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Copy number variants in patients with intellectual disability affect the regulation of ARX transcription factor gene.

Identifieur interne : 002D74 ( PubMed/Checkpoint ); précédent : 002D73; suivant : 002D75

Copy number variants in patients with intellectual disability affect the regulation of ARX transcription factor gene.

Auteurs : Minaka Ishibashi [Australie] ; Elizabeth Manning [Australie] ; Cheryl Shoubridge [Australie] ; Monika Krecsmarik [France] ; Thomas A. Hawkins [Royaume-Uni] ; Jean Giacomotto [Australie] ; Ting Zhao [Australie] ; Thomas Mueller [États-Unis] ; Patricia I. Bader [États-Unis] ; Sau W. Cheung [États-Unis] ; Pawel Stankiewicz [États-Unis] ; Nicole L. Bain [Australie] ; Anna Hackett [Australie] ; Chilamakuri C S. Reddy [Norvège] ; Alejandro S. Mechaly [Australie] ; Bernard Peers [Belgique] ; Stephen W. Wilson [Royaume-Uni] ; Boris Lenhard [Norvège] ; Laure Bally-Cuif [France] ; Jozef Gecz [Australie] ; Thomas S. Becker [Australie] ; Silke Rinkwitz [Australie]

Source :

RBID : pubmed:26337422

Descripteurs français

English descriptors

Abstract

Protein-coding mutations in the transcription factor-encoding gene ARX cause various forms of intellectual disability (ID) and epilepsy. In contrast, variations in surrounding non-coding sequences are correlated with milder forms of non-syndromic ID and autism and had suggested the importance of ARX gene regulation in the etiology of these disorders. We compile data on several novel and some already identified patients with or without ID that carry duplications of ARX genomic region and consider likely genetic mechanisms underlying the neurodevelopmental defects. We establish the long-range regulatory domain of ARX and identify its brain region-specific autoregulation. We conclude that neurodevelopmental disturbances in the patients may not simply arise from increased dosage due to ARX duplication. This is further exemplified by a small duplication involving a non-functional ARX copy, but with duplicated enhancers. ARX enhancers are located within a 504-kb region and regulate expression specifically in the forebrain in developing and adult zebrafish. Transgenic enhancer-reporter lines were used as in vivo tools to delineate a brain region-specific negative and positive autoregulation of ARX. We find autorepression of ARX in the telencephalon and autoactivation in the ventral thalamus. Fluorescently labeled brain regions in the transgenic lines facilitated the identification of neuronal outgrowth and pathfinding disturbances in the ventral thalamus and telencephalon that occur when arxa dosage is diminished. In summary, we have established a model for how breakpoints in long-range gene regulation alter the expression levels of a target gene brain region-specifically, and how this can cause subtle neuronal phenotypes relating to the etiology of associated neuropsychiatric disease.

DOI: 10.1007/s00439-015-1594-x
PubMed: 26337422


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pubmed:26337422

Le document en format XML

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<name sortKey="Reddy, Chilamakuri C S" sort="Reddy, Chilamakuri C S" uniqKey="Reddy C" first="Chilamakuri C S" last="Reddy">Chilamakuri C S. Reddy</name>
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<name sortKey="Mechaly, Alejandro S" sort="Mechaly, Alejandro S" uniqKey="Mechaly A" first="Alejandro S" last="Mechaly">Alejandro S. Mechaly</name>
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<name sortKey="Peers, Bernard" sort="Peers, Bernard" uniqKey="Peers B" first="Bernard" last="Peers">Bernard Peers</name>
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<name sortKey="Wilson, Stephen W" sort="Wilson, Stephen W" uniqKey="Wilson S" first="Stephen W" last="Wilson">Stephen W. Wilson</name>
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<name sortKey="Lenhard, Boris" sort="Lenhard, Boris" uniqKey="Lenhard B" first="Boris" last="Lenhard">Boris Lenhard</name>
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<name sortKey="Bally Cuif, Laure" sort="Bally Cuif, Laure" uniqKey="Bally Cuif L" first="Laure" last="Bally-Cuif">Laure Bally-Cuif</name>
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<name sortKey="Becker, Thomas S" sort="Becker, Thomas S" uniqKey="Becker T" first="Thomas S" last="Becker">Thomas S. Becker</name>
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<name sortKey="Krecsmarik, Monika" sort="Krecsmarik, Monika" uniqKey="Krecsmarik M" first="Monika" last="Krecsmarik">Monika Krecsmarik</name>
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<name sortKey="Hawkins, Thomas A" sort="Hawkins, Thomas A" uniqKey="Hawkins T" first="Thomas A" last="Hawkins">Thomas A. Hawkins</name>
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<nlm:affiliation>Department of Cell and Developmental Biology, UCL, London, WC1E 6BT, UK.</nlm:affiliation>
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<name sortKey="Giacomotto, Jean" sort="Giacomotto, Jean" uniqKey="Giacomotto J" first="Jean" last="Giacomotto">Jean Giacomotto</name>
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<nlm:affiliation>Department of Physiology, Brain and Mind Research Institute, Sydney Medical School, University of Sydney, 94 Mallet Street, Camperdown, NSW, 2050, Australia.</nlm:affiliation>
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<name sortKey="Zhao, Ting" sort="Zhao, Ting" uniqKey="Zhao T" first="Ting" last="Zhao">Ting Zhao</name>
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<nlm:affiliation>Department of Physiology, Brain and Mind Research Institute, Sydney Medical School, University of Sydney, 94 Mallet Street, Camperdown, NSW, 2050, Australia.</nlm:affiliation>
<country xml:lang="fr">Australie</country>
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<name sortKey="Mueller, Thomas" sort="Mueller, Thomas" uniqKey="Mueller T" first="Thomas" last="Mueller">Thomas Mueller</name>
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<nlm:affiliation>Division of Biology, Kansas State University, Manhattan, KS, 66502, USA.</nlm:affiliation>
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<name sortKey="Bader, Patricia I" sort="Bader, Patricia I" uniqKey="Bader P" first="Patricia I" last="Bader">Patricia I. Bader</name>
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<nlm:affiliation>Parkview Cytogenetics and Northeast Indiana Genetics, Fort Wayne, IN, USA.</nlm:affiliation>
<country xml:lang="fr">États-Unis</country>
<wicri:regionArea>Parkview Cytogenetics and Northeast Indiana Genetics, Fort Wayne, IN</wicri:regionArea>
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<name sortKey="Lenhard, Boris" sort="Lenhard, Boris" uniqKey="Lenhard B" first="Boris" last="Lenhard">Boris Lenhard</name>
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<nlm:affiliation>Department of Biology and Bergen Center for Computational Science, University of Bergen, 5008, Bergen, Norway.</nlm:affiliation>
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<title level="j">Human genetics</title>
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<term>Adult</term>
<term>Animals</term>
<term>Animals, Genetically Modified</term>
<term>Brain (embryology)</term>
<term>Brain (metabolism)</term>
<term>Case-Control Studies</term>
<term>DNA Copy Number Variations</term>
<term>Embryo, Nonmammalian</term>
<term>Female</term>
<term>Gene Dosage</term>
<term>Gene Duplication</term>
<term>Gene Expression Regulation, Developmental</term>
<term>Homeodomain Proteins (genetics)</term>
<term>Homeodomain Proteins (metabolism)</term>
<term>Humans</term>
<term>Intellectual Disability (genetics)</term>
<term>Male</term>
<term>Transcription Factors (genetics)</term>
<term>Transcription Factors (metabolism)</term>
<term>Zebrafish</term>
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<term>Adulte</term>
<term>Animal génétiquement modifié</term>
<term>Animaux</term>
<term>Danio zébré</term>
<term>Dosage génique</term>
<term>Duplication de gène</term>
<term>Déficience intellectuelle (génétique)</term>
<term>Embryon non mammalien</term>
<term>Encéphale (embryologie)</term>
<term>Encéphale (métabolisme)</term>
<term>Facteurs de transcription (génétique)</term>
<term>Facteurs de transcription (métabolisme)</term>
<term>Femelle</term>
<term>Humains</term>
<term>Mâle</term>
<term>Protéines à homéodomaine (génétique)</term>
<term>Protéines à homéodomaine (métabolisme)</term>
<term>Régulation de l'expression des gènes au cours du développement</term>
<term>Variations de nombre de copies de segment d'ADN</term>
<term>Études cas-témoins</term>
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<term>Encéphale</term>
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<term>Brain</term>
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<term>Intellectual Disability</term>
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<term>Déficience intellectuelle</term>
<term>Facteurs de transcription</term>
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<term>Brain</term>
<term>Homeodomain Proteins</term>
<term>Transcription Factors</term>
</keywords>
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<term>Encéphale</term>
<term>Facteurs de transcription</term>
<term>Protéines à homéodomaine</term>
</keywords>
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<term>Adult</term>
<term>Animals</term>
<term>Animals, Genetically Modified</term>
<term>Case-Control Studies</term>
<term>DNA Copy Number Variations</term>
<term>Embryo, Nonmammalian</term>
<term>Female</term>
<term>Gene Dosage</term>
<term>Gene Duplication</term>
<term>Gene Expression Regulation, Developmental</term>
<term>Humans</term>
<term>Male</term>
<term>Zebrafish</term>
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<term>Adulte</term>
<term>Animal génétiquement modifié</term>
<term>Animaux</term>
<term>Danio zébré</term>
<term>Dosage génique</term>
<term>Duplication de gène</term>
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<term>Femelle</term>
<term>Humains</term>
<term>Mâle</term>
<term>Régulation de l'expression des gènes au cours du développement</term>
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<div type="abstract" xml:lang="en">Protein-coding mutations in the transcription factor-encoding gene ARX cause various forms of intellectual disability (ID) and epilepsy. In contrast, variations in surrounding non-coding sequences are correlated with milder forms of non-syndromic ID and autism and had suggested the importance of ARX gene regulation in the etiology of these disorders. We compile data on several novel and some already identified patients with or without ID that carry duplications of ARX genomic region and consider likely genetic mechanisms underlying the neurodevelopmental defects. We establish the long-range regulatory domain of ARX and identify its brain region-specific autoregulation. We conclude that neurodevelopmental disturbances in the patients may not simply arise from increased dosage due to ARX duplication. This is further exemplified by a small duplication involving a non-functional ARX copy, but with duplicated enhancers. ARX enhancers are located within a 504-kb region and regulate expression specifically in the forebrain in developing and adult zebrafish. Transgenic enhancer-reporter lines were used as in vivo tools to delineate a brain region-specific negative and positive autoregulation of ARX. We find autorepression of ARX in the telencephalon and autoactivation in the ventral thalamus. Fluorescently labeled brain regions in the transgenic lines facilitated the identification of neuronal outgrowth and pathfinding disturbances in the ventral thalamus and telencephalon that occur when arxa dosage is diminished. In summary, we have established a model for how breakpoints in long-range gene regulation alter the expression levels of a target gene brain region-specifically, and how this can cause subtle neuronal phenotypes relating to the etiology of associated neuropsychiatric disease.</div>
</front>
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<Year>2015</Year>
<Month>11</Month>
<Day>02</Day>
</DateCreated>
<DateCompleted>
<Year>2016</Year>
<Month>04</Month>
<Day>12</Day>
</DateCompleted>
<DateRevised>
<Year>2017</Year>
<Month>11</Month>
<Day>10</Day>
</DateRevised>
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<ISSN IssnType="Electronic">1432-1203</ISSN>
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<Volume>134</Volume>
<Issue>11-12</Issue>
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<Year>2015</Year>
<Month>Nov</Month>
</PubDate>
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<Title>Human genetics</Title>
<ISOAbbreviation>Hum. Genet.</ISOAbbreviation>
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<ArticleTitle>Copy number variants in patients with intellectual disability affect the regulation of ARX transcription factor gene.</ArticleTitle>
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</Pagination>
<ELocationID EIdType="doi" ValidYN="Y">10.1007/s00439-015-1594-x</ELocationID>
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<AbstractText>Protein-coding mutations in the transcription factor-encoding gene ARX cause various forms of intellectual disability (ID) and epilepsy. In contrast, variations in surrounding non-coding sequences are correlated with milder forms of non-syndromic ID and autism and had suggested the importance of ARX gene regulation in the etiology of these disorders. We compile data on several novel and some already identified patients with or without ID that carry duplications of ARX genomic region and consider likely genetic mechanisms underlying the neurodevelopmental defects. We establish the long-range regulatory domain of ARX and identify its brain region-specific autoregulation. We conclude that neurodevelopmental disturbances in the patients may not simply arise from increased dosage due to ARX duplication. This is further exemplified by a small duplication involving a non-functional ARX copy, but with duplicated enhancers. ARX enhancers are located within a 504-kb region and regulate expression specifically in the forebrain in developing and adult zebrafish. Transgenic enhancer-reporter lines were used as in vivo tools to delineate a brain region-specific negative and positive autoregulation of ARX. We find autorepression of ARX in the telencephalon and autoactivation in the ventral thalamus. Fluorescently labeled brain regions in the transgenic lines facilitated the identification of neuronal outgrowth and pathfinding disturbances in the ventral thalamus and telencephalon that occur when arxa dosage is diminished. In summary, we have established a model for how breakpoints in long-range gene regulation alter the expression levels of a target gene brain region-specifically, and how this can cause subtle neuronal phenotypes relating to the etiology of associated neuropsychiatric disease.</AbstractText>
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</AffiliationInfo>
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</AffiliationInfo>
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<LastName>Zhao</LastName>
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<AffiliationInfo>
<Affiliation>Department of Neurology, The People's hospital of Zhengzhou University, Henan, 450003, China.</Affiliation>
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<AffiliationInfo>
<Affiliation>Department of Tumor Biology, Norwegian Radium Hospital, Oslo University Hospital, Oslo, Norway.</Affiliation>
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<AffiliationInfo>
<Affiliation>Laboratorio de Ictiofisiología y Acuicultura, Instituto Tecnológico de Chascomús (IIB-INTECH) (CONICET-UNSAM), Buenos Aires, Argentina.</Affiliation>
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</AffiliationInfo>
<AffiliationInfo>
<Affiliation>Institute of Clinical Sciences, Faculty of Medicine, Imperial College London, London, UK.</Affiliation>
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<AffiliationInfo>
<Affiliation>MRC Clinical Sciences Centre, London, UK.</Affiliation>
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<Grant>
<GrantID>MC_UP_1102/1</GrantID>
<Agency>Medical Research Council</Agency>
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