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BACE2 and lipid metabolism (global proteomic analysis)

ABSTRACT: global proteomic analysis of melanoma cell lines expressing different bace2 levels

INSTRUMENT(S):

ORGANISM(S): Homo Sapiens (human)

SUBMITTER: vittoria matafora

LAB HEAD: Angela Bachi

PROVIDER: PXD058702 | Pride | 2026-02-09

REPOSITORIES: Pride

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			Action	DRS
	CC_115_1.raw	Raw
	CC_115_1r.raw	Raw
	CC_115_2rr.raw	Raw
	CC_115_2rrr.raw	Raw
	CC_115_3r.raw	Raw

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Publications

BACE2 tunes lipid uptake through lipid transporters shedding supporting cancer cell proliferation.

Matafora Vittoria V Elhagh Alice A Morelli Alessandra A Tronci Laura L Cattaneo Angela A Conti Camilla C Casagrande Francesca F Farris Francesco F Bachi Angela A

Journal of experimental & clinical cancer research : CR 20260108 1

PMID: 41507981

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BACE2 and lipid metabolism (SSO treatment plus BACE2i time couse proteomic analysis)

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Transcriptome analysis after BACE2 silencing in ocular melanoma cella

Project description:In order to study the mechanism of BACE2 and the development of melanoma, we established a model of low expression of BACE2 in melanoma. The results showed that the expression of tmem38b was decreased after BACE2 knockdown, and the intracellular calcium concentration was decreased. In order to reveal the interaction between BACE2 and tmem38b and the effect of intracellular Ca2 + concentration on the formation and development of melanoma, and to further explore BACE2 The relationship between the expression level and the survival time of OM patients provides new ideas for the treatment of malignant tumors

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Chemoproteomic Approach for Identifying Nuclear Arsenite-binding Proteins

Project description:Trivalent arsenic [As(III)], the predominant environmental form, poses significant health risks, including cancer, diabetes, and cardiovascular and neurodegenerative diseases, through contaminated food and water ingestion. Studies have explored As(III) toxicity mechanisms, particularly its displacement of Zn(II) in zinc-binding proteins, but identifying direct As(III)-binding proteins remains crucial. Given the nucleic acid binding capacity of many zinc-binding proteins, we hypothesized that nuclear As(III)-binding proteins could reveal key toxicity targets. Using a quantitative proteomics approach, we performed affinity pull-down with a biotin-As(III) probe on nuclear protein lysate. We identified splicing factor 1 (SF1) as a direct As(III)-binding protein and demonstrated that this interaction modulates mRNA splicing in human cells.

2025-05-03 | PXD061537 | Pride

Quantitative RNA interactome capture (qRIC) identifies phosphorylation sites with regulatory potential - RBM20 BioID

Project description:RNA binding proteins (RBPs) are major regulators of gene expression at the post-transcriptional level. While many posttranslational modification sites in RBPs have been identified, less is known about how these modifications regulate RBP function. Here, we develop quantitative RNA-interactome capture (qRIC) to quantify the fraction of cellular RBPs pulled down with polyadenylated mRNAs. Applying qRIC to HEK293T cells quantified pulldown efficiencies of over 300 mRBPs. Combining qRIC with phosphoproteomics allowed us to systematically compare pulldown efficiencies of phosphorylated and non-phosphorylated forms of mRBPs. Over hundred phosphorylation sites show increased or decreased pull-down efficiency compared to their host RBPs and thus have regulatory potential. Our data captures known regulatory phosphorylation sites in ELAVL1, SF3B1 and UPF1 and identifies new potentially regulatory sites. Follow-up experiments on the cardiac splicing regulator RBM20 revealed that multiple phosphorylation sites in the C-terminal disordered region affect nucleo-cytoplasmic shuttling, association with cytosolic RNA granules and alternative splicing. Together, we show that qRIC is a scalable method to identify the function of posttranslational modifications in RBPs.

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Global gene expression profile of hIAPP-Tg mice, BACE2-KO mice and hIAPP-TgxBACE2-KO mice

Project description:12 weeks old wild type, hIAPP transgenic, BACE2 deficient and both overexpressing hIAPP and lacking BACE2 mice were taken for the study. Pancreatic islets were isolated at sacrifice. RNA was extracted and hybridized on Affymetrix microarrays. We used microarrays to determine gene expression changes in pancreatic islets from mice overexepressing hIAPP, mice with a functional deletion in BACE2, mice with both of these modifications and wild type mice.

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Plasma proteomics of BACE2 KO mice

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Paradiplonema papillatum CENPA-V5 IP

Project description:Transmission of genetic material from one generation to the next is a fundamental feature of all living cells. In eukaryotes, a macromolecular complex called the kinetochore plays crucial roles in this process by providing linkage between chromosomes and spindle microtubules. Little is known about this process in evolutionarily diverse protists. Within the supergroup Discoba, Eeuglenozoans forms a highly diversespeciose group of unicellular flagellates -including kinetoplastids, euglenids, and diplonemids. Kinetoplastids have an unconventional kinetochore system, while euglenids have a canonical onekinetochore system. It remains unclear what kind of kinetochores are present in diplonemids, a group of extremely diverse and abundant marine flagellatesplankton. Here, we employed deep homology detection protocols using profile-versus-profile Hidden Markov Model searches and AlphaFold-based structural comparisons to detect homologies that might have been previously missed. Interestingly, we still could not detect orthologs for most of the kinetoplastid nor canonical kinetochore subunits with few exceptions including a putative centromere-specific histone H3 variant (cenH3/CENP-A), the spindle checkpoint protein Mad2, the chromosomal passenger complex members Aurora and INCENP, and broadly conserved proteins like the CLK kinase and the meiotic synaptonemal complex proteins SYCP2 that function at kinetoplastid kinetochores. We examined the localization of five candidate kinetochore-associated proteins in the model diplonemid, Paradiplonema papillatum. PpCENP-A shows discrete dots in the nucleus, implying that it is likely a kinetochore component. PpMad2, PpCLK, PpSYCP2L1 and INCENP reside in the nucleus, but no clear kinetochore localization was observed. Altogether, these results raise a possibility that diplonemids evolved a hitherto unknown type of kinetochore system.

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Hypolipidemic effects of beetroot juice in SHR-CRP and HHTg rat models of metabolic syndrome: Analysis of hepatic proteome.

Project description:Recently, red beetroot has attracted attention as a health promoting functional food. Studies showed that beetroot administration can reduce blood pressure and ameliorate parameters of glucose and lipid metabolism, however, mechanisms underlying these beneficial effects of beetroot are not fully understood. In the current study, we analyzed effects of beetroot on parameters of glucose and lipid metabolism in two models of metabolic syndrome, (i) transgenic spontaneously hypertensive rats expressing human C-reactive protein (SHR-CRP rats), and (ii) hereditary hypertriglyceridemic (HHTg) rats. Treatment with beetroot juice for 4 weeks was in both models associated with amelioration of oxidative stress, reduced circulating lipids, smaller visceral fat depots, and lower ectopic fat accumulation in the liver, compared to their respective untreated controls. On the other hand, beetroot treatment had no significant effects on sensitivity of muscle and adipose tissue to insulin action in both models. Analyses of hepatic proteome revealed significantly deregulated proteins involved in glycerophospholipid metabolism, mTOR signalling, inflammation, and cytoskeleton rearrangement.

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