# Inflammation and Oxidative-Stress Pathways Are Associated with Idiopathic Sudden Hearing Loss: A Genome-Wide Association Study in 15,494 Japanese Individuals

**Authors:** Ryosuke Kitoh, Shin-Ya Nishio, Yutaka Takumi, Shin-ichi Usami

PMC · DOI: 10.3390/ijms27041836 · International Journal of Molecular Sciences · 2026-02-14

## TL;DR

This study identifies genetic loci linked to sudden hearing loss in Japanese individuals, suggesting inflammation and oxidative stress play a role.

## Contribution

The study provides the first genome-wide association evidence for immune-inflammatory and stress-related pathways in idiopathic sudden hearing loss.

## Key findings

- Eight loci reached genome-wide significance, including FHIT and others near LHX2 and TRMT1L.
- MAGMA identified eight genes associated with iSSNHL at FDR < 0.05.
- Findings suggest immune-inflammatory and cellular stress mechanisms contribute to iSSNHL susceptibility.

## Abstract

The etiology of idiopathic sudden sensorineural hearing loss (iSSNHL) remains unclear, and genome-wide genetic evidence is limited. We conducted a multicenter Japanese case–control genome-wide association study including 192 clinically defined iSSNHL cases and 15,302 controls aged ≥80 years without a history of hearing loss. After cross-platform SNP harmonization and imputation (Eagle/Minimac4), association testing was performed using dosage-based logistic regression in PLINK 2.0, adjusting for sex and principal components (PC1–PC10). Gene- and pathway-level analyses were conducted using MAGMA and the PANTHER overrepresentation test. Genomic inflation was modest (λ_GC = 1.04). Eight loci reached genome-wide significance (p < 5 × 10−8), led by FHIT, with additional loci near LHX2, TRMT1L, MEGF10, SPATS1, SAMD5, MYT1L, and ID4; 21 loci met the suggestive threshold (p < 1 × 10−6). MAGMA identified eight genes at FDR < 0.05 (FHIT, TRMT1L, MEGF10, RNF2, SWT1, VAMP1, TAPBPL, and C9orf3). These findings suggest that immune-inflammatory and cellular stress–homeostasis mechanisms may contribute to iSSNHL susceptibility and provide candidate loci for future replication and functional studies.

## Linked entities

- **Genes:** FHIT (fragile histidine triad diadenosine triphosphatase) [NCBI Gene 2272], LHX2 (LIM homeobox 2) [NCBI Gene 9355], TRMT1L (tRNA methyltransferase 1L) [NCBI Gene 81627], MEGF10 (multiple EGF like domains 10) [NCBI Gene 84466], SPATS1 (spermatogenesis associated serine rich 1) [NCBI Gene 221409], SAMD5 (sterile alpha motif domain containing 5) [NCBI Gene 389432], MYT1L (myelin transcription factor 1 like) [NCBI Gene 23040], ID4 (inhibitor of DNA binding 4) [NCBI Gene 3400], RNF2 (ring finger protein 2) [NCBI Gene 6045], SWT1 (SWT1 RNA endoribonuclease homolog) [NCBI Gene 54823], VAMP1 (vesicle associated membrane protein 1) [NCBI Gene 6843], TAPBPL (TAP binding protein like) [NCBI Gene 55080], AOPEP (aminopeptidase O (putative)) [NCBI Gene 84909]

## Full-text entities

- **Genes:** Megf10 (multiple EGF-like-domains 10) [NCBI Gene 70417] {aka 3000002B06Rik, Gm331}, ITGB3 (integrin subunit beta 3) [NCBI Gene 3690] {aka BDPLT16, BDPLT2, BDPLT24, CD61, FMAIT1, GP3A}, GSR (glutathione-disulfide reductase) [NCBI Gene 2936] {aka CNSHA10, GR, GSRD, HEL-75, HEL-S-122m}, TNF (tumor necrosis factor) [NCBI Gene 7124] {aka DIF, IMD127, TNF-alpha, TNFA, TNFSF2, TNLG1F}, MYT1L (myelin transcription factor 1 like) [NCBI Gene 23040] {aka MRD39, NZF1, ZC2H2C2, ZC2HC4B, myT1-L}, PRKCH (protein kinase C eta) [NCBI Gene 5583] {aka PKC-L, PKCL, PRKCL, nPKC-eta, uORF2}, NPHP3 (nephrocystin 3) [NCBI Gene 27031] {aka CFAP31, MKS7, NPH3, RHPD, RHPD1, SLSN3}, IL1A (interleukin 1 alpha) [NCBI Gene 3552] {aka IL-1 alpha, IL-1A, IL1, IL1-ALPHA, IL1F1}, AKT1 (AKT serine/threonine kinase 1) [NCBI Gene 207] {aka AKT, PKB, PKB-ALPHA, PRKBA, RAC, RAC-ALPHA}, Nfkb1 (nuclear factor of kappa light polypeptide gene enhancer in B cells 1, p105) [NCBI Gene 18033] {aka NF-KB1, NF-kappaB, NF-kappaB1, p105, p50, p50/p105}, ANKRD26P2 (ankyrin repeat domain 26 pseudogene 2) [NCBI Gene 646929], TRMT1L (tRNA methyltransferase 1L) [NCBI Gene 81627] {aka C1orf25, MST070, MSTP070, TRM1L, bG120K12.3}, ICAM1 (intercellular adhesion molecule 1) [NCBI Gene 3383] {aka BB2, CD54, P3.58}, MTHFR (methylenetetrahydrofolate reductase) [NCBI Gene 4524], NFKB1 (nuclear factor kappa B subunit 1) [NCBI Gene 4790] {aka CVID12, EBP-1, KBF1, NF-kB, NF-kB1, NF-kappa-B1}, CNTN5 (contactin 5) [NCBI Gene 53942] {aka HNB-2s, NB-2}, LHX2 (LIM homeobox 2) [NCBI Gene 9355] {aka LH2, hLhx2}, STAT1 (signal transducer and activator of transcription 1) [NCBI Gene 6772] {aka CANDF7, IMD31A, IMD31B, IMD31C, ISGF-3, STAT91}, ID4 (inhibitor of DNA binding 4) [NCBI Gene 3400] {aka IDB4, bHLHb27}, ME2P1 (malic enzyme 2 pseudogene 1) [NCBI Gene 286239], NR3C1 (nuclear receptor subfamily 3 group C member 1) [NCBI Gene 2908] {aka GCCR, GCR, GCRST, GR, GRL}, SWT1 (SWT1 RNA endoribonuclease homolog) [NCBI Gene 54823] {aka C1orf26, HsSwt1}, IFNG-AS1 (IFNG regulatory antisense RNA 1) [NCBI Gene 100885789] {aka GS1-410F4.2, NEST, Tmevpg1}, ITGA2 (integrin subunit alpha 2) [NCBI Gene 3673] {aka BR, CD49B, FMAIT3, GPIa, HPA-5, VLA-2}, ACAD11 (acyl-CoA dehydrogenase family member 11) [NCBI Gene 84129] {aka ACAD-11}, MEGF10 (multiple EGF like domains 10) [NCBI Gene 84466] {aka CMYO10A, CMYO10B, CMYP10A, CMYP10B, EMARDD, SR-F3}, VAMP1 (vesicle associated membrane protein 1) [NCBI Gene 6843] {aka CMS25, SAX1, SPAX1, SYB1, VAMP-1}, AOPEP (aminopeptidase O (putative)) [NCBI Gene 84909] {aka AP-O, APO, C90RF3, C9orf3, DYT31, ONPEP}, SPATS1 (spermatogenesis associated serine rich 1) [NCBI Gene 221409] {aka DDIP, SPATA8, SRSP1}, IL6 (interleukin 6) [NCBI Gene 3569] {aka BSF-2, BSF2, CDF, HGF, HSF, IFN-beta-2}, GSTP1 (glutathione S-transferase pi 1) [NCBI Gene 2950] {aka DFN7, FAEES3, GST3, GSTP, GSTP1-1, HEL-S-22}, NIBAN1 (niban apoptosis regulator 1) [NCBI Gene 116496] {aka C1orf24, FAM129A, GIG39, NIBAN}, Itpr2 (inositol 1,4,5-triphosphate receptor 2) [NCBI Gene 16439] {aka InsP3R-2, InsP3R-5, Ip3r2, Itpr5, insP3R2}, RNF2 (ring finger protein 2) [NCBI Gene 6045] {aka BAP-1, BAP1, DING, HIPI3, LUSYAM, RING1B}, SOD1 (superoxide dismutase 1) [NCBI Gene 6647] {aka ALS, ALS1, HEL-S-44, IPOA, SOD, STAHP}, CASP1 (caspase 1) [NCBI Gene 834] {aka ICE, IL1BC, P45}, FDXR (ferredoxin reductase) [NCBI Gene 2232] {aka ADR, ADXR, ANOA, MMDS9B}, PON1 (paraoxonase 1) [NCBI Gene 5444] {aka ESA, MVCD5, PON}, PCSK1 (proprotein convertase subtilisin/kexin type 1) [NCBI Gene 5122] {aka BMIQ12, NEC1, PC1, PC1/3, PC3, SPC3}, SAMD5 (sterile alpha motif domain containing 5) [NCBI Gene 389432] {aka dJ875H10.1}, C1qa (complement component 1, q subcomponent, alpha polypeptide) [NCBI Gene 12259] {aka Adic, C1q}, RELA (RELA proto-oncogene, NF-kB subunit) [NCBI Gene 5970] {aka AIF3BL3, CMCU, NFKB3, p65}, PIK3CB (phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit beta) [NCBI Gene 5291] {aka P110BETA, PI3K, PI3KBETA, PIK3C1}, Nfkbie (nuclear factor of kappa light polypeptide gene enhancer in B cells inhibitor, epsilon) [NCBI Gene 18037] {aka I-kappa-B-epsilon, IKBE, IkB-E, NF-kappa-BIE, ikB-epsilon}, TNFRSF1A (TNF receptor superfamily member 1A) [NCBI Gene 7132] {aka CD120a, FPF, TBP1, TNF-R, TNF-R-I, TNF-R55}, NOS3 (nitric oxide synthase 3) [NCBI Gene 4846] {aka EC-NOS, ECNOS, MYMY8, NOSIII, cNOS, eNOS}, GNRHR (gonadotropin releasing hormone receptor) [NCBI Gene 2798] {aka GNRHR1, GRHR, HH7, LHRHR, LRHR}, HLA-A (major histocompatibility complex, class I, A) [NCBI Gene 3105] {aka HLAA}, TAPBPL (TAP binding protein like) [NCBI Gene 55080] {aka TAPBP-R, TAPBPR}, IFNG (interferon gamma) [NCBI Gene 3458] {aka IFG, IFI, IMD69}, FHIT (fragile histidine triad diadenosine triphosphatase) [NCBI Gene 2272] {aka AP3Aase, FRA3B}
- **Diseases:** Sudden Hearing Loss (MESH:D003639), vascular occlusion (MESH:D008641), Inflammation (MESH:D007249), injury to (MESH:D014947), tinnitus (MESH:D014012), Ear (MESH:D004427), vertigo (MESH:D014717), ASNHL (MESH:D006319), metabolic dysregulation (MESH:D021081), Hearing Loss (MESH:D034381), ischemia (MESH:D007511), viral infection (MESH:D014777), thrombosis (MESH:D013927), membrane rupture (MESH:D005322), toxicity (MESH:D064420), ARHL (MESH:D010024), coagulation (MESH:D001778), auditory nerve degeneration (MESH:D009410), hair cell injury (MESH:D002280), UNCLASSIFIED (MESH:C562442)
- **Chemicals:** MDA (MESH:D015104), 8-OhdG (MESH:D000080242), VCF (MESH:C043212), cisplatin (MESH:D002945), Ca2+ (-), Dexamethasone (MESH:D003907), lipid (MESH:D008055), steroid (MESH:D013256), TBARS (MESH:D017392)
- **Species:** Mus musculus (house mouse, species) [taxon 10090], Homo sapiens (human, species) [taxon 9606]
- **Mutations:** rs72759216, rs4912910, rs246887, rs574517306, rs553208041, rs186662456, rs181558197, rs200995605, rs79150545, rs123456, rs190158134, rs78023951, rs184005082, G > T, rs570999833, rs139237147, rs78719745, rs146954815, rs3779647, C > T, rs6803403, rs6684586, rs532757028, rs141094288, G > A, rs75786794, rs190546757, rs80344881, rs1799983, rs537646588, A > T, T > C, rs140008019, rs4998557, rs2251780, rs139768353, rs374180147, rs142776659, rs147716413, rs191797614

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## References

45 references — full list in the complete paper: https://tomesphere.com/paper/PMC12941261/full.md

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Source: https://tomesphere.com/paper/PMC12941261