Evidence map›Paper›PMID 31303265›Full record

ArticleAmerican journal of human genetics2019

De Novo Variants Disturbing the Transactivation Capacity of POU3F3 Cause a Characteristic Neurodevelopmental Disorder.

Lot Snijders Blok, Tjitske Kleefstra, Hanka Venselaar, Saskia Maas, Hester Y Kroes, Augusta M A Lachmeijer, Koen L I van Gassen, Helen V Firth, Susan Tomkins, Simon Bodek and 29 more

Open access · bronzeAbstract read
In one paragraph

Article in American journal of human genetics, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.

0numbers the graph read from it
0cells of the map it votes in
31citing papers in PubMed
5.2field-weighted citation impact, top 4% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

31 citing papers in PubMed, 50 citations in OpenAlex.

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  13. Fgf, Hh, and pax2a differentially regulate expression of pax5 and pou3f3b in vestibular and auditory maculae in the zebrafish otic vesicle.Developmental dynamics : an official publication of the American Association of Anatomists · 2023
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  17. AFrontiers in pediatrics · 2023
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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

39 authors at 16 institutions in 7 countries.

Lot Snijders BlokHuman Genetics Department, Radboud University Medical Center, PO Box 9101, 6500HB Nijmegen, the Netherlands; Language and Genetics Department, Max Planck Institute for Psycholinguistics, PO Box 310, 6500AH Nijmegen, the Netherlands; Donders Institute for Brain, Cognition, and Behaviour, PO Box 9104, 6500HE Nijmegen, the Netherlands. Electronic address: lot.snijdersblok@radboudumc.nl.
Tjitske KleefstraHuman Genetics Department, Radboud University Medical Center, PO Box 9101, 6500HB Nijmegen, the Netherlands; Donders Institute for Brain, Cognition, and Behaviour, PO Box 9104, 6500HE Nijmegen, the Netherlands.
Hanka VenselaarCentre for Molecular and Biomolecular Informatics, Radboud Institute for Molecular Life Sciences, Radboud University Medical Center, PO Box 9101, 6500HB Nijmegen, the Netherlands.
Saskia MaasAmsterdam University Medical Center, University of Amsterdam, Department of Clinical Genetics, Meibergdreef 9, 1105AZ Amsterdam, the Netherlands.
Hester Y KroesDepartment of Genetics, University Medical Center Utrecht, PO Box 85090, 3508AB Utrecht, the Netherlands.
Augusta M A LachmeijerDepartment of Genetics, University Medical Center Utrecht, PO Box 85090, 3508AB Utrecht, the Netherlands.
Koen L I van GassenDepartment of Genetics, University Medical Center Utrecht, PO Box 85090, 3508AB Utrecht, the Netherlands.
Helen V FirthWellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SA, UK.
Susan TomkinsClinical Genetics Service, University Hospitals Bristol National Health Service Foundation Trust, Bristol BS2 8HW, UK.
Simon BodekClinical Genetics Service, University Hospitals Bristol National Health Service Foundation Trust, Bristol BS2 8HW, UK.
DDD StudyWellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SA, UK.
Katrin ÕunapDepartment of Clinical Genetics, United Laboratories, Tartu University Hospital and Institute of Clinical Medicine, University of Tartu, Tartu 51014, Estonia; Institute of Clinical Medicine, University of Tartu, Tartu 51014, Estonia.
Monica H WojcikThe Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA; Division of Newborn Medicine, Division of Genetics, Boston Children's Hospital, Boston, MA 02115, USA.
Christopher CunniffDivision of Medical Genetics, Department of Pediatrics, Weill Cornell Medicine, New York, NY 10021, USA.
Katherine BergstromDivision of Medical Genetics, Department of Pediatrics, Weill Cornell Medicine, New York, NY 10021, USA.
Zoë PowisClinical Genomics, Ambry Genetics, Aliso Viejo, CA 92656, USA.
Sha TangClinical Genomics, Ambry Genetics, Aliso Viejo, CA 92656, USA.
Deepali N ShindeClinical Genomics, Ambry Genetics, Aliso Viejo, CA 92656, USA.
Catherine AuDivision of Clinical Genetics, Department of Pediatrics, New York Presbyterian Hospital, Columbia University, New York, NY 10032, USA.
Alejandro D IglesiasDivision of Clinical Genetics, Department of Pediatrics, New York Presbyterian Hospital, Columbia University, New York, NY 10032, USA.
Kosuke IzumiDivision of Human Genetics, the Children's Hospital of Philadelphia, Philadelphia, PA 19104, USA.
Jacqueline LeonardDivision of Human Genetics, the Children's Hospital of Philadelphia, Philadelphia, PA 19104, USA.
Ahmad Abou TayounDivision of Genomic Diagnostics, the Children's Hospital of Philadelphia, Philadelphia, PA 19104, USA.
Samuel W BakerDivision of Genomic Diagnostics, the Children's Hospital of Philadelphia, Philadelphia, PA 19104, USA.
Marco TartagliaGenetics and Rare Diseases Research Division, Bambino Gesù Children Hospital, Istituto di Ricovero e Cura a Carattere Scientifico, 00146 Rome, Italy.
Marcello NicetaGenetics and Rare Diseases Research Division, Bambino Gesù Children Hospital, Istituto di Ricovero e Cura a Carattere Scientifico, 00146 Rome, Italy.
Maria Lisa DenticiGenetics and Rare Diseases Research Division, Bambino Gesù Children Hospital, Istituto di Ricovero e Cura a Carattere Scientifico, 00146 Rome, Italy.
Nobuhiko OkamotoDepartment of Medical Genetics, Osaka Women's and Children's Hospital, 840 Murodo-cho, Izumi, Osaka 594-1101, Japan.
Noriko MiyakeDepartment of Human Genetics, Yokohama City University Graduate School of Medicine, Yokohama 236-0004, Japan.
Naomichi MatsumotoDepartment of Human Genetics, Yokohama City University Graduate School of Medicine, Yokohama 236-0004, Japan.
Antonio VitobelloUF Innovation en Diagnostic Génomique des Maladies Rares, Centre Hospitalier Universitaire Dijon Bourgogne, 21000 Dijon, France; INSERM UMR1231 Génétique des Anomalies du Développement, F-21000 Dijon, France.
Laurence FaivreINSERM UMR1231 Génétique des Anomalies du Développement, F-21000 Dijon, France; Centre de Référence Maladies Rares « Anomalies du Développement et Syndrome Malformatifs » de l'Est, Centre de Génétique, Hôpital d'Enfants, Fédération Hospitalo-Universitaire Médecine TRANSLationnelle et Anomalies du Développement, Centre Hospitalier Universitaire Dijon Bourgogne, 21000 Dijon, France.
Christophe PhilippeUF Innovation en Diagnostic Génomique des Maladies Rares, Centre Hospitalier Universitaire Dijon Bourgogne, 21000 Dijon, France; INSERM UMR1231 Génétique des Anomalies du Développement, F-21000 Dijon, France.
Christian GilissenHuman Genetics Department, Radboud University Medical Center, PO Box 9101, 6500HB Nijmegen, the Netherlands.
Laurens WielHuman Genetics Department, Radboud University Medical Center, PO Box 9101, 6500HB Nijmegen, the Netherlands; Centre for Molecular and Biomolecular Informatics, Radboud Institute for Molecular Life Sciences, Radboud University Medical Center, PO Box 9101, 6500HB Nijmegen, the Netherlands.
Rolph PfundtHuman Genetics Department, Radboud University Medical Center, PO Box 9101, 6500HB Nijmegen, the Netherlands.
Pelagia DeriziotisLanguage and Genetics Department, Max Planck Institute for Psycholinguistics, PO Box 310, 6500AH Nijmegen, the Netherlands.
Han G BrunnerHuman Genetics Department, Radboud University Medical Center, PO Box 9101, 6500HB Nijmegen, the Netherlands; Donders Institute for Brain, Cognition, and Behaviour, PO Box 9104, 6500HE Nijmegen, the Netherlands; Department of Clinical Genetics and GROW-School for Oncology and Developmental Biology, Maastricht University Medical Center, 6202AZ Maastricht, the Netherlands.
Simon E FisherLanguage and Genetics Department, Max Planck Institute for Psycholinguistics, PO Box 310, 6500AH Nijmegen, the Netherlands; Donders Institute for Brain, Cognition, and Behaviour, PO Box 9104, 6500HE Nijmegen, the Netherlands. Electronic address: simon.fisher@mpi.nl.
Radboud University Nijmegen · NLChildren's Hospital of Philadelphia · USAmbry Genetics (United States) · USBambino Gesù Children's Hospital · ITInserm · FRUniversity Medical Center Utrecht · NLCornell University · USMax Planck Institute for Psycholinguistics · NLNational Health Service · GBNewYork–Presbyterian Hospital · USYokohama City University · JPBroad Institute · USOsaka Women's and Children's Hospital · JPTartu University Hospital · EEUniversity of Amsterdam · NLWellcome Sanger Institute · GB

Funding

Joint Center for Mendelian GenomicsUM1HG008900 · NHGRI · BROAD INSTITUTE, INC. · PI O'DONNELL-LURIA, ANNE, REHM, HEIDI L · 2016 to 2020
$16.5M
TRAINING GRANT IN GENETICST32GM007748 · NIGMS · HARVARD UNIVERSITY (MEDICAL SCHOOL) · PI Anne O'Donnell-Luria, Louise Wilkins-Haug · 1985 to 2026
$12.0M
NHGRI NIH HHS UM1 HG008900NIGMS NIH HHS T32 GM007748
6 · The paper itself

Abstract

POU3F3, also referred to as Brain-1, is a well-known transcription factor involved in the development of the central nervous system, but it has not previously been associated with a neurodevelopmental disorder. Here, we report the identification of 19 individuals with heterozygous POU3F3 disruptions, most of which are de novo variants. All individuals had developmental delays and/or intellectual disability and impairments in speech and language skills. Thirteen individuals had characteristic low-set, prominent, and/or cupped ears. Brain abnormalities were observed in seven of eleven MRI reports. POU3F3 is an intronless gene, insensitive to nonsense-mediated decay, and 13 individuals carried protein-truncating variants. All truncating variants that we tested in cellular models led to aberrant subcellular localization of the encoded protein. Luciferase assays demonstrated negative effects of these alleles on transcriptional activation of a reporter with a FOXP2-derived binding motif. In addition to the loss-of-function variants, five individuals had missense variants that clustered at specific positions within the functional domains, and one small in-frame deletion was identified. Two missense variants showed reduced transactivation capacity in our assays, whereas one variant displayed gain-of-function effects, suggesting a distinct pathophysiological mechanism. In bioluminescence resonance energy transfer (BRET) interaction assays, all the truncated POU3F3 versions that we tested had significantly impaired dimerization capacities, whereas all missense variants showed unaffected dimerization with wild-type POU3F3. Taken together, our identification and functional cell-based analyses of pathogenic variants in POU3F3, coupled with a clinical characterization, implicate disruptions of this gene in a characteristic neurodevelopmental disorder.

Indexed as

Gene Expression RegulationMutationTranscriptional ActivationAmino Acid SequenceChildFemaleGenetic Association StudiesGenotypeHumansMaleNeurodevelopmental DisordersPOU Domain FactorsProtein ConformationSequence HomologyPOU3F3 protein, humanPOU Domain FactorsBrain-1BRET assayde novo variantsFOXP2intellectual disabilityluciferase reporterPOU3F2POU3F3speech/language disorder

Identifiers

PMID31303265
PMCPMC6698880
OpenAlexW2959316053

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.