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Large-scale targeted sequencing identifies risk genes for neurodevelopmental disorders

2020; Nature Portfolio; Volume: 11; Issue: 1 Linguagem: Inglês

10.1038/s41467-020-18723-y

2041-1723

Tianyun Wang, Kendra Hoekzema, Davide Vecchio, Huidan Wu, Arvis Sulovari, Bradley P. Coe, Madelyn A. Gillentine, Amy B. Wilfert, Luis A. Pérez‐Jurado, Malin Kvarnung, Yoeri Sleyp, Rachel K. Earl, Jill A. Rosenfeld, Madeleine R. Geisheker, Lin Han, Bing Du, Chris Barnett, E. A. Thompson, Marie Shaw, Renée Carroll, Kathryn Friend, Rachael Catford, Elizabeth E. Palmer, Xiaobing Zou, Jianjun Ou, Honghui Li, Hui Guo, Jennifer Gerdts, Emanuela Avola, Giuseppe Calabrese, Maurizio Elia, Donatella Greco, Anna Lindstrand, Ann Nordgren, Britt‐Marie Anderlid, Geert Vandeweyer, Anke Van Dijck, Nathalie Van der Aa, Brooke G. McKenna, Miroslava Hančárová, Šárka Bendová, Markéta Havlovicová, Giovanni Malerba, Bernardo Dalla Bernardina, Pierandrea Muglia, Arie van Haeringen, Mariëtte J.V. Hoffer, Barbara Franke, Gerarda Cappuccio, Martin B. Delatycki, Paul J. Lockhart, Melanie A. Manning, Pengfei Liu, Ingrid E. Scheffer, Nicola Brunetti‐Pierri, Nanda Rommelse, David G. Amaral, Gijs W.E. Santen, Elisabetta Trabetti, Zdeněk Sedláček, Jacob J. Michaelson, Karen Pierce, Eric Courchesne, R. Frank Kooy, John Acampado, J. Andrea, Alpha Amatya, Irina Astrovskaya, Asif Bashar, Elizabeth Brooks, Martin E. Butler, Lindsey A. Cartner, Wubin Chin, Wendy K. Chung, Amy M. Daniels, Pamela Feliciano, Chris Fleisch, Swami Ganesan, William B. Jensen, Alex E. Lash, Richard P. Marini, Vincent J. Myers, Eirene O’Connor, Chris Rigby, B. E. Robertson, Neelay Shah, Swapnil Shah, Emily Singer, LeeAnne Green Snyder, Alexandra N. Stephens, Jennifer Tjernagel, Brianna M. Vernoia, Natalia Volfovsky, L. Casey White, Alexander Hsieh, Yufeng Shen, Xueya Zhou, Tychele N. Turner, Ethan Bahl, Taylor R. Thomas, Leo Brueggeman, Tanner Koomar, Jacob J. Michaelson, Brian J. O’Roak, Rebecca Barnard, Richard A. Gibbs, Donna M. Muzny, Aniko Sabo, Kelli L. Baalman Ahmed, Evan E. Eichler, Matthew Siegel, Leonard Abbeduto, David G. Amaral, Brittani A. Hilscher, Deana Li, Kaitlin Smith, Samantha Thompson, Charles F. Albright, Eric Butter, Sara Eldred, Nathan Hanna, Mark Jones, Daniel L. Coury, Jessica Scherr, Taylor Pifher, Erin Roby, Brandy Dennis, Lorrin Higgins, Melissa A. Brown, Michael Alessandri, Anibal Gutierrez, Melissa N. Hale, Lynette M. Herbert, Hoa Lam Schneider, Giancarla David, Robert D. Annett, Dustin E. Sarver, Ivette Arriaga, Alexies Camba, Amanda C. Gulsrud, Monica Haley, James T. McCracken, Sophia Sandhu, Maira Tafolla, Wha S. Yang, Laura A. Carpenter, Catherine C. Bradley, Frampton Gwynette, Patricia Manning, Rebecca C. Shaffer, Carrie A. Thomas, Raphael Bernier, Emily A. Fox, Jennifer A. Gerdts, Micah Pepper, Theodore Ho, Daniel Cho, Joseph Piven, Holly Lechniak, Latha Soorya, Rachel Gordon, Allison Wainer, Lisa C. Yeh, Cesar Ochoa-Lubinoff, Nicole M. Russo‐Ponsaran, Elizabeth Berry‐Kravis, Stephanie Booker, Craig A. Erickson, Lisa M. Prock, Katherine G. Pawlowski, Emily T. Matthews, Stephanie Brewster, Margaret A. Hojlo, Evi Abada, Elena Lamarche, Tianyun Wang, Shwetha C. Murali, William T. Harvey, Hannah E. Kaplan, Karen Pierce, Lindsey DeMarco, Susannah Horner, Juhi Pandey, Samantha Plate, Mustafa Şahin, Katherine D. Riley, Erin Carmody, Julia Constantini, Amy Esler, Ali Fatemi, Hanna Hutter, Rebecca Landa, Alexander P. McKenzie, Jason Neely, Vini Singh, Bonnie Van Metre, Ericka L. Wodka, Éric Fombonne, Lark Y. Huang-Storms, Lillian D. Pacheco, Sarah Mastel, Leigh A. Coppola, Sunday M. Francis, Andrea Jarrett, Suma Jacob, Natasha Lillie, Jaclyn Gunderson, Dalia Istephanous, Laura Simon, Ori Wasserberg, Angela L. Rachubinski, Cordelia Robinson Rosenberg, Stephen M. Kanne, Amanda D. Shocklee, Nicole Takahashi, Shelby L. Bridwell, Rebecca L. Klimczac, Melissa A. Mahurin, Hannah E. Cotrell, Cortaiga A. Grant, Samantha G. Hunter, Christa Lese Martin, Cora Taylor, Lauren K. Walsh, Katherine A. Dent, Andrew L. Mason, Anthony Sziklay, Christopher J. Smith, Magnus Nordenskjöld, Corrado Romano, Hilde Peeters, Raphael Bernier, Jozef Gécz, Kun Xia, Evan E. Eichler,

Genomic variations and chromosomal abnormalities

Most genes associated with neurodevelopmental disorders (NDDs) were identified with an excess of de novo mutations (DNMs) but the significance in case-control mutation burden analysis is unestablished. Here, we sequence 63 genes in 16,294 NDD cases and an additional 62 genes in 6,211 NDD cases. By combining these with published data, we assess a total of 125 genes in over 16,000 NDD cases and compare the mutation burden to nonpsychiatric controls from ExAC. We identify 48 genes (25 newly reported) showing significant burden of ultra-rare (MAF < 0.01%) gene-disruptive mutations (FDR 5%), six of which reach family-wise error rate (FWER) significance (p < 1.25E-06). Among these 125 targeted genes, we also reevaluate DNM excess in 17,426 NDD trios with 6,499 new autism trios. We identify 90 genes enriched for DNMs (FDR 5%; e.g., GABRG2 and UIMC1); of which, 61 reach FWER significance (p < 3.64E-07; e.g., CASZ1). In addition to doubling the number of patients for many NDD risk genes, we present phenotype-genotype correlations for seven risk genes (CTCF, HNRNPU, KCNQ3, ZBTB18, TCF12, SPEN, and LEO1) based on this large-scale targeted sequencing effort.