# Multi-omics insights into GBA1-associated Parkinson’s disease: interplay of genomics, transcriptomics, proteomics, and lipidomics

**Authors:** Yang Ni, Huaibin Cai, Yaping Shao, Weidong Le

PMC · DOI: 10.1186/s13024-026-00931-7 · Molecular Neurodegeneration · 2026-01-29

## TL;DR

This review explores how genetic and molecular factors linked to the GBA1 gene contribute to Parkinson’s disease, aiming to improve early diagnosis and treatment.

## Contribution

The paper provides a comprehensive review of multi-omics insights into GBA1-associated Parkinson’s disease, highlighting potential biomarkers and therapeutic strategies.

## Key findings

- GBA1 mutations are strongly linked to Parkinson’s disease through disrupted lysosomal and metabolic functions.
- Multi-omics approaches reveal potential stratification biomarkers for GBA1-associated Parkinson’s disease.
- Dysregulated sphingolipid metabolism and α-synuclein aggregation are key mechanisms in GBA1-PD progression.

## Abstract

Parkinson’s disease (PD) is the second most prevalent neurodegenerative disorder worldwide. The pathogenesis of PD is driven by multifactorial mechanisms involving a complex interplay among environmental exposures, genetic susceptibility, and aging-related processes. Among genetic contributors, heterozygous pathogenic variants in the GBA1 gene represent the most significant heritable risk factor for PD. The disease mechanisms of GBA1 defects in PD remains incompletely understood. It has been proposed that a partial loss-of-function of the lysosomal enzyme glucocerebrosidase, or potential toxic gain-of-function effects (e.g., endoplasmic reticulum stress) might contribute to the disease. These processes initiate a cascade of pathophysiological events, including dysregulated sphingolipid metabolism, compromised lysosomal-autophagic function, mitochondrial dysfunction, and accelerated α-synuclein aggregation. Subsequent dopaminergic neurodegeneration and sustained neuroinflammatory cascades ultimately drive PD progression. Nevertheless, the precise molecular mechanisms linking GBA1 mutations to PD pathogenesis remain incompletely elucidated, and clinically validated early diagnostic biomarkers for GBA1-associated PD (GBA1-PD) are still lacking. This review summarizes the distinct clinical phenotypes and mechanistic underpinnings of GBA1-PD, with particular emphasis on omics-derived stratification biomarkers (identified through genomics, transcriptomics, proteomics, and lipidomics approaches) coupled with neuroimaging signatures. This review advances our understanding of GBA1-mediated PD pathogenesis while providing a framework for developing precision diagnostic strategies and targeted therapeutic interventions addressing PD heterogeneity.

## Linked entities

- **Genes:** GBA1 (glucosylceramidase beta 1) [NCBI Gene 2629]
- **Diseases:** Parkinson’s disease (MONDO:0005180)

## Full-text entities

- **Genes:** UGCG (UDP-glucose ceramide glucosyltransferase) [NCBI Gene 7357] {aka GCS, GLCT1}, CXCL8 (C-X-C motif chemokine ligand 8) [NCBI Gene 3576] {aka GCP-1, GCP1, IL8, LECT, LUCT, LYNAP}, TRIM13 (tripartite motif containing 13) [NCBI Gene 10206] {aka CAR, DLEU5, LEU5, RFP2, RNF77}, ATHS (atherosclerosis susceptibility (lipoprotein associated)) [NCBI Gene 470] {aka ALP}, MT1X (metallothionein 1X) [NCBI Gene 4501] {aka MT-1l, MT1}, MAPT (microtubule associated protein tau) [NCBI Gene 4137] {aka DDPAC, FTD1, FTDP-17, MAPTL, MSTD, MTBT1}, LAMP2 (lysosome associated membrane protein 2) [NCBI Gene 3920] {aka CD107b, DND, LAMP-2, LAMPB, LGP-96, LGP110}, CCL2 (C-C motif chemokine ligand 2) [NCBI Gene 6347] {aka GDCF-2, HC11, HSMCR30, MCAF, MCP-1, MCP1}, ASAH1 (N-acylsphingosine amidohydrolase 1) [NCBI Gene 427] {aka AC, ACDase, ASAH, PHP, PHP32, SMAPME}, FOXA2 (forkhead box A2) [NCBI Gene 3170] {aka HNF-3-beta, HNF3B, TCF3B}, Gba1 (glucosylceramidase beta 1) [NCBI Gene 14466] {aka GC, GCase, GLUC, Gba, betaGC}, SCD (stearoyl-CoA desaturase) [NCBI Gene 6319] {aka FADS5, MSTP008, SCD1, SCDOS, hSCD1}, GALC (galactosylceramidase) [NCBI Gene 2581], EGR1 (early growth response 1) [NCBI Gene 1958] {aka AT225, G0S30, KROX-24, NGFI-A, TIS8, ZIF-268}, BCL6 (BCL6 transcription repressor) [NCBI Gene 604] {aka BCL5, BCL6A, LAZ3, ZBTB27, ZNF51}, SLC6A3 (solute carrier family 6 member 3) [NCBI Gene 6531] {aka DAT, DAT1, PKDYS, PKDYS1}, SLC18A3 (solute carrier family 18 member A3) [NCBI Gene 6572] {aka CMS21, VACHT}, NCSTN (nicastrin) [NCBI Gene 23385] {aka ATAG1874}, COLEC12 (collectin subfamily member 12) [NCBI Gene 81035] {aka CLP1, NSR2, SCARA4, SRCL}, CCR1 (C-C motif chemokine receptor 1) [NCBI Gene 1230] {aka CD191, CKR-1, CKR1, CMKBR1, HM145, MIP1aR}, PSAP (prosaposin) [NCBI Gene 5660] {aka GLBA, PARK24, PSAPD, SAP1, SAP2}, MTOR (mechanistic target of rapamycin kinase) [NCBI Gene 2475] {aka FRAP, FRAP1, FRAP2, RAFT1, RAPT1, SKS}, NRCAM (neuronal cell adhesion molecule) [NCBI Gene 4897] {aka NEDNMS}, NR4A2 (nuclear receptor subfamily 4 group A member 2) [NCBI Gene 4929] {aka HZF-3, IDLDP, NOT, NURR1, RNR1, TINUR}, MT1F (metallothionein 1F) [NCBI Gene 4494] {aka MT1}, ADI1 (acireductone dioxygenase 1) [NCBI Gene 55256] {aka APL1, ARD, ARD', Fe-ARD, HMFT1638, MTCBP1}, DUSP1 (dual specificity phosphatase 1) [NCBI Gene 1843] {aka CL100, HVH1, MKP-1, MKP1, PTPN10}, ITM2B (integral membrane protein 2B) [NCBI Gene 9445] {aka ABRI, BRI, BRI2, BRICD2B, E25B, E3-16}, POLR2D (RNA polymerase II subunit D) [NCBI Gene 5433] {aka HSRBP4, HSRPB4, RBP4, RPB16, RPB4}, HEXB (hexosaminidase subunit beta) [NCBI Gene 3074] {aka ENC-1AS, HEL-248, HEL-S-111}, CSF2 (colony stimulating factor 2) [NCBI Gene 1437] {aka CSF, GMCSF}, PLIN1 (perilipin 1) [NCBI Gene 5346] {aka FPLD4, PERI, PLIN}, CNTN1 (contactin 1) [NCBI Gene 1272] {aka CMYO12, CMYP12, F3, GP135, MYPCN}, PIK3CB (phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit beta) [NCBI Gene 5291] {aka P110BETA, PI3K, PI3KBETA, PIK3C1}, LMNA (lamin A/C) [NCBI Gene 4000] {aka CDCD1, CDDC, CMD1A, CMT2B1, EMD2, FPL}, CD14 (CD14 molecule) [NCBI Gene 929], LRRK2 (leucine rich repeat kinase 2) [NCBI Gene 120892] {aka AURA17, DARDARIN, PARK8, RIPK7, ROCO2}, FKBP4 (FKBP prolyl isomerase 4) [NCBI Gene 2288] {aka FKBP51, FKBP52, FKBP59, HBI, Hsp56, PPIase}, AKT1 (AKT serine/threonine kinase 1) [NCBI Gene 207] {aka AKT, PKB, PKB-ALPHA, PRKBA, RAC, RAC-ALPHA}, FUCA2 (alpha-L-fucosidase 2) [NCBI Gene 2519] {aka dJ20N2.5}, EREG (epiregulin) [NCBI Gene 2069] {aka EPR, ER, Ep}, CERS4 (ceramide synthase 4) [NCBI Gene 79603] {aka LASS4, Trh1}, SELENBP1 (selenium binding protein 1) [NCBI Gene 8991] {aka EHMTO, HEL-S-134P, LPSB, MTO, SBP56, SP56}, APOE (apolipoprotein E) [NCBI Gene 348] {aka AD2, APO-E, ApoE4, LDLCQ5, LPG}, SNCA (synuclein alpha) [NCBI Gene 6622] {aka NACP, PARK1, PARK4, PD1}, LAMP1 (lysosome associated membrane protein 1) [NCBI Gene 3916] {aka CD107a, LAMPA, LGP120}, NFATC3 (nuclear factor of activated T cells 3) [NCBI Gene 4775] {aka NF-AT4c, NFAT4, NFATX, n339260}, SCARB2 (scavenger receptor class B member 2) [NCBI Gene 950] {aka AMRF, CD36L2, EPM4, HLGP85, LGP85, LIMP-2}, CERS2 (ceramide synthase 2) [NCBI Gene 29956] {aka L3, LASS2, SP260, TMSG1}, RAB8A (RAB8A, member RAS oncogene family) [NCBI Gene 4218] {aka MEL, RAB8}, JUNB (JunB proto-oncogene, AP-1 transcription factor subunit) [NCBI Gene 3726] {aka AP-1}, LAMTOR2 (late endosomal/lysosomal adaptor, MAPK and MTOR activator 2) [NCBI Gene 28956] {aka ENDAP, HSPC003, MAPBPIP, MAPKSP1AP, ROBLD3, Ragulator2}, GLA (galactosidase alpha) [NCBI Gene 2717] {aka GALA}, GBA1 (glucosylceramidase beta 1) [NCBI Gene 2629] {aka GBA, GCB, GLUC}, LONP1 (lon peptidase 1, mitochondrial) [NCBI Gene 9361] {aka CODASS, LON, LONP, LonHS, PIM1, PRSS15}, RET (ret proto-oncogene) [NCBI Gene 5979] {aka CDHF12, CDHR16, HSCR1, MEN2A, MEN2B, MTC1}, Snca (synuclein, alpha) [NCBI Gene 20617] {aka NACP, alpha-Syn, alphaSYN}, SLC39A8 (solute carrier family 39 member 8) [NCBI Gene 64116] {aka BIGM103, CDG2N, LZT-Hs6, PP3105, ZIP8}, RPTOR (regulatory associated protein of MTOR complex 1) [NCBI Gene 57521] {aka KOG1, Mip1}, TUBB2B (tubulin beta 2B class IIb) [NCBI Gene 347733] {aka CDCBM7, PMGYSA, bA506K6.1}
- **Diseases:** types II/III (MESH:C536044), GCase deficiency (MESH:D005776), synaptic dysfunction (MESH:C536122), synaptic damage (MESH:D012183), Rapid eye movement sleep behavior disorder (MESH:D020187), tremor (MESH:D014202), Inflammation (MESH:D007249), lymphopenia (MESH:D008231), anxiety (MESH:D001007), parkinsonian syndromes (MESH:D020734), PD (MESH:D010300), Lewy (MESH:D018827), depression (MESH:D003866), hyposmia (MESH:D000086582), inflammatory dysregulation (MESH:D021081), postural instability (MESH:D054972), progeria syndrome (MESH:D011371), axial dysfunction (MESH:C537791), cognitive and motor decline (MESH:D003072), visual hallucinations (MESH:D006212), degeneration of dopaminergic neurons (MESH:D009410), dopaminergic neuronal damage (MESH:D009422), neurotoxicity (MESH:D020258), DLB (MESH:D020961), dementia (MESH:D003704), lysosomal storage disorder (MESH:D016464), fatigue (MESH:D005221), motor impairments (MESH:D000068079), atrophy (MESH:D001284), cytotoxicity (MESH:D064420), rigidity (MESH:D009127), bradykinesia (MESH:D018476), type I (MESH:D006969), mitochondrial deficits (MESH:D028361), neurodegeneration (MESH:D019636), psychiatric symptoms (MESH:D001523), PDD (MESH:D003966), synucleinopathy (MESH:D000080874), neuroinflammation (MESH:D000090862), autonomic dysfunction (MESH:D001342)
- **Chemicals:** GlcSph (MESH:C035742), glycosphingolipid (MESH:D006028), Cholesterol (MESH:D002784), oleic acid (MESH:D019301), triglyceride (MESH:D014280), norepinephrine (MESH:D009638), 123I-ioflupane (MESH:C519528), GM1 (MESH:D005677), SM (MESH:D012493), GalCer (MESH:D005699), TG (MESH:D013866), ganglioside (MESH:D005732), C16:0 (-), carmofur (MESH:C017367), sphingomyelin (MESH:D013109), S1P (MESH:C060506), sphingolipid (MESH:D013107), dopamine (MESH:D004298), Cer (MESH:D002518), [18F (MESH:C000615276), [18F]-DOPA (MESH:C043437), Ambroxol (MESH:D000551), monounsaturated fatty acid (MESH:D005229), zinc (MESH:D015032), GlcCer (MESH:D005963), Lipid (MESH:D008055), [18F] FP-CIT (MESH:C087552), LacCer (MESH:C009744), sphingosine (MESH:D013110), glucose (MESH:D005947), CE (MESH:D002563), cholesterol ester (MESH:D002788), 123I-metaiodobenzylguanidine (MESH:D019797)
- **Species:** Homo sapiens (human, species) [taxon 9606], Mus musculus (house mouse, species) [taxon 10090], Saccharomyces cerevisiae (baker's yeast, species) [taxon 4932]
- **Mutations:** D409H, T369M, N370S, E326K, IVS2 + 1G > A, R359X, L444P, R496H
- **Cell lines:** SH-SY5Y — Homo sapiens (Human), Neuroblastoma, Cancer cell line (CVCL_0019)

## Full text

_Full body text omitted from this summary view._ Fetch the complete paper as Markdown: https://tomesphere.com/paper/PMC12857040/full.md

## Figures

4 figures with captions in the complete paper: https://tomesphere.com/paper/PMC12857040/full.md

## References

1 references — full list in the complete paper: https://tomesphere.com/paper/PMC12857040/full.md

---
Source: https://tomesphere.com/paper/PMC12857040