The contribution of de novo coding mutations to meningomyelocele

• Published in: Nature (London) Vol. 641; no. 8062; pp. 419 - 426
• Main Authors: Ha, Yoo-Jin Jiny, Nisal, Ashna, Tang, Isaac, Lee, Chanjae, Jhamb, Ishani, Wallace, Cassidy, Howarth, Robyn, Schroeder, Sarah, Vong, Keng Ioi, Meave, Naomi, Jiwani, Fiza, Barrows, Chelsea, Lee, Sangmoon, Jiang, Nan, Patel, Arzoo, Bagga, Krisha, Banka, Niyati, Friedman, Liana, Blanco, Francisco A., Yu, Seyoung, Rhee, Soeun, Jeong, Hui Su, Plutzer, Isaac, Major, Michael B., Benoit, Béatrice, Poüs, Christian, Heffner, Caleb, Kibar, Zoha, Bot, Gyang Markus, Northrup, Hope, Au, Kit Sing, Strain, Madison, Ashley-Koch, Allison E., Finnell, Richard H., Le, Joan T., Meltzer, Hal S., Araujo, Camila, Machado, Helio R., Stevenson, Roger E., Yurrita, Anna, Mumtaz, Sara, Ahmed, Awais, Khara, Mulazim Hussain, Mutchinick, Osvaldo M., Medina-Bereciartu, José Ramón, Hildebrandt, Friedhelm, Melikishvili, Gia, Marwan, Ahmed I., Capra, Valeria, Noureldeen, Mahmoud M., Salem, Aida M. S., Issa, Mahmoud Y., Zaki, Maha S., Xu, Libin, Lee, Ji Eun, Shin, Donghyuk, Alkelai, Anna, Shuldiner, Alan R., Kingsmore, Stephen F., Murray, Stephen A., Gee, Heon Yung, Miller, W. Todd, Tolias, Kimberley F., Wallingford, John B., Kim, Sangwoo, Gleeson, Joseph G.
• Format: Journal Article
• Language: English
• Published: London Nature Publishing Group UK 08.05.2025; Nature Publishing Group
• Subjects: 13; 13/109; 14/1; 38; 38/39; 38/47; 45/23; 45/77; 631/208/135; 631/80/304; 64/114; 692/308/2056; Actin; Animals; Autism; Chromatin; Cohort Studies; Confidence intervals; Cytoskeleton; Disease; Embryogenesis; Embryonic growth stage; Female; Gene disruption; Genes; Genetic Predisposition to Disease - genetics; Health risk assessment; Health risks; Humanities and Social Sciences; Humans; Hydrocephalus; Male; Meningomyelocele - genetics; Microtubules - metabolism; Missense mutation; multidisciplinary; Mutation; Mutation - genetics; Mutation, Missense - genetics; Netrin-1; Netrin-1 - metabolism; Neural tube; Recruitment; Risk; Science; Science (multidisciplinary); Signal transduction; Signal Transduction - genetics; Spina bifida; Xenopus laevis - embryology; Xenopus laevis - genetics
• ISSN: 0028-0836; 1476-4687; 1476-4687
• DOI: 10.1038/s41586-025-08676-x

Meningomyelocele (also known as spina bifida) is considered to be a genetically complex disease resulting from a failure of the neural tube to close. Individuals with meningomyelocele display neuromotor disability and frequent hydrocephalus, requiring ventricular shunting. A few genes have been proposed to contribute to disease susceptibility, but beyond that it remains unexplained 1 . We postulated that de novo mutations under purifying selection contribute to the risk of developing meningomyelocele 2 . Here we recruited a cohort of 851 meningomyelocele trios who required shunting at birth and 732 control trios, and found that de novo likely gene disruption or damaging missense mutations occurred in approximately 22.3% of subjects, with 28% of such variants estimated to contribute to disease risk. The 187 genes with damaging de novo mutations collectively define networks including actin cytoskeleton and microtubule-based processes, Netrin-1 signalling and chromatin-modifying enzymes. Gene validation demonstrated partial or complete loss of function, impaired signalling and defective closure of the neural tube in Xenopus embryos. Our results indicate that de novo mutations make key contributions to meningomyelocele risk, and highlight critical pathways required for neural tube closure in human embryogenesis. Exome sequencing of 851 trios from more than 2,500 individuals finds 187 genes with de novo mutations that contribute to meningomyelocele (spina bifida) and highlights critical pathways required for neural tube closure.