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A novel variant in TAF1 affects gene expression and is associated with X-linked TAF1 intellectual disability syndrome

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      Abstract

      We investigated the genome of a 5-year-old male who presented with global developmental delay (motor, cognitive, and speech), hypotonia, possibly ataxia, and cerebellar hypoplasia of unknown origin. Whole genome sequencing (WGS) and mRNA sequencing (RNA-seq) were performed on a family having an affected proband, his unaffected parents, and maternal grandfather. To explore the molecular and functional consequences of the variant, we performed cell proliferation assays, quantitative real-time PCR (qRT-PCR) array, immunoblotting, calcium imaging, and neurite outgrowth experiments in SH-SY5Y neuroblastoma cells to compare the properties of the wild-type TATA-box-binding protein factor 1 (TAF1), deletion of TAF1, and TAF1 variant p.Ser1600Gly samples. The whole genome data identified several gene variants. However, the genome sequence data failed to implicate a candidate gene as many of the variants were of unknown significance. By combining genome sequence data with transcriptomic data, a probable candidate variant, p.Ser1600Gly, emerged in TAF1. Moreover, the RNA-seq data revealed a 90:10 extremely skewed X-chromosome inactivation (XCI) in the mother. Our results showed that neuronal ion channel genes were differentially expressed between TAF1 deletion and TAF1 variant p.Ser1600Gly cells, when compared with their respective controls, and that the TAF1 variant may impair neuronal differentiation and cell proliferation. Taken together, our data suggest that this novel variant in TAF1 plays a key role in the development of a recently described X-linked syndrome, TAF1 intellectual disability syndrome, and further extends our knowledge of a potential link between TAF1 deficiency and defects in neuronal cell function.

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      Most cited references 43

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            Author and article information

            Affiliations
            [1 ]Department of Pathology, University of Arizona College of Medicine, Tucson, AZ 85724, U.S.A.
            [2 ]Department of Pharmacology, University of Arizona College of Medicine, Tucson, AZ 85724, U.S.A.
            [3 ]Department of Cellular and Molecular Medicine, University of Arizona College of Medicine, Tucson, AZ 85724, U.S.A.
            [4 ]Department of Pediatrics, University of Arizona College of Medicine, Tucson, AZ 85724, U.S.A.
            [5 ]Center for Rare Childhood Disorders, The Translational Genomics Research Institute (TGen), Phoenix, AZ 85004, U.S.A.
            [6 ]Department of Family and Community Medicine, University of Arizona College of Medicine, Tucson, AZ 85724, U.S.A.
            [7 ]Arizona Research Laboratories Division of Biotechnology, University of Arizona, Tucson, AZ 85721, U.S.A.
            [8 ]Department of Pharmacology, University of Washington, School of Medicine Seattle, WA 98195, U.S.A.
            Author notes
            Correspondence: Mark A. Nelson ( mnelson@ 123456pathology.arizona.edu )
            Journal
            ppneurosig
            NS
            Neuronal Signal.
            Neuronal Signaling
            Neuronal Signal.
            Portland Press Ltd.
            2059-6553
            25 June 2018
            16 July 2018
            28 September 2018
            : 2
            : 3
            10.1042/NS20180141
            © 2018 The Author(s).

            This is an open access article published by Portland Press Limited on behalf of the Biochemical Society and distributed under the Creative Commons Attribution License 4.0 (CC BY).

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            Pages: 17
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            Self URI (journal page): http://www.neuronalsignaling.org/
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