Whole-Genome Sequencing Reveals Principles of Brain Retrotransposition in Neurodevelopmental Disorders
Cell Research (2018) 28:187-203. © 2018 IBCB, SIBS, CAS All rights reserved 1001-0602/18 $ 32.00 ORIGINAL ARTICLE www.nature.com/cr Whole-genome sequencing reveals principles of brain retrotransposition in neurodevelopmental disorders Jasmine Jacob-Hirsch1, 2, Eran Eyal1, Binyamin A Knisbacher2, Jonathan Roth3, 5, Karen Cesarkas1, Chen Dor1, Sarit Farage-Barhom1, Vered Kunik1, Amos J Simon1, Moran Gal2, Michal Yalon4, Sharon Moshitch-Moshkovitz1, Rick Tearle6, Shlomi Constantini3, 5, Erez Y Levanon2, Ninette Amariglio1, 2, Gideon Rechavi1, 5 1Cancer Research Center and the Wohl Institute of Translational Medicine, the Chaim Sheba Medical Center, Tel Hashomer, Is- rael; 2Mina and Everard Goodman Faculty of Life Sciences, Bar Ilan University, Israel; 3Department of Pediatric Neurosurgery, Dana Children’s Hospital, Tel Aviv Medical Center, Israel; 4Department of Pediatric Hematology-Oncology, Edmond and Lily Sa- fra Children’s Hospital, The Chaim Sheba Medical Center, Tel Hashomer, Israel; 5Sackler Faculty of Medicine, Tel Aviv University, Tel Aviv, Israel; 6Complete Genomics, 2071 Stierlin Court, Mountain View, CA 94043, USA Neural progenitor cells undergo somatic retrotransposition events, mainly involving L1 elements, which can be potentially deleterious. Here, we analyze the whole genomes of 20 brain samples and 80 non-brain samples, and char- acterized the retrotransposition landscape of patients affected by a variety of neurodevelopmental disorders including Rett syndrome, tuberous sclerosis, ataxia-telangiectasia and autism. We report that the number of retrotranspositions in brain tissues is higher than that observed in non-brain samples and even higher in pathologic vs normal brains. The majority of somatic brain retrotransposons integrate into pre-existing repetitive elements, preferentially A/T rich L1 sequences, resulting in nested insertions.
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