–50% humidity with standard food and water available ad libitum. All procedures for animal care and animal experiments were carried out in accordance with the guidelines of the Care and Use of Laboratory Animals proposed by the Institute of Development Biology and Molecular Medicine and Shanghai Municipality, PR China. The male C57BL/6JGpt mice (8 months old) were divided into 2 groups (Wsb2+/+ and Wsb2−/−; n = 5/group), and each group was given by gavage of ABT-199 (100 mg/kg/day) or vehicle (10% β-cyclodextrin) for 1 week. Then, we collect blood samples from the tail vein of mice before and after oral administration to measure indicators of myocardial zymogram using an Olympus AU640 automatic biochemical analyzer (Olympus).

MEFs generation and immortalization

Timed pregnant female mice at embryonic days 12.5–14.5 were sacrificed, and the embryos were carefully dissected to remove the cerebrum, internal organs, and limbs. The remaining tissues were cut into small pieces and treated with trypsin-EDTA (0.25%) for 10 min at 37°C. The trypsin was neutralized with DMEM, a complete medium supplemented with 10% FBS and 1% penicillin/streptomycin. The culture media were changed every 2–3 days until the cells reached confluence. To immortalize MEFs, they were passaged up to approximately 10 times before infection with lentiviral vectors expressing the SV40 large T-antigen. Stable transduction was achieved with puromycin selection. The successful integration of the immortalizing gene was confirmed through Sanger sequencing and WB analysis.

Mouse tumor implantation

All experimental protocols were approved in advance by the Ethics Review Committee for Animal Experimentation of Fudan University. Four- to six-week-old male BALB/c nu/nu mice obtained from SLAC Laboratory Animal Co, Ltd were bred and maintained in our institutional pathogen-free mouse facilities. Mice were randomly divided into four groups (n = 6/group): vehicle (distilled water); ABT-737 (20 mg/kg); R8-C-ter (20 mg/kg); and ABT-737+R8-C-ter. Huh-7 tumors were established by subcutaneously injecting 5 × 106 Huh-7 cells in 100 μl of PBS buffer into the right flank of 6-week-old nude mice. After 1 week, vehicle and indicated drug treatments were administered once daily by intraperitoneal injection (i.p). At the end of 3 weeks, mice were killed and in vivo solid tumors were dissected and weighed.

Pan-cancer dataset acquisition and analysis

Pan-cancer gene expression analysis based on tumor and normal samples was derived from the TCGA (transcriptome datasets, http://gepia2.cancer-pku.cn/). Public databases (TCGA) were used to analyze the correlations of WSB2 expression with clinical risk factors. Additional publicly available RNA-seq datasets (GSE104580 and GSE109211) provided for sorafenib-response and sorafenib-non-response HCC patients.

IHC analysis

A total of 84 patients with localized PRAD, who underwent radical prostatectomy between January 2007 and July 2014 at Fudan University Shanghai Cancer Center (FUSCC), were included in this study. All the patients underwent regular postoperative reviews and had long-term follow-up data. This study was in accordance with the recommendations of the Research Ethics Committee of FUSCC according to the provisions of the Declaration of Helsinki (as revised in Fortaleza, Brazil, October 2013). The protocol was approved by the Research Ethics Committee of FUSCC. Informed consent for the use of clinical data was obtained from all the patients recruited in this study. The TMA consists of 29 LIHC patient specimens obtained from Shanghai Biochip Co, Ltd (Shanghai). To confirm the specificity of the anti-WSB2 antibody, we conducted genetic control for the IHC analysis using an anti-WSB2 antibody in both parental and WSB2 KO C4-2B cells.

Statistical analysis

Statistical analysis was performed using GraphPad Prism (GraphPad Software), and the differences between the two groups were analyzed using one-way analysis of variance (ANOVA) or two-way ANOVA. All data were displayed as means ± SE values for experiments conducted with at least three replicates. * represents p < 0.05; ** represents p < 0.01; *** represents p < 0.001, **** represents p < 0.0001.

Acknowledgements

This work was in part supported by the National Natural Science Foundation of China (Nos. 92357301, 32370726, and 91957125 to CW; 82272992, 91954106, and 81872109 to KG; 82270415 to LW; 81902614 to KC), the State Key Development Programs of China (No. 2022YFA1104200 to CW), the Natural Science Foundation of Shanghai (No. 22ZR1406600 to CW; 22ZR1449200 to KG, 22ZR1448600 to YX), Science and Technology Research Program of Shanghai (No. 9DZ2282100); Open Research Fund of the State Key Laboratory of Genetics and Development of Complex Phenotypes, Fudan University (No. SKLGE-2111 to KG), Science and Technology Research Program of Shanghai (No. 9DZ2282100), Central Guidance on Local Science and Technology Development Foundation (No. 2021ZY0037 to RM), and China Postdoctoral Science Foundation (No. GZC20240296 to YJC).

Appendix 1

Appendix 1—key resources table.

Reagent type (species) or resource Designation Source or reference Identifiers Additional information
Antibody anti-WSB2 (Rabbit polyclonal) Abclonal Cat# WG-05341D, RRID:AB_3674706 IHC(1:200) WB(1:1000)
Antibody anti-CUL5 (Rabbit polyclonal) Abclonal Cat# A5369 RRID:AB_2766179 WB(1:1000)
Antibody anti-RBX2 (Rabbit polyclonal) Proteintech Cat# 11905–1-AP RRID:AB_10697836 WB(1:1000)
Antibody anti-ELOB (Rabbit polyclonal) Abclonal Cat# A5362 RRID:AB_2766172 WB(1:1000)
Antibody anti-ELOC (Rabbit polyclonal) Abclonal Cat# A12515 RRID:AB_2759355 WB(1:1000)
Antibody anti-NOXA (Rabbit monoclonal) CST Cat# 14766 S RRID:AB_2798602 WB(1:1000)
Antibody anti-Noxa (Rabbit monoclonal) SANTA CRUZ Cat# sc-56169 RRID:AB_784877 WB(1:1000)
Antibody anti-BAX (Rabbit monoclonal) Abclonal Cat# A19684 RRID:AB_2862733 WB(1:1000)
Antibody anti-BAK1 (Rabbit monoclonal) Abclonal Cat# A10754 RRID:AB_2758197 WB(1:1000)
Antibody anti-MCL-1 (Rabbit polyclonal) Proteintech Cat# 16225–1-AP RRID:AB_2143977 WB(1:1000)
Antibody anti-BCL-2 (Rabbit monoclonal) CST Cat# 4223T RRID:AB_1903909 WB(1:1000)
Antibody anti-BCL-W (Rabbit polyclonal) Abclonal Cat# A13471 RRID:AB_2760333 WB(1:1000)
Antibody anti-BCL-XL (Rabbit monoclonal) Abclonal Cat# A19703 RRID:AB_2862745 WB(1:1000)
Antibody anti-BAD (Rabbit monoclonal) Abclonal Cat# A19595 RRID:AB_2862688 WB(1:1000)
Antibody anti-MARCH5 (Rabbit polyclonal) Proteintech Cat# 12213–1-AP RRID:AB_10638602 WB(1:1000)
Antibody anti-TOM70 (Rabbit monoclonal) CST Cat# 65,619T RRID:AB_3411916 WB(1:1000)
Antibody anti-SMAC (Rabbit monoclonal) CST Cat# 15,108T RRID:AB_2798711 WB(1:1000)
Antibody anti-HSP60 (Rabbit monoclonal) CST Cat# 12,165T RRID:AB_2636980 WB(1:1000)
Antibody anti-Histone H3 (Rabbit polyclonal) CST Cat# 9715 S RRID:AB_331563 WB(1:1000)
Antibody anti-cleaved PARP1 (Rabbit monoclonal) CST Cat# 5625T RRID:AB_10699459 IF(1:200)
Antibody anti-CASP9 (Rabbit polyclonal) CST Cat# 9502 S RRID:AB_2068621 WB(1:1000)
Antibody anti-CASP7 (Rabbit polyclonal) CST Cat# 9492 S RRID:AB_2228313 WB(1:1000)
Antibody anti-cleaved CASP7 (Rabbit monoclonal) CST Cat# 8438 S RRID:AB_11178377 IF(1:200)
Antibody anti-CASP3 (Rabbit monoclonal) CST Cat# 9668 S RRID:AB_2069870 WB(1:1000)
Antibody anti-cleaved CASP3 (Rabbit monoclonal) CST Cat# 9664 S RRID:AB_2070042 IF(1:200) WB(1:1000)
Antibody anti-GFP (Mouse monoclonal) Abclonal Cat# AE012 RRID:AB_2770402 WB(1:1000)
Antibody anti-FLAG (Mouse polyclonal) MBL Cat# PM020 RRID:AB_591224 WB(1:1000)
Antibody anti-Myc (Mouse monoclonal) MBL Cat# M192-3 RRID:AB_11160947 WB(1:1000)
Antibody anti-HA (Mouse monoclonal) MBL Cat# M180-3 RRID:AB_10951811 WB(1:1000)
Antibody anti-GAPDH (Mouse monoclonal) Abcam Cat# ab8245 RRID:AB_2107448 WB(1:1000)
Antibody anti-β-Actin (Rabbit monoclonal) Abclonal Cat# AC026 RRID:AB_2768234 WB(1:1000)
Peptide, recombinant protein FLAG peptide ChinaPeptides Cat# 04010006736
Peptide, recombinant protein Penicillin-Streptomycin Invitrogen Cat# 15070063
Commercial assay or kit KOD-Plus-Mutagenesis Kit TOYOBO Cat# SMK-101
Commercial assay or kit Annexin V-FITC Apoptosis Detection Kit Dojindo Cat# AD10
Commercial assay or kit TUNEL staining Kit Beyotime Cat# C1086
Chemical compound, drug L-Glutamine Gibco Cat# 25030149
Chemical compound, drug MG132 Selleckchem Cat# S2619
Chemical compound, drug ABT-737 MCE Cat# HY-50907
Chemical compound, drug ABT-199 MCE Cat# HY-15531
Chemical compound, drug BAY-1143572 Selleck Cat# S8727
Chemical compound, drug AZD5991 Selleck Cat# S8643
Chemical compound, drug Cycloheximide Sigma Cat# 66-81-9
Chemical compound, drug Puromycin Sigma Cat# P8833
Chemical compound, drug Protease Inhibitor Cocktail (EDTA-Free, 100 X in DMSO) Selleck Cat# B14001
Chemical compound, drug Trizol Thermo Fisher Cat# 14496026
Chemical compound, drug EZ Trans Shanghai Life-iLab Biotech Cat# AC04L092
Chemical compound, drug EndoFectinTM-MAX iGeneBio Cat# EF013
Chemical compound, drug ChamQ SYBR qPCR Master Mix Vazyme Biotech Cat# Q311
Chemical compound, drug Phanta Max Super-Fidelity DNA Polymerase Vazyme Biotech Cat# P505
Chemical compound, drug Anti-FLAG M2 Sigma Cat# SLCD1942

Funding Statement

The funders had no role in study design, data collection, and interpretation, or the decision to submit the work for publication.

Contributor Information

Yaoting Xu, Email: 2000019@tongji.edu.cn.

Lixin Wang, Email: wang.lixin@zs-hospital.sh.cn.

Chenji Wang, Email: Chenjiwang@fudan.edu.cn.

Agnieszka Chacinska, IMol Polish Academy of Sciences, Poland.

Jonathan A Cooper, Fred Hutchinson Cancer Research Center, United States.

Funding Information

This paper was supported by the following grants:

  • National Natural Science Foundation of China 92357301 to Chenji Wang.

  • National Natural Science Foundation of China 32370726 to Chenji Wang.

  • National Natural Science Foundation of China 91957125 to Chenji Wang.

  • National Natural Science Foundation of China 82272992 to Kun Gao.

  • National Natural Science Foundation of China 82270415 to Lixin Wang.

  • National Natural Science Foundation of China 91954106 to Kun Gao.

  • National Natural Science Foundation of China 81872109 to Kun Gao.

  • National Natural Science Foundation of China 81902614 to Kun Chang.

  • State Key Development Programs of China 2022YFA1104200 to Chenji Wang.

  • Natural Science Foundation of Shanghai Municipality 22ZR1406600 to Chenji Wang.

  • Natural Science Foundation of Shanghai Municipality 22ZR1449200 to Kun Gao.

  • Natural Science Foundation of Shanghai Municipality 22ZR1448600 to Yaoting Xu.

  • Science and Technology Research Program of Shanghai 9DZ2282100 to Chenji Wang.

  • Open Research Fund of the State Key Laboratory of Genetics and Development of Complex Phenotypes SKLGE-2111 to Kun Gao.

  • Central Guidance on Local Science and Technology Development Foundation 2021ZY0037 to Mo Ren.

  • China Postdoctoral Science Foundation GZC20240296 to Yingji Chen.

Additional information

Competing interests

No competing interests declared.

Author contributions

Data curation, Validation, Investigation, Visualization, Writing - original draft.

Validation, Investigation, Methodology.

Investigation.

Investigation.

Investigation.

Investigation.

Supervision, Funding acquisition, Investigation, Writing - original draft.

Funding acquisition, Investigation, Project administration, Resources.

Supervision, Methodology, Project administration.

Conceptualization, Resources, Data curation, Supervision, Funding acquisition, Investigation, Visualization, Methodology, Writing - original draft, Project administration, Writing - review and editing.

Ethics

This study was in accordance with the recommendations of the Research Ethics Committee of FUSCC according to the provisions of the Declaration of Helsinki (as revised in Fortaleza, Brazil, October 2013). The protocol was approved by the Research Ethics Committee of FUSCC. Informed consent for the use of clinical data was obtained from all the patients recruited in this study.

All procedures for animal care and animal experiments were carried out in accordance with the guidelines of the Care and Use of Laboratory Animals proposed by Fudan University (Permit Number: IDM2024050).

Additional files

Supplementary file 1. Top 100 co-dependent genes of WSB2.
elife-98372-supp1.xlsx (13.4KB, xlsx)
Supplementary file 2. The GO analysis of the top 500 co-dependent genes of WSB2.
elife-98372-supp2.xlsx (27.7KB, xlsx)
Supplementary file 3. The DepLink analysis of top correlated drugs with WSB2.
elife-98372-supp3.xlsx (12KB, xlsx)
Supplementary file 4. Sequence information.
elife-98372-supp4.xlsx (12.8KB, xlsx)
MDAR checklist

Data availability

All data generated or analysed during this study are included in the manuscript and supporting files.

The following previously published datasets were used:

Pinyol R, Montal RR, Moeini AA, Llovet JM. 2020. Using a novel gene signature for predicting the efficacy of the transarterial chemoembolization in patients with hepatocellular carcinoma. NCBI Gene Expression Omnibus. GSE104580

Hui KM, Shi M. 2018. Molecular predictors of prevention of recurrence in hepatocellular carcinoma with sorafenib as adjuvant treatment in the phase 3 STORM trial. NCBI Gene Expression Omnibus. GSE109211

Wainberg M, Kamber RA, Balsubramani A, Meyers RM, Sinnott-Armstrong N, Hornburg D, Jiang L, Chan J, Jian R, Gu M, Shcherbina A, Dubreuil MM, Spees K, Meuleman W, Snyder MP, Bassik MC, Kundaje A. 2019. Molecular predictors of prevention of recurrence in hepatocellular carcinoma with sorafenib as adjuvant treatment in the phase 3 STORM trial. mitra.stanford.edu. module#528

References

  1. Akhtar RS, Geng Y, Klocke BJ, Latham CB, Villunger A, Michalak EM, Strasser A, Carroll SL, Roth KA. BH3-only proapoptotic Bcl-2 family members Noxa and Puma mediate neural precursor cell death. The Journal of Neuroscience. 2006;26:7257–7264. doi: 10.1523/JNEUROSCI.0196-06.2006. [DOI] [PMC free article] [PubMed] [Google Scholar]
  2. Arai S, Varkaris A, Nouri M, Chen S, Xie L, Balk SP. MARCH5 mediates NOXA-dependent MCL1 degradation driven by kinase inhibitors and integrated stress response activation. eLife. 2020;9:e54954. doi: 10.7554/eLife.54954. [DOI] [PMC free article] [PubMed] [Google Scholar]
  3. Asuzu DT, Alvarez R, Fletcher PA, Mandal D, Johnson K, Wu W, Elkahloun A, Clavijo P, Allen C, Maric D, Ray-Chaudhury A, Rajan S, Abdullaev Z, Nwokoye D, Aldape K, Nieman LK, Stratakis C, Stojilkovic SS, Chittiboina P. Pituitary adenomas evade apoptosis via noxa deregulation in Cushing’s disease. Cell Reports. 2022;40:111223. doi: 10.1016/j.celrep.2022.111223. [DOI] [PMC free article] [PubMed] [Google Scholar]
  4. Bayraktar EC, La K, Karpman K, Unlu G, Ozerdem C, Ritter DJ, Alwaseem H, Molina H, Hoffmann H-H, Millner A, Atilla-Gokcumen GE, Gamazon ER, Rushing AR, Knapik EW, Basu S, Birsoy K. Metabolic coessentiality mapping identifies C12orf49 as a regulator of SREBP processing and cholesterol metabolism. Nature Metabolism. 2020;2:487–498. doi: 10.1038/s42255-020-0206-9. [DOI] [PMC free article] [PubMed] [Google Scholar]
  5. Bennett EJ, Rush J, Gygi SP, Harper JW. Dynamics of cullin-RING ubiquitin ligase network revealed by systematic quantitative proteomics. Cell. 2010;143:951–965. doi: 10.1016/j.cell.2010.11.017. [DOI] [PMC free article] [PubMed] [Google Scholar]
  6. Carneiro BA, El-Deiry WS. Targeting apoptosis in cancer therapy. Nature Reviews. Clinical Oncology. 2020;17:395–417. doi: 10.1038/s41571-020-0341-y. [DOI] [PMC free article] [PubMed] [Google Scholar]
  7. Corsello SM, Nagari RT, Spangler RD, Rossen J, Kocak M, Bryan JG, Humeidi R, Peck D, Wu X, Tang AA, Wang VM, Bender SA, Lemire E, Narayan R, Montgomery P, Ben-David U, Garvie CW, Chen Y, Rees MG, Lyons NJ, McFarland JM, Wong BT, Wang L, Dumont N, O’Hearn PJ, Stefan E, Doench JG, Harrington CN, Greulich H, Meyerson M, Vazquez F, Subramanian A, Roth JA, Bittker JA, Boehm JS, Mader CC, Tsherniak A, Golub TR. Discovering the anti-cancer potential of non-oncology drugs by systematic viability profiling. Nature Cancer. 2020;1:235–248. doi: 10.1038/s43018-019-0018-6. [DOI] [PMC free article] [PubMed] [Google Scholar]
  8. Cory S, Roberts AW, Colman PM, Adams JM. Targeting BCL-2-like Proteins to Kill Cancer Cells. Trends in Cancer. 2016;2:443–460. doi: 10.1016/j.trecan.2016.07.001. [DOI] [PubMed] [Google Scholar]
  9. da Silva-Buttkus P, Spielmann N, Klein-Rodewald T, Schütt C, Aguilar-Pimentel A, Amarie OV, Becker L, Calzada-Wack J, Garrett L, Gerlini R, Kraiger M, Leuchtenberger S, Östereicher MA, Rathkolb B, Sanz-Moreno A, Stöger C, Hölter SM, Seisenberger C, Marschall S, Fuchs H, Gailus-Durner V, Hrabě de Angelis M. Knockout mouse models as a resource for the study of rare diseases. Mammalian Genome. 2023;34:244–261. doi: 10.1007/s00335-023-09986-z. [DOI] [PMC free article] [PubMed] [Google Scholar]
  10. Dengler MA, Weilbacher A, Gutekunst M, Staiger AM, Vöhringer MC, Horn H, Ott G, Aulitzky WE, van der Kuip H. Discrepant NOXA (PMAIP1) transcript and NOXA protein levels: a potential Achilles’ heel in mantle cell lymphoma. Cell Death & Disease. 2014;5:e1013. doi: 10.1038/cddis.2013.552. [DOI] [PMC free article] [PubMed] [Google Scholar]
  11. DeWeirdt PC, Sangree AK, Hanna RE, Sanson KR, Hegde M, Strand C, Persky NS, Doench JG. Genetic screens in isogenic mammalian cell lines without single cell cloning. Nature Communications. 2020;11:752. doi: 10.1038/s41467-020-14620-6. [DOI] [PMC free article] [PubMed] [Google Scholar]
  12. DeWeirdt PC, Sanson KR, Sangree AK, Hegde M, Hanna RE, Feeley MN, Griffith AL, Teng T, Borys SM, Strand C, Joung JK, Kleinstiver BP, Pan X, Huang A, Doench JG. Optimization of AsCas12a for combinatorial genetic screens in human cells. Nature Biotechnology. 2021;39:94–104. doi: 10.1038/s41587-020-0600-6. [DOI] [PMC free article] [PubMed] [Google Scholar]
  13. DiNardo CD, Jonas BA, Pullarkat V, Thirman MJ, Garcia JS, Wei AH, Konopleva M, Döhner H, Letai A, Fenaux P, Koller E, Havelange V, Leber B, Esteve J, Wang J, Pejsa V, Hájek R, Porkka K, Illés Á, Lavie D, Lemoli RM, Yamamoto K, Yoon SS, Jang JH, Yeh SP, Turgut M, Hong WJ, Zhou Y, Potluri J, Pratz KW. Azacitidine and venetoclax in previously untreated acute myeloid leukemia. The New England Journal of Medicine. 2020;383:617–629. doi: 10.1056/NEJMoa2012971. [DOI] [PubMed] [Google Scholar]
  14. Djajawi TM, Liu L, Gong J-N, Huang AS, Luo M-J, Xu Z, Okamoto T, Call MJ, Huang DCS, van Delft MF. MARCH5 requires MTCH2 to coordinate proteasomal turnover of the MCL1:NOXA complex. Cell Death and Differentiation. 2020;27:2484–2499. doi: 10.1038/s41418-020-0517-0. [DOI] [PMC free article] [PubMed] [Google Scholar]
  15. Hanahan D, Weinberg RA. Hallmarks of cancer: the next generation. Cell. 2011;144:646–674. doi: 10.1016/j.cell.2011.02.013. [DOI] [PubMed] [Google Scholar]
  16. Haschka MD, Karbon G, Soratroi C, O’Neill KL, Luo X, Villunger A. MARCH5-dependent degradation of MCL1/NOXA complexes defines susceptibility to antimitotic drug treatment. Cell Death and Differentiation. 2020;27:2297–2312. doi: 10.1038/s41418-020-0503-6. [DOI] [PMC free article] [PubMed] [Google Scholar]
  17. Hundley FV, Sanvisens Delgado N, Marin HC, Carr KL, Tian R, Toczyski DP. A comprehensive phenotypic CRISPR-Cas9 screen of the ubiquitin pathway uncovers roles of ubiquitin ligases in mitosis. Molecular Cell. 2021;81:1319–1336. doi: 10.1016/j.molcel.2021.01.014. [DOI] [PubMed] [Google Scholar]
  18. Huttlin EL, Bruckner RJ, Paulo JA, Cannon JR, Ting L, Baltier K, Colby G, Gebreab F, Gygi MP, Parzen H, Szpyt J, Tam S, Zarraga G, Pontano-Vaites L, Swarup S, White AE, Schweppe DK, Rad R, Erickson BK, Obar RA, Guruharsha KG, Li K, Artavanis-Tsakonas S, Gygi SP, Harper JW. Architecture of the human interactome defines protein communities and disease networks. Nature. 2017;545:505–509. doi: 10.1038/nature22366. [DOI] [PMC free article] [PubMed] [Google Scholar]
  19. Iorio F, Knijnenburg TA, Vis DJ, Bignell GR, Menden MP, Schubert M, Aben N, Gonçalves E, Barthorpe S, Lightfoot H, Cokelaer T, Greninger P, van Dyk E, Chang H, de Silva H, Heyn H, Deng X, Egan RK, Liu Q, Mironenko T, Mitropoulos X, Richardson L, Wang J, Zhang T, Moran S, Sayols S, Soleimani M, Tamborero D, Lopez-Bigas N, Ross-Macdonald P, Esteller M, Gray NS, Haber DA, Stratton MR, Benes CH, Wessels LFA, Saez-Rodriguez J, McDermott U, Garnett MJ. A landscape of pharmacogenomic interactions in cancer. Cell. 2016;166:740–754. doi: 10.1016/j.cell.2016.06.017. [DOI] [PMC free article] [PubMed] [Google Scholar]
  20. Kabir S, Cidado J, Andersen C, Dick C, Lin P-C, Mitros T, Ma H, Baik SH, Belmonte MA, Drew L, Corn JE. The CUL5 ubiquitin ligase complex mediates resistance to CDK9 and MCL1 inhibitors in lung cancer cells. eLife. 2019;8:e44288. doi: 10.7554/eLife.44288. [DOI] [PMC free article] [PubMed] [Google Scholar]
  21. Kale J, Osterlund EJ, Andrews DW. BCL-2 family proteins: changing partners in the dance towards death. Cell Death and Differentiation. 2018;25:65–80. doi: 10.1038/cdd.2017.186. [DOI] [PMC free article] [PubMed] [Google Scholar]
  22. Kim JJ, Lee SB, Jang J, Yi S-Y, Kim S-H, Han S-A, Lee J-M, Tong S-Y, Vincelette ND, Gao B, Yin P, Evans D, Choi DW, Qin B, Liu T, Zhang H, Deng M, Jen J, Zhang J, Wang L, Lou Z. WSB1 promotes tumor metastasis by inducing pVHL degradation. Genes & Development. 2015;29:2244–2257. doi: 10.1101/gad.268128.115. [DOI] [PMC free article] [PubMed] [Google Scholar]
  23. Kim JJ, Lee SB, Yi S-Y, Han S-A, Kim S-H, Lee J-M, Tong S-Y, Yin P, Gao B, Zhang J, Lou Z. WSB1 overcomes oncogene-induced senescence by targeting ATM for degradation. Cell Research. 2017;27:274–293. doi: 10.1038/cr.2016.148. [DOI] [PMC free article] [PubMed] [Google Scholar]
  24. Ma L, Zhang Y, Hu F. miR‑28‑5p inhibits the migration of breast cancer by regulating WSB2. International Journal of Molecular Medicine. 2020;46:1562–1570. doi: 10.3892/ijmm.2020.4685. [DOI] [PMC free article] [PubMed] [Google Scholar]
  25. Mahrour N, Redwine WB, Florens L, Swanson SK, Martin-Brown S, Bradford WD, Staehling-Hampton K, Washburn MP, Conaway RC, Conaway JW. Characterization of Cullin-box sequences that direct recruitment of Cul2-Rbx1 and Cul5-Rbx2 modules to Elongin BC-based ubiquitin ligases. The Journal of Biological Chemistry. 2008;283:8005–8013. doi: 10.1074/jbc.M706987200. [DOI] [PubMed] [Google Scholar]
  26. McDonald ER, de Weck A, Schlabach MR, Billy E, Mavrakis KJ, Hoffman GR, Belur D, Castelletti D, Frias E, Gampa K, Golji J, Kao I, Li L, Megel P, Perkins TA, Ramadan N, Ruddy DA, Silver SJ, Sovath S, Stump M, Weber O, Widmer R, Yu J, Yu K, Yue Y, Abramowski D, Ackley E, Barrett R, Berger J, Bernard JL, Billig R, Brachmann SM, Buxton F, Caothien R, Caushi JX, Chung FS, Cortés-Cros M, deBeaumont RS, Delaunay C, Desplat A, Duong W, Dwoske DA, Eldridge RS, Farsidjani A, Feng F, Feng J, Flemming D, Forrester W, Galli GG, Gao Z, Gauter F, Gibaja V, Haas K, Hattenberger M, Hood T, Hurov KE, Jagani Z, Jenal M, Johnson JA, Jones MD, Kapoor A, Korn J, Liu J, Liu Q, Liu S, Liu Y, Loo AT, Macchi KJ, Martin T, McAllister G, Meyer A, Mollé S, Pagliarini RA, Phadke T, Repko B, Schouwey T, Shanahan F, Shen Q, Stamm C, Stephan C, Stucke VM, Tiedt R, Varadarajan M, Venkatesan K, Vitari AC, Wallroth M, Weiler J, Zhang J, Mickanin C, Myer VE, Porter JA, Lai A, Bitter H, Lees E, Keen N, Kauffmann A, Stegmeier F, Hofmann F, Schmelzle T, Sellers WR. Project DRIVE: A Compendium of Cancer Dependencies and Synthetic Lethal Relationships Uncovered by Large-Scale, Deep RNAi Screening. Cell. 2017;170:577–592. doi: 10.1016/j.cell.2017.07.005. [DOI] [PubMed] [Google Scholar]
  27. Nakao F, Setoguchi K, Semba Y, Yamauchi T, Nogami J, Sasaki K, Imanaga H, Terasaki T, Miyazaki M, Hirabayashi S, Miyawaki K, Kikushige Y, Masuda T, Akashi K, Maeda T. Targeting a mitochondrial E3 ubiquitin ligase complex to overcome AML cell-intrinsic Venetoclax resistance. Leukemia. 2023;37:1028–1038. doi: 10.1038/s41375-023-01879-z. [DOI] [PubMed] [Google Scholar]
  28. Nayak T, Wang LJ, Ning M, Rubannelsonkumar G, Jin E, Zheng S, Houghton PJ, Huang Y, Chiu YC, Chen Y. DepLink: an R Shiny app to systematically link genetic and pharmacologic dependencies of cancer. Bioinformatics Advances. 2023;3:vbad076. doi: 10.1093/bioadv/vbad076. [DOI] [PMC free article] [PubMed] [Google Scholar]
  29. Pang X, Zhang J, Lopez H, Wang Y, Li W, O’Neill KL, Evans JJD, George NM, Long J, Chen Y, Luo X. The carboxyl-terminal tail of Noxa protein regulates the stability of Noxa and Mcl-1. The Journal of Biological Chemistry. 2014;289:17802–17811. doi: 10.1074/jbc.M114.548172. [DOI] [PMC free article] [PubMed] [Google Scholar]
  30. Ploner C, Kofler R, Villunger A. Noxa: at the tip of the balance between life and death. Oncogene. 2008;27 Suppl 1:S84–S92. doi: 10.1038/onc.2009.46. [DOI] [PMC free article] [PubMed] [Google Scholar]
  31. Ploumaki I, Triantafyllou E, Koumprentziotis I-A, Karampinos K, Drougkas K, Karavolias I, Trontzas I, Kotteas EA. Bcl-2 pathway inhibition in solid tumors: a review of clinical trials. Clinical & Translational Oncology. 2023;25:1554–1578. doi: 10.1007/s12094-022-03070-9. [DOI] [PMC free article] [PubMed] [Google Scholar]
  32. Price C, Gill S, Ho ZV, Davidson SM, Merkel E, McFarland JM, Leung L, Tang A, Kost-Alimova M, Tsherniak A, Jonas O, Vazquez F, Hahn WC. Genome-Wide Interrogation of Human Cancers Identifies EGLN1 Dependency in Clear Cell Ovarian Cancers. Cancer Research. 2019;79:2564–2579. doi: 10.1158/0008-5472.CAN-18-2674. [DOI] [PMC free article] [PubMed] [Google Scholar]
  33. Seo Y-W, Shin JN, Ko KH, Cha JH, Park JY, Lee BR, Yun C-W, Kim YM, Seol D, Kim D, Yin X-M, Kim T-H. The molecular mechanism of Noxa-induced mitochondrial dysfunction in p53-mediated cell death. The Journal of Biological Chemistry. 2003;278:48292–48299. doi: 10.1074/jbc.M308785200. [DOI] [PubMed] [Google Scholar]
  34. Shibue T, Suzuki S, Okamoto H, Yoshida H, Ohba Y, Takaoka A, Taniguchi T. Differential contribution of Puma and Noxa in dual regulation of p53-mediated apoptotic pathways. The EMBO Journal. 2006;25:4952–4962. doi: 10.1038/sj.emboj.7601359. [DOI] [PMC free article] [PubMed] [Google Scholar]
  35. Subramanian A, Andronache A, Li YC, Wade M. Inhibition of MARCH5 ubiquitin ligase abrogates MCL1-dependent resistance to BH3 mimetics via NOXA. Oncotarget. 2016;7:15986–16002. doi: 10.18632/oncotarget.7558. [DOI] [PMC free article] [PubMed] [Google Scholar]
  36. Tsherniak A, Vazquez F, Montgomery PG, Weir BA, Kryukov G, Cowley GS, Gill S, Harrington WF, Pantel S, Krill-Burger JM, Meyers RM, Ali L, Goodale A, Lee Y, Jiang G, Hsiao J, Gerath WFJ, Howell S, Merkel E, Ghandi M, Garraway LA, Root DE, Golub TR, Boehm JS, Hahn WC. Defining a cancer dependency map. Cell. 2017;170:564–576. doi: 10.1016/j.cell.2017.06.010. [DOI] [PMC free article] [PubMed] [Google Scholar]
  37. Wainberg M, Kamber RA, Balsubramani A, Meyers RM, Sinnott-Armstrong N, Hornburg D, Jiang L, Chan J, Jian R, Gu M, Shcherbina A, Dubreuil MM, Spees K, Meuleman W, Snyder MP, Bassik MC, Kundaje A. A genome-wide atlas of co-essential modules assigns function to uncharacterized genes. Nature Genetics. 2021;53:638–649. doi: 10.1038/s41588-021-00840-z. [DOI] [PMC free article] [PubMed] [Google Scholar]
  38. Wei AH, Montesinos P, Ivanov V, DiNardo CD, Novak J, Laribi K, Kim I, Stevens DA, Fiedler W, Pagoni M, Samoilova O, Hu Y, Anagnostopoulos A, Bergeron J, Hou J-Z, Murthy V, Yamauchi T, McDonald A, Chyla B, Gopalakrishnan S, Jiang Q, Mendes W, Hayslip J, Panayiotidis P. Venetoclax plus LDAC for newly diagnosed AML ineligible for intensive chemotherapy: a phase 3 randomized placebo-controlled trial. Blood. 2020;135:2137–2145. doi: 10.1182/blood.2020004856. [DOI] [PMC free article] [PubMed] [Google Scholar]
  39. Youle RJ, Strasser A. The BCL-2 protein family: opposing activities that mediate cell death. Nature Reviews. Molecular Cell Biology. 2008;9:47–59. doi: 10.1038/nrm2308. [DOI] [PubMed] [Google Scholar]
  40. Zhang Y, Li Z, Zhao W, Hu H, Zhao L, Zhu Y, Yang X, Gao B, Yang H, Huang Y, Song X. WD repeat and SOCS box containing protein 2 in the proliferation, cycle progression, and migration of melanoma cells. Biomedicine & Pharmacotherapy. 2019;116:108974. doi: 10.1016/j.biopha.2019.108974. [DOI] [PubMed] [Google Scholar]
  41. Zhao Y, Xiong X, Sun Y. Cullin-RING Ligase 5: Functional characterization and its role in human cancers. Seminars in Cancer Biology. 2020;67:61–79. doi: 10.1016/j.semcancer.2020.04.003. [DOI] [PubMed] [Google Scholar]
  42. Zhou W, Xu J, Li H, Xu M, Chen ZJ, Wei W, Pan Z, Sun Y. Neddylation E2 UBE2F Promotes the Survival of Lung Cancer Cells by Activating CRL5 to Degrade NOXA via the K11 Linkage. Clinical Cancer Research. 2017;23:1104–1116. doi: 10.1158/1078-0432.CCR-16-1585. [DOI] [PMC free article] [PubMed] [Google Scholar]

eLife Assessment

Agnieszka Chacinska 1

This study reports a fundamental observation concerning cell death regulation by the anti-apoptotic BCL2 family NOXA. The authors convincingly demonstrate that NOXA is destabilized through the interaction with WSB2, a substrate receptor in CRL5 ubiquitin ligase complex, sensitizing the cells to treatments. These are key findings for cell biologists and cancer researchers as they identified a new target impacting drug responsiveness in cancer therapies.

Reviewer #1 (Public Review):

Anonymous

Summary:

In this manuscript, Jiao D et al reported the induction of synthetic lethality by combined inhibition of anti-apoptotic BCL-2 family proteins and WSB2, a substrate receptor in CRL5 ubiquitin ligase complex. Mechanistically, WSB2 interacts with NOXA to promote its ubiquitylation and degradation. Cancer cells deficient in WSB2, as well as heart and liver tissues from Wsb2-/- mice exhibit high susceptibility to apoptosis induced by inhibitors of BCL-2 family proteins. The anti-apoptotic activity of WSB2 is partially dependent on NOXA.

Overall, the finding that WSB2 disruption triggers synthetic lethality to BCL-2 family protein inhibitors by destabilizing NOXA is rather novel. The manuscript is largely hypothesis-driven, with experiments that are adequately designed and executed. However, there are quite a few issues for the authors to address, including those listed below.

Specific comments from the previous round of review:

(1) At the beginning of the Results section, a clear statement is needed as to why the authors are interested in WSB2 and what brought them to analyze "the genetic co-dependency between WSB2 and other proteins".

(2) In general, the biochemical evidence supporting the role of WSB2 as a SOCS box-containing substrate-binding receptor of CRL5 E3 in promoting NOXA ubiquitylation and degradation is relatively weak. First, since NOXA2 binds to WSB2 on its SOCS box, which consists of a BC box for Elongin B/C binding and a CUL5 box for CUL5 binding, it is crucial to determine whether the binding of NOXA on the SOCS box affects the formation of CRL5WSB2 complex. The authors should demonstrate the endogenous binding between NOXA and the CRL5WSB2 complex. Additionally, the authors may also consider manipulating CUL5, SAG, or ElonginB/C to assess if it would affect NOXA protein turnover in two independent cell lines. Second, in all the experiments designed to detect NOXA ubiquitylation in cells, the authors utilized immunoprecipitation (IP) with FLAG-NOXA/NOXA, followed by immunoblotting (IB) with HA-Ub. However, it is possible that the observed poly-Ub bands could be partly attributed to the ubiquitylation of other NOXA binding proteins. Therefore, the authors need to consider performing IP with HA-Ub and subsequently IB with NOXA. Alternatively, they could use Ni-beads to pull down all His-Ub-tagged proteins under denaturing conditions, followed by the detection of FLAG-tagged NOXA using anti-FLAG Ab. The authors are encouraged to perform one of these suggested experiments to exclude the possibility of this concern. Furthermore, an in vitro ubiquitylation assay is crucial to conclusively demonstrate that the polyubiquitylation of NOXA is indeed mediated by the CRL5WSB2 complex.

(3) In their attempt to map the binding regions between NOXA and WSB2, the authors utilized exogenous proteins of both WSB2 and NOXA. To strengthen their findings, it would be more convincing to perform IP with exogenous wt/mutant WSB2 or NOXA and subsequently perform IB to detect endogenous NOXA or WSB2, respectively. Additionally, an in vitro binding assay using purified proteins would provide further evidence of a direct binding between NOXA and WSB2.

Comments on latest version:

The authors have adequately addressed my previous comments.

eLife. 2025 Jul 23;13:RP98372. doi: 10.7554/eLife.98372.3.sa2

Author response

Dongyue Jiao 1, Kun Chang 2, Jiamin Jin 3, Yingji Chen 4, Mo Ren 5, Yucong Zhang 6, Kun Gao 7, Yaoting Xu 8, Lixin Wang 9, Chenji Wang 10

The following is the authors’ response to the original reviews.

Public Reviews:

Reviewer #1 (Public Review):

Summary:

I In this manuscript, Jiao D et al reported the induction of synthetic lethal by combined inhibition of anti-apoptotic BCL-2 family proteins and WSB2, a substrate receptor in CRL5 ubiquitin ligase complex. Mechanistically, WSB2 interacts with NOXA to promote its ubiquitylation and degradation. Cancer cells deficient in WSB2, as well as heart and liver tissues from Wsb2-/- mice exhibit high susceptibility to apoptosis induced by inhibitors of BCL-2 family proteins. The anti-apoptotic activity of WSB2 is partially dependent on NOXA.

Overall, the finding, that WSB2 disruption triggers synthetic lethality to BCL-2 family protein inhibitors by destabilizing NOXA, is rather novel. The manuscript is largely hypothesis-driven, with experiments that are adequately designed and executed. However, there are quite a few issues for the authors to address, including those listed below.

Specific comments:

(1) At the beginning of the Results section, a clear statement is needed as to why the authors are interested in WSB2 and what brought them to analyze "the genetic co-dependency between WSB2 and other proteins".

We thank the reviewer for raising this important point. We agree that a clear rationale should be provided at the beginning of the Results section. As reported in previous studies [Ref: 1, 2, 3], strong synthetic interactions have been observed between WSB2 and several mitochondrial apoptosis-related factors, including MCL-1, BCL-xL, and MARCH5. We have referenced these findings in the Discussion section. Motivated by these studies, we became interested in the role of WSB2 and aimed to investigate the specific mechanisms underlying its synthetic lethality with anti-apoptotic BCL-2 family members. We will revise the beginning of the Results section to clearly state this rationale.

(1) McDonald, E.R., 3rd et al. Project DRIVE: A Compendium of Cancer Dependencies and Synthetic Lethal Relationships Uncovered by Large-Scale, Deep RNAi Screening. Cell 170, 577-592 e510 (2017).

(2) DeWeirdt, P.C. et al. Genetic screens in isogenic mammalian cell lines without single cell cloning. Nat Commun 11, 752 (2020).

(3) DeWeirdt, P.C. et al. Optimization of AsCas12a for combinatorial genetic screens in human cells. Nat Biotechnol 39, 94-104 (2021).

(2) In general, the biochemical evidence supporting the role of WSB2 as a SOCS box-containing substrate-binding receptor of CRL5 E3 in promoting NOXA ubiquitylation and degradation is relatively weak. First, since NOXA binds to WSB2 on its SOCS box, which consists of a BC box for Elongin B/C binding and a CUL5 box for CUL5 binding, it is crucial to determine whether the binding of NOXA on the SOCS box affects the formation of CRL5WSB2 complex. The authors should demonstrate the endogenous binding between NOXA and the CRL5WSB2 complex. Additionally, the authors may also consider manipulating CUL5, SAG, or ElonginB/C to assess if it would affect NOXA protein turnover in two independent cell lines.

We thank the reviewer for raising this important point. To determine whether endogenous NOXA binds to the intact CRL5WSB2 complex, we performed co-immunoprecipitation assays using an antibody against NOXA. Indeed, NOXA co-immunoprecipitated with all subunits of the CRL5WSB2 complex (Figure 2—figure supplement 1D), suggesting that NOXA binding to WSB2 does not disrupt interactions between WSB2 and the other CRL5 subunits. Moreover, depletion of CRL5 complex components (RBX2/SAG, CUL5, ELOB, or ELOC) through siRNAs in C4-2B or Huh-7 cells also resulted in a marked increase in NOXA protein levels.

Second, in all the experiments designed to detect NOXA ubiquitylation in cells, the authors utilized immunoprecipitation (IP) with FLAG-NOXA/NOXA, followed by immunoblotting (IB) with HA-Ub. However, it is possible that the observed poly-Ub bands could be partly attributed to the ubiquitylation of other NOXA binding proteins. Therefore, the authors need to consider performing IP with HA-Ub and subsequently IB with NOXA. Alternatively, they could use Ni-beads to pull down all His-Ub-tagged proteins under denaturing conditions, followed by the detection of FLAG-tagged NOXA using anti-FLAG Ab. The authors are encouraged to perform one of these suggested experiments to exclude the possibility of this concern. Furthermore, an in vitro ubiquitylation assay is crucial to conclusively demonstrate that the polyubiquitylation of NOXA is indeed mediated by the CRL5WSB2 complex.

We appreciate the reviewer for raising these important considerations regarding our ubiquitylation assays. We fully acknowledge the reviewer's concern that classical ubiquitination assays could potentially detect ubiquitination of proteins interacting with NOXA. However, we would like to clarify that our experimental conditions effectively mitigate this issue. Specifically, cells were lysed using buffer containing 1% SDS followed by boiling at 105°C for 5 minutes. These rigorous denaturing conditions ensure disruption of non-covalent protein interactions, thereby effectively eliminating the possibility of detecting ubiquitination signals from NOXA-associated proteins.

Regarding the suggestion to perform an in vitro ubiquitination assay, we agree this experiment would indeed provide additional evidence. However, due to significant technical complexities associated with reconstituting CRL5-based E3 ubiquitin ligase activity in vitro—which would require the expression and purification of at least six recombinant proteins—such experiments are rarely performed in this context. Furthermore, NOXA is uniquely localized as a membrane protein on the mitochondrial outer membrane, posing additional significant challenges for protein expression and purification. Given the robustness of our current in vivo ubiquitylation assay under stringent denaturing conditions, we believe our existing data sufficiently and conclusively demonstrate NOXA ubiquitination mediated by the CRL5WSB2 complex.

(3) In their attempt to map the binding regions between NOXA and WSB2, the authors utilized exogenous proteins of both WSB2 and NOXA. To strengthen their findings, it would be more convincing to perform IP with exogenous wt/mutant WSB2 or NOXA and subsequently perform IB to detect endogenous NOXA or WSB2, respectively. Additionally, an in vitro binding assay using purified proteins would provide further evidence of a direct binding between NOXA and WSB2.

We thank the reviewer for raising these important issues. In response to the reviewer’s suggestion to map the binding regions between NOXA and WSB2 more convincingly, we have indeed performed semi-endogenous Co-IP assays, which yielded results consistent with our exogenous protein experiments (Figure 3—figure supplement 1A, B). Concerning the recommendation to further validate direct interaction using purified recombinant proteins, we encountered substantial technical difficulties in obtaining pure and soluble recombinant WSB2 protein. Additionally, given that NOXA is an outer mitochondrial membrane protein and the interaction occurs on mitochondria, we believe that an in vitro binding assay may have limited physiological relevance. We hope the reviewer can appreciate these practical challenges and our current evidence supporting the strong interaction between NOXA and WSB2.

Reviewer #2 (Public Review):

Summary:

Exploring the DEP-MAP database and two drug-screen databases, the authors identify WSB2 as an interactor of several BCL2 proteins. In follow-up experiments, they show that CRL5/WSB2 controls NOXA protein levels via K48 ubiquitination following direct protein-protein interaction, and cell death sensitivity in the context of BH3 mimetic treatment, where WSB2 depletion synergizes with drug treatment.

Strengths:

The authors use a set of orthogonal methods across different model cell lines and a new WSB2 KO mouse model to confirm their findings. They also manage to correlate WSB2 expression with poor prognosis in prostate and liver cancer, supporting the idea that targeting WSB2 may sensitize cancers for treatment with BH3 mimetics.

Weaknesses:

The conclusions drawn based on the findings in cancer patients are very speculative, as regulation of NOXA cannot be the sole function of CRL5/WSB2 and it is hence unclear what causes correlation with patient survival. Moreover, the authors do not provide a clear mechanistic explanation of how exactly higher levels of NOXA promote apoptosis in the absence of WSB2. This would be important knowledge, as usually high NOXA levels correlate with high MCL1, as they are turned over together, but in situations like this, or loss of other E3 ligases, such as MARCH, the buffering capacity of MCL1 is outrun, allowing excess NOXA to kill (likely by neutralizing other BCL2 proteins it usually does not bind to, such as BCLX). Moreover, a necroptosis-inducing role of NOXA has been postulated. Neither of these options is interrogated here.

Recommendations For The Authors:

Reviewer #1 (Recommendations For The Authors):

(1) Figure 2J. The authors showed that "the mRNA levels of NOXA were even reduced in WSB2-KO cells compared to parental cells". What is the possible mechanism? This point should at least be discussed.

We thank the reviewer for raising these important issues. The underlying mechanisms for the significantly lower mRNA levels of NOXA following the KO of WSB2 are not fully understood at present. However, we propose that this could represent a form of negative feedback regulation at the level of gene expression. Specifically, when the protein levels of BNIP3/3L rise sharply, it may activate mechanisms that suppress their own mRNA synthesis or stability, serving as a buffering system to prevent further protein accumulation. Such negative feedback loops may be critical for maintaining cellular homeostasis and avoiding excessive protein production. Moreover, this phenomenon is frequently observed in other studies investigating substrates targeted by E3 ubiquitin ligases for degradation. We have elaborated on this point in the Discussion section.

(2) Figure 2M. A previous study has clearly demonstrated that NOXA is subjected to ubiquitylation and degradation by CRL5 E3 ligase (PMID: 27591266). This paper should be cited. Also, in that publication, NOXA ubiquitylation is via the K11 linkage, not the K48 linkage. The authors should include K11R mutant in their assay.

We thank the reviewer for raising this important issue. We thank the reviewer for suggesting the relevant reference (PMID: 27591266), which we have now cited accordingly. Additionally, we would like to clarify that our new in vivo ubiquitination assays included the K11R and K11-only ubiquitin mutants, and our data demonstrate that WSB2-mediated NOXA ubiquitination indeed involves the K11 linkage ubiquitination (Figure 2—figure supplement 1E).

(3) Figure 3H, J. The authors stated, "By mutating these lysine residues to arginine, we found that WSB2-mediated NOXA ubiquitination was completely abolished". Which one of the three lysine residues is playing the dominant role?

We thank the reviewer for raising this important issue. To address this, we generated FLAG-NOXA mutants individually substituting lysine residues K35, K41, and K48 with arginine. In vivo ubiquitination assays demonstrated that lysine 48 (K48) is the predominant residue responsible for WSB2-mediated NOXA ubiquitination (Figure 3—figure supplement 1C).

(4) Figure 3N. The authors need to show that the fusion peptide containing C-terminal NOXA peptide competitively inhibits the interaction between endogenous WSB2 and NOXA and extends the protein half-life of NOXA, leading to NOXA accumulation.

We sincerely thank the reviewer for raising these important issues. As suggested, we investigated whether the fusion peptide containing the C-terminal NOXA sequence competitively disrupts the interaction between endogenous WSB2 and NOXA, subsequently influencing NOXA stability. Our results demonstrated that treatment with this fusion peptide indeed significantly reduced the endogenous interaction between WSB2 and NOXA (Figure 3—figure supplement 1D). Furthermore, we observed that the peptide dose-dependently increased endogenous NOXA protein levels and prolonged its protein half-life, thereby resulting in the accumulation of NOXA (Figure 3N; Figure 3—figure supplement 1E, F). These findings collectively indicate that the fusion peptide competitively inhibits the WSB2-NOXA interaction, stabilizes NOXA protein, and enhances its accumulation.

(5) Figure 4. (a) It would be better to investigate whether WSB2 knockdown can sensitize cancer cells to the treatment with ABT-737 or AZD5991, evidenced by a decrease in both IC50 values and clonogenic survival rates and whether such sensitization is dependent on NOXA. (b) The authors need to show the levels of cleaved caspase-3/7/9 and the percentages of apoptotic cells in shNC cells upon silencing of WSB2 in Figure 4A-F. (c) It will be more convincing to repeat the experiment to show synthetic lethality by WSB2 disruption and MCL-1 inhibitor AZD5991 treatment using another cell line, such as WSB2-deficient Huh-7 cells in Figure 4 I&J.

We sincerely thank the reviewer for these valuable and constructive suggestions.Regarding point (a): We believe that our current Western blot and flow cytometry data (Figure 4G–L) have already provided strong evidence that WSB2 depletion enhances apoptosis in response to ABT-737 and AZD5991. Therefore, we consider that additional IC50 and clonogenic survival assays, while informative, may not be essential for supporting our conclusion. Furthermore, as shown in Figure 5A–F, we found that silencing NOXA largely, though not completely, reversed the enhanced apoptosis triggered by these inhibitors in WSB2-deficient cells, suggesting that the sensitization effect is at least partially dependent on NOXA.

Regarding point (b): We have shown that WSB2 knockout alone had no impact on the levels of cleaved caspase-3/7/9 or the percentages of apoptotic cells in Huh-7 and C4-2B cells (Figure 4G-L and Figure 4—figure supplement 1A-D), indicating that WSB2 loss does not induce apoptosis on its own under basal conditions.

Regarding point (c): We appreciate the reviewer’s suggestion and have now repeated the experiment in WSB2 knockout Huh-7 cells. The new results further support the synthetic lethality between WSB2 loss and AZD5991 treatment (Figure 4—figure supplement 1C, D).

(6) Figure 5A/C/E. The effect of siNOXA is minor, if any, for cleavage of caspases. The same thing for Figure 6F/H.

We appreciate the reviewer’s insightful observation regarding the relatively modest effect of shNOXA on caspase cleavage in Figures 5A/C/E and Figures 6F/H. Indeed, we acknowledge that the reduction in caspase cleavage following NOXA knockdown is moderate. However, consistent with our discussions in the manuscript, NOXA knockdown significantly—but not completely—rescued the increased apoptosis observed in WSB2-deficient cells treated with BCL-2 family inhibitors. This suggests that while NOXA plays a notable role, additional mechanisms or unidentified targets may also be involved in WSB2-mediated regulation of apoptosis.

(7) Figure 5 I&J. The authors may consider performing IHC staining, immunofluorescence, or WB analysis to show the levels of NOXA and cleaved caspases or PARP in xenograft tumors. This would provide in vivo evidence of significant apoptosis induction resulting from the co-administration of ABT-737 and R8-C-terminal NOXA peptide.

We appreciate the reviewer's thoughtful suggestion regarding additional immunohistochemical or immunofluorescence analyses in xenograft tumors. However, due to current limitations in available antibodies suitable for reliable detection of NOXA by IHC and IF, we are unable to perform these experiments. We greatly appreciate the reviewer's understanding of this technical constraint. Nevertheless, our existing data collectively supports the conclusion that the combination of ABT-737 and R8-C-terminal NOXA peptide significantly enhances apoptosis in vivo.

(8) Figure 7. Does an inverse correlation exist between the protein levels of WSB2 and NOXA in RPAD or LIHC tissue microarrays? On page 12, in the first paragraph, Figure 7M-P was cited incorrectly.

We sincerely thank the reviewer for raising this important issue. As mentioned above, due to current limitations regarding the availability of suitable antibodies that can reliably detect NOXA by IHC, we regret that it is not feasible to experimentally address this question at this time.

Additionally, we have carefully corrected the citation error involving Figure 7M-P on page 12, as pointed out by the reviewer.

(9) Figure S1D. BCL-W levels were reduced upon WSB2 overexpression, which should be acknowledged.

We sincerely thank the reviewer for raising this important issue. We acknowledge that BCL-W protein levels were slightly reduced upon WSB2 overexpression in Figure S1D. However, this effect is distinct from the pronounced reduction observed in NOXA protein levels. We have revised the manuscript to clarify this point. Additionally, we recognize that transient overexpression systems may occasionally lead to non-specific or artifactual changes. Our exogenous expression and co-immunoprecipitation experiments did not support an interaction between BCL-W and WSB2. Therefore, the observed reduction of BCL-W under these conditions may not reflect a physiologically relevant regulation.

(10) Figure S4. Given WSB2 KO mice are viable; the authors may consider determining whether these mice are more sensitive to radiation-induced tissue damage or but more resistant to radiation-induced tumorigenesis?

We sincerely thank the reviewer for this insightful and biologically meaningful suggestion. We agree that investigating the potential role of WSB2 in radiation-induced tissue damage and tumorigenesis would be of great interest. However, conducting such experiments requires access to specialized irradiation facilities, which are currently unavailable to us. Nevertheless, we recognize the value of this line of investigation and plan to explore it in our future studies.

(11) All data were displayed as mean{plus minus}SD. However, for data from three independent experiments, it is more appropriate to present the results as mean{plus minus}SEM, not mean{plus minus}SD.

We sincerely thank the reviewer for highlighting this important issue. In line with the reviewer's suggestion, we have revised the manuscript accordingly and now present data from three independent experiments as mean ± SEM.

(12) The figure legends require careful review: (i) The low dose of ABT-199 (Figure 6H) and the dose of ABT-199 used in Figure 6I are missing. (ii) The legends for Figure S1D-E are incorrect. (iii) The name of the antibody in the legend of Figure S3C is incorrect.

We sincerely thank the reviewer for raising these important issues. We have carefully corrected all the errors mentioned. In addition, we have thoroughly reviewed the manuscript to prevent similar errors.

Reviewer #2 (Recommendations For The Authors):

The authors focus on NOXA, after initially identifying WSB2 to interact with several BCL2 proteins. The rationale behind this is that WSB2 depletion or overexpression affects NOXA levels, but none of the other BCL2 proteins tested, as stated in the text. Yet, BCLW is also depleted upon overexpression of WSB2 (Supplementary Figure 1). How does this phenomenon relate to the sensitization noted, is BCL-W higher in WSB2 KO cells? It does not seem so though. This warrants discussion.

We appreciate the reviewer for raising this important issue. Our results showed that overexpression of WSB2 markedly reduced NOXA levels, while the levels of other BCL-2 family proteins remained unaffected or minimally affected, such as BCL-W (Figure 2—figure supplement 1A). Furthermore, depletion of WSB2 through shRNA-mediated KD or CRISPR/Cas9-mediated KO in C4-2B cells or Huh-7 cells led to a marked increase in the steady-state levels of endogenous NOXA, without affecting other BCL-2 family proteins examined, included BCL-W (Figure 2A-C, Figure 2—figure supplement 2A, B).

If WSB2 depletion does not affect MCL1 levels, how does excess NOXA actually kill? Does it bind to any (other) prosurvival proteins under conditions of WSB2 depletion? Is the MCL1 half-life changed?

We appreciate the reviewer for raising this important point. NOXA is a BH3-only protein known to promote apoptosis primarily by binding to and neutralizing anti-apoptotic BCL-2 family members, especially MCL-1, via its BH3 domain. It can inhibit MCL-1 either through competitive binding or by facilitating its ubiquitination and subsequent proteasomal degradation. In our system, the total protein levels of MCL-1 remained unchanged in WSB2 knockout cells, suggesting that NOXA may not be promoting apoptosis through enhanced MCL-1 degradation. Instead, we speculate that the accumulation of NOXA in WSB2-deficient cells enhances apoptosis by sequestering MCL-1 through direct binding, thereby freeing pro-apoptotic effectors such as BAK and BAX. In line with our observations, Nakao et al. reported that deletion of the mitochondrial E3 ligase MARCH5 led to a pronounced increase in NOXA expression, while leaving MCL-1 protein levels unchanged in leukemia cell lines (Leukemia. 2023 ;37:1028-1038., PMID: 36973350).

Additionally, NOXA has been reported to interact with other anti-apoptotic proteins, including BCL-XL. It is therefore possible that under conditions of WSB2 depletion, excess NOXA may also bind to BCL-XL and relieve its inhibition of BAX/BAK, further contributing to apoptosis. Future experiments assessing NOXA binding partners in WSB2-deficient cells would help clarify this mechanism.

I think some initial insights into the mechanism underlying the sensitization would add a lot to this study. Is there a role of BFL1/A1 in any of these cell lines, as it can also rather selectively bind to NOXA and is sometimes deregulated in cancer?

We appreciate the reviewer for raising this important issue. While BFL1/A1 is indeed another anti-apoptotic BCL-2 family member that can selectively bind to NOXA and has been implicated in cancer, our study primarily focuses on the WSB2-NOXA axis. However, given its potential involvement in apoptosis regulation, it would be an interesting direction for future studies to explore whether BFL1/A1 contributes to NOXA-mediated sensitization in specific cellular contexts.

Otherwise, this is a very nice and convincing study.

Associated Data

    This section collects any data citations, data availability statements, or supplementary materials included in this article.

    Data Citations

    1. Pinyol R, Montal RR, Moeini AA, Llovet JM. 2020. Using a novel gene signature for predicting the efficacy of the transarterial chemoembolization in patients with hepatocellular carcinoma. NCBI Gene Expression Omnibus. GSE104580
    2. Hui KM, Shi M. 2018. Molecular predictors of prevention of recurrence in hepatocellular carcinoma with sorafenib as adjuvant treatment in the phase 3 STORM trial. NCBI Gene Expression Omnibus. GSE109211
    3. Wainberg M, Kamber RA, Balsubramani A, Meyers RM, Sinnott-Armstrong N, Hornburg D, Jiang L, Chan J, Jian R, Gu M, Shcherbina A, Dubreuil MM, Spees K, Meuleman W, Snyder MP, Bassik MC, Kundaje A. 2019. Molecular predictors of prevention of recurrence in hepatocellular carcinoma with sorafenib as adjuvant treatment in the phase 3 STORM trial. mitra.stanford.edu. module#528

    Supplementary Materials

    Figure 1—source data 1. Original file for the western blot analysis in Figure 1.
    Figure 1—source data 2. Labeled file for the western blot analysis in Figure 1.
    Figure 1—source data 3. Original file for the images in Figure 1.
    Figure 2—source data 1. Original file for the western blot analysis in Figure 2.
    Figure 2—source data 2. Labeled file for the western blot analysis in Figure 2.
    Figure 2—figure supplement 1—source data 1. Original file for the western blot analysis in Figure 2—figure supplement 1.
    Figure 2—figure supplement 1—source data 2. Labeled file for the western blot analysis in Figure 2—figure supplement 1.
    Figure 3—source data 1. Original file for the western blot analysis in Figure 3.
    Figure 3—source data 2. Labeled file for the western blot analysis in Figure 3.
    Figure 3—figure supplement 1—source data 1. Original file for the western blot analysis in Figure 3—figure supplement 1.
    Figure 3—figure supplement 1—source data 2. Labeled file for the western blot analysis in Figure 3—figure supplement 1.
    Figure 4—source data 1. Original file for the western blot analysis in Figure 4.
    Figure 4—source data 2. Labeled file for the western blot analysis in Figure 4.
    Figure 4—figure supplement 1—source data 1. Original file for the western blot analysis in Figure 4—figure supplement 1.
    Figure 4—figure supplement 1—source data 2. Labeled file for the western blot analysis in Figure 4—figure supplement 1.
    Figure 5—source data 1. Original file for the western blot analysis in Figure 5.
    Figure 5—source data 2. Labeled file for the western blot analysis in Figure 5.
    Figure 6—source data 1. Original file for the western blot analysis in Figure 6.
    Figure 6—source data 2. Labeled file for the western blot analysis in Figure 6.
    Figure 6—source data 3. Original file for the images in Figure 6.
    Figure 6—figure supplement 1—source data 1. Original file for the western blot analysis in Figure 6—figure supplement 1.
    Figure 6—figure supplement 1—source data 2. Labeled file for the western blot analysis in Figure 6—figure supplement 1.
    Figure 6—figure supplement 2—source data 1. Original file for the images in Figure 6—figure supplement 2.
    Figure 7—source data 1. Original file for the images in Figure 7.
    Supplementary file 1. Top 100 co-dependent genes of WSB2.
    elife-98372-supp1.xlsx (13.4KB, xlsx)
    Supplementary file 2. The GO analysis of the top 500 co-dependent genes of WSB2.
    elife-98372-supp2.xlsx (27.7KB, xlsx)
    Supplementary file 3. The DepLink analysis of top correlated drugs with WSB2.
    elife-98372-supp3.xlsx (12KB, xlsx)
    Supplementary file 4. Sequence information.
    elife-98372-supp4.xlsx (12.8KB, xlsx)
    MDAR checklist

    Data Availability Statement

    All data generated or analysed during this study are included in the manuscript and supporting files.

    The following previously published datasets were used:

    Pinyol R, Montal RR, Moeini AA, Llovet JM. 2020. Using a novel gene signature for predicting the efficacy of the transarterial chemoembolization in patients with hepatocellular carcinoma. NCBI Gene Expression Omnibus. GSE104580

    Hui KM, Shi M. 2018. Molecular predictors of prevention of recurrence in hepatocellular carcinoma with sorafenib as adjuvant treatment in the phase 3 STORM trial. NCBI Gene Expression Omnibus. GSE109211

    Wainberg M, Kamber RA, Balsubramani A, Meyers RM, Sinnott-Armstrong N, Hornburg D, Jiang L, Chan J, Jian R, Gu M, Shcherbina A, Dubreuil MM, Spees K, Meuleman W, Snyder MP, Bassik MC, Kundaje A. 2019. Molecular predictors of prevention of recurrence in hepatocellular carcinoma with sorafenib as adjuvant treatment in the phase 3 STORM trial. mitra.stanford.edu. module#528


    Articles from eLife are provided here courtesy of eLife Sciences Publications, Ltd

    RESOURCES