# Systematic Examination of Gene Expression and Proteomic Evidence Across Tissues Supports the Role of Mitochondrial Dysregulation in ME/CFS

**Authors:** Gregory R. Keele, Mike Enger, Quinn Barnette, Roman Ruiz-Esparza, Manuel Alvarado, Ravi Mathur, Jeran K. Stratford, Stephanie N. Giamberardino, Linda Morris Brown, Bradley T. Webb, Megan Ulmer Carnes

PMC · DOI: 10.3390/ijms27041997 · International Journal of Molecular Sciences · 2026-02-19

## TL;DR

This study finds evidence that mitochondrial dysfunction may play a role in ME/CFS, a complex disease with no known cure.

## Contribution

The study systematically integrates gene and protein expression data to highlight mitochondrial dysregulation as a potential mechanism in ME/CFS.

## Key findings

- Mitochondrial genes MT-RNR1 and MT-RNR2 show lower expression in ME/CFS cases across two studies.
- Approved compounds targeting ME/CFS-associated genes suggest potential therapeutic avenues.
- Despite gene-level variability, mitochondrial dysfunction is consistently observed in ME/CFS cases.

## Abstract

Myalgic encephalomyelitis/chronic fatigue syndrome (ME/CFS) is a chronic, multisystem disease characterized by post-exertional malaise and persistent fatigue. The cause of ME/CFS is not well understood, and there are no established biomarkers or FDA-approved pharmacotherapies. The clinical heterogeneity of ME/CFS presents challenges to diagnosis and treatment and necessitates collaborative efforts to generate robust findings. This study leveraged gene and protein expression data from the mapMECFS data repository and the DecodeME Genome-Wide Association Study (GWAS) to assess consistent gene signatures across studies. The mitochondrial genes MT-RNR1 and MT-RNR2 exhibited lower expression in ME/CFS cases in two studies. Combining this with increased expression of mitochondrial genes in platelets from another study, this supports mitochondrial dysregulation as having a role in ME/CFS. Furthermore, ME/CFS-associated genes were mapped to compounds in drug databases as possible treatments for further investigation. In muscle gene expression data, 107 approved compounds target 26 genes with functions relevant to mitochondrial support and immunomodulators. From the DecodeME GWAS, 83 approved compounds target 24 genes with functions related to energy metabolism and mitochondrial function. Though little consistency in specific genes was observed across studies, which highlights the need for larger studies, mitochondrial dysfunction in ME/CFS cases was evident across studies.

## Linked entities

- **Genes:** RNR1 (s-rRNA) [NCBI Gene 4549], RNR2 (l-rRNA) [NCBI Gene 4550]

## Full-text entities

- **Genes:** ND5 (NADH dehydrogenase subunit 5) [NCBI Gene 4540] {aka MTND5}, FABP5 (fatty acid binding protein 5) [NCBI Gene 2171] {aka E-FABP, EFABP, KFABP, PA-FABP, PAFABP}, ATP1A1 (ATPase Na+/K+ transporting subunit alpha 1) [NCBI Gene 476] {aka CMT2DD, HOMGSMR2}, ND3 (NADH dehydrogenase subunit 3) [NCBI Gene 4537] {aka MTND3}, CYTB (cytochrome b) [NCBI Gene 4519] {aka MTCYB}, CACNA1E (calcium voltage-gated channel subunit alpha1 E) [NCBI Gene 777] {aka BII, CACH6, CACNL1A6, Cav2.3, DEE69, EIEE69}, KCNB1 (potassium voltage-gated channel subfamily B member 1) [NCBI Gene 3745] {aka DEE26, DRK1, Kv2.1}, RNR2 (l-rRNA) [NCBI Gene 4550] {aka MTRNR2}, PTGIS (prostaglandin I2 synthase) [NCBI Gene 5740] {aka CYP8, CYP8A1, PGIS, PTGI}, RNR1 (s-rRNA) [NCBI Gene 4549] {aka MTRNR1}, NRXN1 (neurexin 1) [NCBI Gene 9378] {aka Hs.22998, PTHSL2, SCZD17}, CLK2 (CDC like kinase 2) [NCBI Gene 1196], MGMT (O-6-methylguanine-DNA methyltransferase) [NCBI Gene 4255], CDNF (cerebral dopamine neurotrophic factor) [NCBI Gene 441549] {aka ARMETL1}, COX1 (cytochrome c oxidase subunit I) [NCBI Gene 4512] {aka COI, MTCO1}, GRIA1 (glutamate ionotropic receptor AMPA type subunit 1) [NCBI Gene 2890] {aka GLUH1, GLUR1, GLURA, GluA1, HBGR1, MRD67}, PEBP1 (phosphatidylethanolamine binding protein 1) [NCBI Gene 5037] {aka HCNP, HCNPpp, HEL-210, HEL-S-34, HEL-S-96, PBP}, GLP1R (glucagon like peptide 1 receptor) [NCBI Gene 2740] {aka GLP-1, GLP-1-R, GLP-1R}, COX3 (cytochrome c oxidase subunit III) [NCBI Gene 4514] {aka COIII, MTCO3}, EBP (EBP cholestenol delta-isomerase) [NCBI Gene 10682] {aka CDPX2, CHO2, CPX, CPXD, D8D7I, MEND}, COX2 (cytochrome c oxidase subunit II) [NCBI Gene 4513] {aka COII, MTCO2}, DARS2 (aspartyl-tRNA synthetase 2, mitochondrial) [NCBI Gene 55157] {aka ASPRS, CMT2LL, LBSL, MT-ASPRS, mtAspRS}, PLAUR (plasminogen activator, urokinase receptor) [NCBI Gene 5329] {aka CD87, U-PAR, UPAR, URKR}, TPK1 (thiamin pyrophosphokinase 1) [NCBI Gene 27010] {aka HTPK1, PP20, THMD5}, CA10 (carbonic anhydrase 10 (inactive)) [NCBI Gene 56934] {aka CA-RPX, CARPX, HUCEP-15}, ATP6 (ATP synthase F0 subunit 6) [NCBI Gene 4508] {aka ATPase6, MTATP6}, PC (pyruvate carboxylase) [NCBI Gene 5091] {aka PCB}, KEAP1 (kelch like ECH associated protein 1) [NCBI Gene 9817] {aka INrf2, KLHL19}
- **Diseases:** infectious (MESH:D003141), PASC (MESH:D000094024), cognitive dysfunction (MESH:D003072), PEM (MESH:D000092202), ME/CFS (MESH:D015673), immune dysregulation (OMIM:614878), HIV (MESH:D015658), Mitochondrial Dysregulation (MESH:D021081), fatigue (MESH:D005221), cognitive symptoms (MESH:D019954), obesity (MESH:D009765), PTLDS (MESH:D000077342), mood symptoms (MESH:D019964), neuroinflammation (MESH:D000090862), anxiety (MESH:D001007), cancer (MESH:D009369), diabetes (MESH:D003920), infection (MESH:D007239), Alzheimer's disease (MESH:D000544), mitochondrial damage (MESH:D028361), post viral fatigue syndromes (MESH:D014777), sleep disturbances (MESH:D012893), pain (MESH:D010146), inflammatory (MESH:D007249), chronic Q fever fatigue syndrome (MESH:D011778), injury to (MESH:D014947), IACIs (MESH:D000088562)
- **Chemicals:** incadronic acid (MESH:C071542), artesunate (MESH:D000077332), Ruxolitinib (MESH:C540383), artemisinin (MESH:C031327), zoledronic acid (MESH:D000077211), triparanol (MESH:D014308), Dimethyl fumarate (MESH:D000069462), buflomedil (MESH:C010651), trifluperidol (MESH:D014272), TCA (MESH:D014238), clomiphene (MESH:D002996), Vitamin B1 (MESH:D013831), sodium (MESH:D012964), diroximel fumarate (MESH:C000722501), AZT (MESH:D015215), potassium (MESH:D011188), Opipramol (MESH:D009888), Artemether (MESH:D000077549), CHEMBL53950 (-)
- **Species:** Homo sapiens (human, species) [taxon 9606]

## Full text

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## Figures

4 figures with captions in the complete paper: https://tomesphere.com/paper/PMC12940889/full.md

## References

81 references — full list in the complete paper: https://tomesphere.com/paper/PMC12940889/full.md

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Source: https://tomesphere.com/paper/PMC12940889