[en] Understanding the genetic causes of diseases that affect pancreatic β cells and neurons can give insights into pathways essential for both cell types. Microcephaly, epilepsy, and diabetes syndrome (MEDS) is a congenital disorder with two known etiological genes, IER3IP1 and YIPF5. Both genes encode proteins involved in endoplasmic reticulum (ER) to Golgi trafficking. We used genome sequencing to identify 6 individuals with MEDS caused by biallelic variants in the potentially novel disease gene TMEM167A. All had neonatal diabetes (diagnosed at <6 months) and severe microcephaly, and 5 also had epilepsy. TMEM167A is highly expressed in developing and adult human pancreas and brain. To gain insights into the mechanisms leading to diabetes, we silenced TMEM167A in EndoC-βH1 cells and knocked-in one patient's variant, p.Val59Glu, in induced pluripotent stem cells (iPSCs). Both TMEM167A depletion in EndoC-βH1 cells and the p.Val59Glu variant in iPSC-derived β cells sensitized β cells to ER stress. The p.Val59Glu variant impaired proinsulin trafficking to the Golgi and induced iPSC-β cell dysfunction. The discovery of TMEM167A variants as a genetic cause of MEDS highlights a critical role of TMEM167A in the ER to Golgi pathway in β cells and neurons.
Disciplines :
Neurology
Author, co-author :
Virgilio, Enrico; ULB Center for Diabetes Research, Université Libre de Bruxelles, Brussels, Belgium
Tielens, Sylvia ; Université de Liège - ULiège > Département des sciences biomédicales et précliniques
Bonfield, Georgia; Department of Clinical and Biomedical Sciences, Faculty of Health and Life Sciences, University of Exeter, Exeter, United Kingdom
Nian, Fang-Shin ; Université de Liège - ULiège > Département des sciences biomédicales et précliniques
Sawatani, Toshiaki; ULB Center for Diabetes Research, Université Libre de Bruxelles, Brussels, Belgium
Vinci, Chiara; ULB Center for Diabetes Research, Université Libre de Bruxelles, Brussels, Belgium
Govier, Molly; Department of Clinical and Biomedical Sciences, Faculty of Health and Life Sciences, University of Exeter, Exeter, United Kingdom
Montaser, Hossam; Stem Cells and Metabolism Research Program, Faculty of Medicine, University of Helsinki, Helsinki, Finland
Lartigue, Romane; University of Bordeaux, CNRS, Bordeaux INP, Chemistry & Biology of Membranes & Nano-objects, UMR 5248, Pessac, France
Arunagiri, Anoop ; Division of Metabolism, Endocrinology & Diabetes, University of Michigan Medical Center, Ann Arbor, Michigan, USA
Liboz, Alexandrine; ULB Center for Diabetes Research, Université Libre de Bruxelles, Brussels, Belgium
Da Silva, Flavia Natividade; ULB Center for Diabetes Research, Université Libre de Bruxelles, Brussels, Belgium
Lytrivi, Maria ; ULB Center for Diabetes Research, Université Libre de Bruxelles, Brussels, Belgium ; Division of Endocrinology, ULB Erasmus Hospital, Brussels University Hospital, Université Libre de Bruxelles, Brussels, Belgium
Papadopoulou, Theodora; ULB Center for Diabetes Research, Université Libre de Bruxelles, Brussels, Belgium
Wakeling, Matthew N; Department of Clinical and Biomedical Sciences, Faculty of Health and Life Sciences, University of Exeter, Exeter, United Kingdom
Russ-Silsby, James; Department of Clinical and Biomedical Sciences, Faculty of Health and Life Sciences, University of Exeter, Exeter, United Kingdom
Bowman, Pamela; Department of Clinical and Biomedical Sciences, Faculty of Health and Life Sciences, University of Exeter, Exeter, United Kingdom
Johnson, Matthew B ; Department of Clinical and Biomedical Sciences, Faculty of Health and Life Sciences, University of Exeter, Exeter, United Kingdom
Laver, Thomas W ; Department of Clinical and Biomedical Sciences, Faculty of Health and Life Sciences, University of Exeter, Exeter, United Kingdom
Piron, Anthony; ULB Center for Diabetes Research, Université Libre de Bruxelles, Brussels, Belgium
Yi, Xiaoyan; ULB Center for Diabetes Research, Université Libre de Bruxelles, Brussels, Belgium
Fantuzzi, Federica; ULB Center for Diabetes Research, Université Libre de Bruxelles, Brussels, Belgium
Hendrickx, Sirine; ULB Center for Diabetes Research, Université Libre de Bruxelles, Brussels, Belgium
Igoillo-Esteve, Mariana ; ULB Center for Diabetes Research, Université Libre de Bruxelles, Brussels, Belgium
Santacreu, Bruno J; ULB Center for Diabetes Research, Université Libre de Bruxelles, Brussels, Belgium
Suntharesan, Jananie; Sirimavo Bandaranayake Specialized Children's Hospital, Peradeniya, Sri Lanka
Ghildiyal, Radha; Department of Pediatrics, Lokmanya Tilak Municipal Medical College and Lokmanya Tilak Municipal General Hospital, Mumbai, India
Hegde, Darshan; Department of Pediatrics, Lokmanya Tilak Municipal Medical College and Lokmanya Tilak Municipal General Hospital, Mumbai, India
Shah, Nikhil; Department of Pediatrics, Lokmanya Tilak Municipal Medical College and Lokmanya Tilak Municipal General Hospital, Mumbai, India
Acar, Sezer; Division of Pediatric Endocrinology, Dr. Behçet Uz Children's Education and Research Hospital, Izmir, Turkey
Dönmez, Beyhan Özkaya; Division of Pediatric Endocrinology, Dr. Behçet Uz Children's Education and Research Hospital, Izmir, Turkey
Özkan, Behzat; Division of Pediatric Endocrinology, Dr. Behçet Uz Children's Education and Research Hospital, Izmir, Turkey
Mohsin, Fauzia; Department of Paediatrics, BIRDEM General Hospital, Dhaka, Bangladesh
Talaat, Iman M; Pediatric Department and
Abbas, Mohamed Tarek; Internal medicine, Faculty of Medicine, Ain Shams University, Cairo, Egypt
Abbas, Omar Tarek; Internal medicine, Faculty of Medicine, Ain Shams University, Cairo, Egypt
Alghamdi, Hamed Ali; Northern Area Armed Forces Hospital, King Khalid Military City, Saudi Arabia
Kandemir, Nurgun; Hacettepe University, Faculty of Medicine, Department of Pediatric Endocrinology, Ankara, Turkey
Flanagan, Sarah E ; Department of Clinical and Biomedical Sciences, Faculty of Health and Life Sciences, University of Exeter, Exeter, United Kingdom
Scharfmann, Raphael ; Université Paris Cité, Institut Cochin, INSERM, Paris, France
Arvan, Peter ; Division of Metabolism, Endocrinology & Diabetes, University of Michigan Medical Center, Ann Arbor, Michigan, USA
Raoux, Matthieu; University of Bordeaux, CNRS, Bordeaux INP, Chemistry & Biology of Membranes & Nano-objects, UMR 5248, Pessac, France
Nguyen, Laurent ; Université de Liège - ULiège > Département des sciences biomédicales et précliniques ; WEL Research Institute, Wavre, Belgium
Hattersley, Andrew T ; Department of Clinical and Biomedical Sciences, Faculty of Health and Life Sciences, University of Exeter, Exeter, United Kingdom
Cnop, Miriam; ULB Center for Diabetes Research, Université Libre de Bruxelles, Brussels, Belgium ; Division of Endocrinology, ULB Erasmus Hospital, Brussels University Hospital, Université Libre de Bruxelles, Brussels, Belgium ; WEL Research Institute, Wavre, Belgium
De Franco, Elisa; Department of Clinical and Biomedical Sciences, Faculty of Health and Life Sciences, University of Exeter, Exeter, United Kingdom
Wellcome Trust EFSD - European Foundation for the Study of Diabetes NNF - Novo Nordisk Fonden FWO - Research Foundation Flanders Walloon region F.R.S.-FNRS - Fonds de la Recherche Scientifique EU - European Union SFD - Société Francophone du Diabète
1. Sellick GS, et al. Mutations in PTF1A cause pancreatic and cerebellar agenesis. Nat Genet. 2004;36(12):1301–1305.
2. Igoillo-Esteve M, et al. tRNA methyltransferase homolog gene TRMT10A mutation in young onset diabetes and primary microcephaly in humans. PLoS Genet. 2013;9(10):e1003888.
3. Donis R, et al. A homozygous TARS2 variant is a novel cause of syndromic neonatal diabetes. Diabet Med. 2025;42(3):e15471.
4. Inoue H, et al. A gene encoding a transmembrane protein is mutated in patients with diabetes mellitus and optic atrophy (Wolfram syndrome). Nat Genet. 1998;20(2):143–148.
5. Delepine M, et al. EIF2AK3, encoding translation initiation factor 2-alpha kinase 3, is mutated in patients with Wolcott-Rallison syndrome. Nat Genet. 2000;25(4):406–409.
6. Poulton CJ, et al. Microcephaly with simplified gyration, epilepsy, and infantile diabetes linked to inappropriate apoptosis of neural progenitors. Am J Hum Genet. 2011;89(2):265–276.
7. Abdel-Salam GM, et al. A homozygous IER3IP1 mutation causes microcephaly with simplified gyral pattern, epilepsy, and permanent neonatal diabetes syndrome (MEDS). Am J Med Genet A. 2012;158A(11):2788–2796.
8. Ellard S, et al. Improved genetic testing for monogenic diabetes using targeted next-generation sequencing. Diabetologia. 2013;56(9):1958–1963.
9. Rjiba K, et al. Further report of MEDS syndrome: clinical and molecular delineation of a new Tunisian case. Eur J Med Genet. 2021;64(9):104285.
10. Shalev SA, et al. Microcephaly, epilepsy, and neonatal diabetes due to compound heterozygous mutations in IER3IP1: insights into the natural history of a rare disorder. Pediatr Diabetes. 2014;15(3):252–256.
11. Söbü E, et al. A new variant of the IER3IP1 gene: the first case of microcephaly, epilepsy, and diabetes syndrome 1 from Turkey. J Clin Res Pediatr Endocrinol. 2024;16(3):344–350.
12. Theunissen TEJ, et al. Whole exome sequencing is the preferred strategy to identify the genetic defect in patients with a probable or possible mitochondrial cause. Front Genet. 2018;9:400.
13. Valenzuela I, et al. Microcephaly with simplified gyral pattern, epilepsy and permanent neonatal diabetes syndrome (MEDS). A new patient and review of the literature. Eur J Med Genet. 2017;60(10):517–520.
14. Zegarra WA, et al. Safe use of the ketogenic diet in an infant with microcephaly, epilepsy, and diabetes syndrome: a case report. BMC Pediatr. 2023;23(1):453.
15. De Franco E, et al. YIPF5 mutations cause neonatal diabetes and microcephaly through endoplasmic reticulum stress. J Clin Invest. 2020;130(12):6338–6353.
16. Montaser H, et al. IER3IP1 mutations cause neonatal diabetes due to impaired proinsulin trafficking. Diabetes. 2025;74(4):514–527.
17. Chen S, et al. A genomic mutational constraint map using variation in 76,156 human genomes. Nature. 2024;625(7993):92–100.
18. Abou Tayoun AN, et al. Recommendations for interpreting the loss of function PVS1 ACMG/AMP variant criterion. Hum Mutat. 2018;39(11):1517–1524.
19. Durkie M, et al. ACGS Best Practice Guidelines for Variant Classification in Rare Disease 2024. https://www.genomicseducation.hee.nhs.uk/wp-content/uploads/2024/08/ACGS-2024_UK-practice-guidelines-for-variant-classification.pdf. Accessed September 24, 2025.
20. Walker LC, et al. Using the ACMG/AMP framework to capture evidence related to predicted and observed impact on splicing: recommendations from the ClinGen SVI splicing subgroup. Am J Hum Genet. 2023;110(7):1046–1067.
21. Staels W, et al. Comprehensive alpha, beta, and delta cell transcriptomics reveal an association of cellular aging with MHC class I upregulation. Mol Metab. 2024;87:101990.
22. Alonso L, et al. TIGER: the gene expression regulatory variation landscape of human pancreatic islets. Cell Rep. 2021;37(2):109807.
23. Ramond C, et al. Reconstructing human pancreatic differentiation by mapping specific cell populations during development. Elife. 2017;6:e27564.
24. Fantuzzi F, et al. In depth functional characterization of human induced pluripotent stem cellderived beta cells in vitro and in vivo. Front Cell Dev Biol. 2022;10:967765.
25. Cosentino C, et al. Pancreatic β-cell tRNA hypomethylation and fragmentation link TRMT10A deficiency with diabetes. Nucleic Acids Res. 2018;46(19):10302–10318.
26. Lytrivi M, et al. DNAJC3 deficiency induces β-cell mitochondrial apoptosis and causes syndromic young-onset diabetes. Eur J Endocrinol. 2021;184(3):455–468.
27. Balboa D, et al. Functional, metabolic and transcriptional maturation of human pancreatic islets derived from stem cells. Nat Biotechnol. 2022;40(7):1042–1055.
28. Marselli L, et al. Persistent or transient human β cell dysfunction induced by metabolic stress: specific signatures and shared gene expression with type 2 diabetes. Cell Rep. 2020;33(9):108466.
29. Kaestner KH, et al. NIH initiative to improve understanding of the pancreas, islet, and autoimmunity in type 1 diabetes: the human pancreas analysis program (HPAP). Diabetes. 2019;68(7):1394–1402.
30. Shapira SN, et al. Understanding islet dysfunction in type 2 diabetes through multidimensional pancreatic phenotyping: the human pancreas analysis program. Cell Metab. 2022;34(12):1906–1913.
31. Veres A, et al. Charting cellular identity during human in vitro β-cell differentiation. Nature. 2019;569(7756):368–373.
32. Arunagiri A, et al. Proinsulin folding and trafficking defects trigger a common pathological disturbance of endoplasmic reticulum homeostasis. Protein Sci. 2024;33(4):e4949.
33. Lebreton F, et al. Slow potentials encode intercellular coupling and insulin demand in pancreatic beta cells. Diabetologia. 2015;58(6):1291–1299.
34. Gorgogietas V, et al. GLP-1R agonists demonstrate potential to treat Wolfram syndrome in human preclinical models. Diabetologia. 2023;66(7):1306–1321.
35. Jensen NK, et al. Characterization of the nonendocrine cell populations in human embryonic stem cell-derived (hESC) islet-like clusters posttransplantation. Toxicol Pathol. 2021;49(7):1269–1287.
36. Sue N, et al. Independent activation of CREB3L2 by glucose fills a regulatory gap in mouse β-cells by co-ordinating insulin biosynthesis with secretory granule formation. Mol Metab. 2024;79:101845.
37. Ibrahim H, et al. RFX6 haploinsufficiency predisposes to diabetes through impaired beta cell function. Diabetologia. 2024;67(8):1642–1662.
38. Gosmain Y, et al. Pax6 is crucial for β-cell function, insulin biosynthesis, and glucoseinduced insulin secretion. Mol Endocrinol. 2012;26(4):696–709.
39. So WY, et al. Paired box 6 programs essential exocytotic genes in the regulation of glucose-stimulated insulin secretion and glucose homeostasis. Sci Transl Med. 2021;13(600):eabb1038.
40. Lytrivi M, et al. Diabetes mellitus and the key role of endoplasmic reticulum stress in pancreatic β cells. Nat Rev Endocrinol. 2025;21(9):546–563.
41. De Franco E, et al. The effect of early, comprehensive genomic testing on clinical care in neonatal diabetes: an international cohort study. Lancet. 2015;386(9997):957–963.
42. Giannakopoulos A, Chrysis D. Illness stressinduced transient hyperglycemia in a patient with a novel YIPF5 homozygous missense variant: expanding the phenotype. Hormones (Athens). 2024;23(4):831–834.
43. Wendler F, et al. A genome-wide RNA interference screen identifies two novel components of the metazoan secretory pathway. EMBO J. 2010;29(2):304–314.
44. Zhong X, et al. Essential requirement for IER3IP1 in B cell development. Proc Natl Acad Sci U S A. 2023;120(46):e2312810120.
45. Anitei M, et al. IER3IP1-mutations cause microcephaly by selective inhibition of ER-Golgi transport. Cell Mol Life Sci. 2024;81(1):334.
46. Esk C, et al. A human tissue screen identifies a regulator of ER secretion as a brain-size determinant. Science. 2020;370(6519):935–941.
47. Stoufflet J, et al. Shaping the cerebral cortex by cellular crosstalk. Cell. 2023;186(13):2733–2747.
48. Long KR, Huttner WB. How the extracellular matrix shapes neural development. Open Biol. 2019;9(1):180216.
49. Amin S, Borrell V. The extracellular matrix in the evolution of cortical development and folding. Front Cell Dev Biol. 2020;8:604448.
50. Severino M, et al. Definitions and classification of malformations of cortical development: practical guidelines. Brain. 2020;143(10):2874–2894.
51. Tiyaboonchai A, et al. GATA6 plays an important role in the induction of human definitive endoderm, development of the pancreas, and functionality of pancreatic β cells. Stem Cell Reports. 2017;8(3):589–604.
52. Li Z, et al. Proteome-wide and matrisome-specific alterations during human pancreas development and maturation. Nat Commun. 2021;12(1):1020.
53. Ribas V, et al. Skeletal muscle action of estrogen receptor α is critical for the maintenance of mitochondrial function and metabolic homeostasis in females. Sci Transl Med. 2016;8(334):334ra54.
54. Coomans de Brachene A, et al. Preclinical evaluation of tyrosine kinase 2 inhibitors for human beta-cell protection in type 1 diabetes. Diabetes Obes Metab. 2020;22(10):1827–1836.