1. Complex translocation disrupting TCF4 and altering TCF4 isoform expression segregates as mild autosomal dominant intellectual disability
- Author
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Cornelius F. Boerkoel, William A. Gahl, Pawel Stankiewicz, Samarth Bhatt, Anna Lehman, Christopher E. Mason, Camilo Toro, David R. Adams, Marjolaine Limbos, Patrice Eydoux, Valerie Maduro, James C. Mullikin, Christèle du Souich, Praveen F. Cherukuri, Paul Atkins, Clara D.M. van Karnebeek, Barbara N. Pusey, Amanda E. Links, Andrew Sear, May Christine V. Malicdan, Rosemarie Rupps, Marie Morimoto, and Other departments
- Subjects
0301 basic medicine ,Derivative chromosome ,Intellectual disability ,Translocation ,Translocation Breakpoint ,Chromosomal translocation ,Biology ,Polymerase Chain Reaction ,Polymorphism, Single Nucleotide ,Translocation, Genetic ,03 medical and health sciences ,Transcription Factor 4 ,Pitt-Hopkins syndrome ,Humans ,Hyperventilation ,Protein Isoforms ,Genetics(clinical) ,Pharmacology (medical) ,Child ,Promoter Regions, Genetic ,Gene ,Genetics (clinical) ,TCF4 ,Genetics ,Medicine(all) ,Basic Helix-Loop-Helix Leucine Zipper Transcription Factors ,Research ,Alternative splicing ,Facies ,Promoter ,General Medicine ,RNAseq ,Alternative Splicing ,030104 developmental biology ,Fusion transcript ,Mutation ,Promoter utilization ,Female ,Gene expression ,Transcriptome ,Transcription Factors - Abstract
Background Mutations of TCF4, which encodes a basic helix-loop-helix transcription factor, cause Pitt-Hopkins syndrome (PTHS) via multiple genetic mechanisms. TCF4 is a complex locus expressing multiple transcripts by alternative splicing and use of multiple promoters. To address the relationship between mutation of these transcripts and phenotype, we report a three-generation family segregating mild intellectual disability with a chromosomal translocation disrupting TCF4. Results Using whole genome sequencing, we detected a complex unbalanced karyotype disrupting TCF4 (46,XY,del(14)(q23.3q23.3)del(18)(q21.2q21.2)del(18)(q21.2q21.2)inv(18)(q21.2q21.2)t(14;18)(q23.3;q21.2)(14pter®14q23.3::18q21.2®18q21.2::18q21.1®18qter;18pter®18q21.2::14q23.3®14qter). Subsequent transcriptome sequencing, qRT-PCR and nCounter analyses revealed that cultured skin fibroblasts and peripheral blood had normal expression of genes along chromosomes 14 or 18 and no marked changes in expression of genes other than TCF4. Affected individuals had 12–33 fold higher mRNA levels of TCF4 than did unaffected controls or individuals with PTHS. Although the derivative chromosome generated a PLEKHG3-TCF4 fusion transcript, the increased levels of TCF4 mRNA arose from transcript variants originating distal to the translocation breakpoint, not from the fusion transcript. Conclusions Although validation in additional patients is required, our findings suggest that the dysmorphic features and severe intellectual disability characteristic of PTHS are partially rescued by overexpression of those short TCF4 transcripts encoding a nuclear localization signal, a transcription activation domain, and the basic helix-loop-helix domain. Electronic supplementary material The online version of this article (doi:10.1186/s13023-016-0439-6) contains supplementary material, which is available to authorized users.
- Published
- 2018
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