| 2018 |
USP48 is a histone H2A deubiquitinase specific for the C-terminal BRCA1 ubiquitination site. Biochemical analysis showed that an auxiliary ubiquitin (itself not cleaved) modulates USP48 activity. In cells, USP48 antagonizes BRCA1 E3 ligase function; loss of USP48 results in 53BP1 positioned further from the break site and extended resection lengths, and confers survival benefit to camptothecin-treated cells. USP48 activity restrains gene conversion and mutagenic single-strand annealing. |
Detailed biochemical analysis, in vitro DUB assays, cell-based BRCA1 ubiquitination assays, epistasis with BRCA1 loss-of-function, resection length measurements, colony survival assays |
Nature communications |
High |
29335415
|
| 2018 |
USP48 is identified as a synthetic viable interactor for FA-gene deficiencies (FANCA, FANCC, FANCG, FANCI, FANCD2). Loss of USP48 in FA-deficient cells reduces sensitivity to ICL agents, enhances BRCA1-dependent DNA damage clearance, and reduces chromosomal instability, placing USP48 in the DNA repair pathway downstream or parallel to the FA pathway. |
Genome-wide loss-of-function screens in haploid isogenic FA-defective human cells, ICL agent sensitivity assays, BRCA1-dependence epistasis, chromosomal instability measurements |
Nature communications |
High |
29891926
|
| 2014 |
USP48 associates with the COP9 signalosome (CSN) and nuclear RelA (NF-κB p65). USP48 trims (rather than fully disassembles) K48-linked free and substrate-anchored ubiquitin chains on RelA, a catalytic property shared only with ataxin-3 and OTU1. USP48 chain-trimming activity is regulated by CK2-mediated phosphorylation in response to cytokine stimulation. CSN and USP48 cooperatively stabilize the nuclear pool of RelA to facilitate timely induction and shutoff of NF-κB target genes. |
siRNA screen identification, Co-IP (USP48–CSN, USP48–RelA), in vitro ubiquitin chain trimming assays, phosphorylation assays with CK2, NF-κB reporter assays |
Biochimica et biophysica acta |
High |
25486460
|
| 2017 |
USP48 deubiquitinates and stabilizes Gli1 protein by directly cleaving its ubiquitin, activating Gli-dependent transcription. USP48 knockdown inhibits Gli1 target gene expression and glioblastoma cell proliferation and tumorigenesis. The Hedgehog pathway induces USP48 expression via Gli1-mediated transcription, forming a positive feedback loop. |
Co-IP (USP48–Gli1 interaction), DUB activity assay (ubiquitin cleavage from Gli1), Gli reporter assays, siRNA knockdown with proliferation and tumor growth readouts, Gli1 rescue experiments |
EMBO reports |
High |
28623188
|
| 2017 |
USP48 deubiquitinates and stabilizes TRAF2 in epithelial cells, specifically targeting the TRAF2 pool linked to the JNK pathway but not the NF-κB or p38 pathways. USP48 is serine-phosphorylated in response to TNF-α by GSK3β, increasing its DUB activity. Knockdown of USP48 reduces TRAF2 stability, attenuates TNF-α/JNK signaling, and increases E-cadherin expression and epithelial barrier integrity. |
Co-IP (USP48–TRAF2), K48-polyubiquitination assays, pathway-specific rescue experiments, GSK3β phosphorylation assay, USP48 knockdown with E-cadherin and barrier function readouts |
FASEB journal |
High |
28874458
|
| 2021 |
USP48 physically binds SIRT6 and stabilizes it by removing K48-linked ubiquitin chains specifically at K33 and K128 of SIRT6, preventing its proteasomal degradation and thereby impeding metabolic reprogramming (glycolysis) in hepatocellular carcinoma cells. |
Co-IP (USP48–SIRT6), K48-linked deubiquitination site-mapping (K33, K128 of SIRT6), glycolysis assays, cell-based ubiquitination assays |
Cancer research |
Medium |
33903120
|
| 2023 |
USP48 promotes pyroptosis in cancer cells by binding GSDME (gasdermin E) and removing K48-linked ubiquitination at K120 and K189 of GSDME, thereby stabilizing it. CRISPR-Cas9 screen identified USP48 loss as inhibiting pyroptosis; USP48 knockout suppressed T cell and tumor-associated macrophage function in the tumor microenvironment. |
CRISPR-Cas9 loss-of-function screen, Co-IP (USP48–GSDME), site-specific K48-deubiquitination assays (K120, K189), pyroptosis assays, in vivo mouse tumor models with PD-1 blockade |
Cancer research |
High |
36607699
|
| 2021 |
USP48 interacts with and stabilizes Aurora B protein by deubiquitinating it, maintaining its steady-state levels during the cell cycle. USP48 knockout causes delayed cell cycle progression, mitotic defects, and cytokinesis failure. |
Deubiquitinase knockout strategy, Co-IP (USP48–Aurora B), protein half-life assays, cell cycle progression analysis, cytokinesis failure quantification |
International journal of molecular sciences |
Medium |
34445214
|
| 2019 |
The catalytic USP domain of USP48 mediates its physical interaction with the N-terminal region of the Rel homology domain (RHD) of nuclear RelA. This was mapped using overexpressed truncated proteins. |
Co-IP with truncated USP48 and RelA domain constructs, nuclear co-localization experiments |
Molecular biology reports |
Medium |
30628021
|
| 2022 |
In H. pylori infection, USP48 interacts with CSN subunit CSN1 and stabilizes nuclear RelA by deubiquitination, prolonging de novo synthesis of DUB A20. A20 then suppresses caspase-8 activity and apoptotic cell death, defining a synergistic USP48–A20 mechanism that promotes cell survival. |
Co-IP (USP48–CSN1, USP48–RelA), deubiquitination assays, A20 expression measurement, caspase-8 activity assay, apoptosis readout in H. pylori-infected cells |
Cellular and molecular life sciences |
Medium |
35913642
|
| 2022 |
USP48 downregulation stabilizes p65 (NF-κB) in the nuclear compartment of retinal pigment epithelium (RPE) cells, increasing NF-κB transcriptional activity — contrary to the stabilizing role described in other cell types. This delineates a negative regulatory role for USP48 on NF-κB in RPE cells. |
siRNA knockdown of USP48 in RPE cells, subcellular fractionation, NF-κB reporter assay, TNFα stimulation |
International journal of molecular sciences |
Low |
36077078
|
| 2022 |
USP48 localizes to the basal body in retinal cells and interacts with the IRD-associated proteins ARL3 and UNC119a, stabilizing their protein levels. This suggests a role for USP48 in photoreceptor ciliary protein regulation and intracellular transport. |
Co-IP (USP48–ARL3, USP48–UNC119a), immunohistochemistry/subcellular localization in retinal cells, protein stability assays |
International journal of molecular sciences |
Medium |
36293380
|
| 2021 |
USP48 has catalytic deubiquitinase (ubiquitin hydrolase) activity; disease-associated missense variants in USP48 are unable to hydrolyze tetra-ubiquitin in vitro, confirming the catalytic requirement for ubiquitin hydrolysis. USP48 is expressed in spiral ganglion neurons and other inner ear structures; zebrafish knocked down for usp48 show impaired statoacoustic neuron development and vestibular/hearing dysfunction. |
In vitro tetra-ubiquitin hydrolysis assay with mutant proteins, 3D structural modeling, immunohistology in human inner ear, zebrafish knockdown with acoustic startle response assay |
Human molecular genetics |
High |
34059922
|
| 2018 |
Recurrent somatic mutations in USP48 (predominantly M415I or M415V) occur in USP8 wild-type corticotroph adenomas. Similar to USP8 mutants, USP48 mutants enhance promoter activity and transcription of the POMC gene (the ACTH precursor), providing a mechanism for ACTH overproduction in these tumors. |
Sanger/targeted sequencing of tumor DNA, POMC promoter reporter assay in cells transfected with mutant USP48 constructs |
Nature communications |
Medium |
30093687
|
| 2023 |
USP48 (formerly USP31) is a nuclear deubiquitinase whose nuclear localization is mediated by a conserved 13-amino acid nuclear localization signal. USP48 interacts with NF-κB transcription factor and deubiquitinates p65, promoting its stability and activation, which upregulates NF-κB target genes that inhibit synaptogenesis. USP48 expression induces filopodia elaboration, spine loss, reduced synaptic protein clustering in vitro, and erases ~70% of functional synapses in vivo; depleting NF-κB prevents USP48-dependent spine pruning. |
NLS mutagenesis (nuclear localization signal), Co-IP (USP48–p65), deubiquitination assay (p65), NF-κB reporter assay, live imaging of spine dynamics, electrophysiological synapse counting in vivo, NF-κB depletion epistasis |
bioRxivpreprint |
Medium |
37781625
|
| 2024 |
USP48 deubiquitinates HMGA2, stabilizing it and promoting tumor invasion and metastasis. USP48 undergoes SUMOylation at lysine K258, which enhances its binding affinity for HMGA2. A small-molecule inhibitor DUB-IN-2 blocks USP48 activity and induces HMGA2 destabilization. |
Mass spectrometry identification, Co-IP (USP48–HMGA2), overexpression/knockdown protein stability assays, SUMOylation site mapping (K258), DUB-IN-2 pharmacological inhibition, tumor invasion/metastasis assays |
Acta pharmaceutica sinica. B |
Medium |
38572092
|
| 2023 |
USP48 interacts with MrgC (Mas-related G protein-coupled receptor C) in spinal cord neurons and reduces its K48-linked ubiquitination, stabilizing MrgC receptor levels. In a murine bone cancer pain model, spinal cord USP48 expression is reduced; AAV-mediated USP48 overexpression increased MrgC levels and alleviated pain behaviors. |
Co-IP (USP48–MrgC), overexpression/knockdown in N2a cells with receptor number quantification, ubiquitination assay, intrathecal AAV injection with pain behavior readout |
European journal of pain |
Medium |
36864656
|
| 2025 |
USP48 stabilizes calponin 1 (CNN1) via deubiquitination in cardiomyocytes. The USP48/CNN1 axis inhibits release of CXCL1 and CXCL2 through inactivation of the ERK1/2 pathway, conferring cardioprotection in diabetes-aggravated myocardial ischemia-reperfusion injury. |
Proteomics identification of CNN1, cardiac-specific KO and OE in mice, Co-IP (USP48–CNN1), ubiquitination assay, RNA-seq, ERK1/2 pathway readout, CXCL1/2 antibody blockade rescue |
Metabolism: clinical and experimental |
Medium |
40513941
|
| 2025 |
USP48 promotes NLRP3-dependent pyroptosis of alveolar macrophages in sepsis-induced acute lung injury by directly interacting with and deubiquitinating NEK7, stabilizing it and thereby activating the NEK7/NLRP3/caspase-1/GSDMD signaling axis. |
Co-IP (USP48–NEK7), NEK7 ubiquitination assay, USP48 knockdown in vivo and in vitro, NEK7 overexpression rescue experiment, NLRP3 inflammasome activation readout, murine sepsis model |
International immunopharmacology |
Medium |
40580743
|
| 2025 |
USP48 is recruited to sites of DNA damage and deubiquitinates H2A variants and proteins important for DNA damage repair. Loss of USP48 increases chromatin accessibility upon HMA treatment, sensitizing AML cells to DNMT1 inhibition-induced cell death. |
CRISPR loss-of-function screens, chromatin accessibility assays (ATAC-seq implied), USP48 localization at DNA damage sites, H2A deubiquitination assay |
bioRxivpreprint |
Medium |
|
| 2025 |
USP48 is recruited to newly hypomethylated CpG islands upon DNA demethylation and deubiquitinates non-canonical histones, establishing a molecular link between DNA methylation state and chromatin modification. Loss of USP48 (naturally occurring via biallelic deletions) sensitizes hematologic and solid tumors to DNMT1 inhibition in vitro and in vivo. |
CRISPR drug modifier screens across >600 cancer models, ChIP or genomic localization to hypomethylated CpG islands, non-canonical histone deubiquitination assay, in vitro and in vivo tumor sensitization experiments |
bioRxivpreprint |
Medium |
|
| 2025 |
USP48 interacts with and stabilizes TAK1 through deubiquitination; this inhibits TAK1-triggered NF-κB activation and suppresses colorectal cancer tumorigenesis. USP48 expression also positively correlates with M1-type tumor-associated macrophage polarization. |
Co-IP (USP48–TAK1), deubiquitination assay, qRT-PCR for NF-κB targets, flow cytometry for macrophage polarization, cell proliferation/invasion/apoptosis assays |
Experimental cell research |
Medium |
39971179
|
| 2026 |
USP48 interacts with and stabilizes DBF4 by modulating its ubiquitination. USP48 knockdown reduces DBF4 protein levels and inhibits ccRCC cell proliferation, migration, invasion, and causes cell cycle arrest and apoptosis. DBF4 overexpression rescues USP48-deficiency phenotypes in ccRCC cells. |
Luciferase-tagged DBF4 USP screen (40 USPs), Co-IP (USP48–DBF4), ubiquitination assay, KD + rescue experiments, xenograft in vivo assay |
Cancer cell international |
Medium |
42163235
|
| 2026 |
USP48 associates with YBX1 and removes K48-linked polyubiquitin chains from it, preventing proteasomal degradation. YBX1 stabilization by USP48 drives transcriptional activation of PTK7 and Wnt/β-catenin signaling, forming a positive feedback loop (TCF7L2 directly upregulates USP48 transcription) that sustains stem-like osimertinib resistance in EGFR-mutant NSCLC. |
CRISPR-Cas9 dropout screening in patient-derived organoids, Co-IP (USP48–YBX1), K48-ubiquitination removal assay, TCF7L2 ChIP/promoter assay, USP48 inhibition with glycyrrhizic acid, orthotopic and PDX mouse models |
Cancer letters |
Medium |
42142703
|
| 2025 |
USP48 directly interacts with and stabilizes HEG1 by removing K48-linked polyubiquitin chains, preventing its proteasomal degradation and sustaining AKT1 stabilization and AKT signaling in gastric cancer. |
Co-IP (USP48–HEG1), K48-ubiquitination assay, RNA-seq, pharmacogenomic data analysis, in vivo and in vitro proliferation/clonogenicity assays |
European journal of medical research |
Low |
41013721
|
| 2024 |
USP48 deubiquitinates and stabilizes SLC1A5, protecting retinal pigment epithelial cells from high-glucose-induced apoptosis, inflammation, ferroptosis, and oxidative stress. |
Co-IP (USP48–SLC1A5), overexpression/knockdown stability assays, SLC1A5 rescue experiment, ferroptosis and oxidative stress biochemical assays |
Journal of bioenergetics and biomembranes |
Low |
38427128
|