Hemizygous variants in protein phosphatase 1 regulatory subunit 3F (PPP1R3F) are associated with a neurodevelopmental disorder characterized by developmental delay, intellectual disability and autistic features.

PPP1R3F X-linked developmental delay glycogen metabolism intellectual disability protein phosphatase 1 seizureautism

Journal

Human molecular genetics
ISSN: 1460-2083
Titre abrégé: Hum Mol Genet
Pays: England
ID NLM: 9208958

Informations de publication

Date de publication:
04 Oct 2023
Historique:
received: 12 05 2023
revised: 20 07 2023
accepted: 26 07 2023
pmc-release: 02 08 2024
pubmed: 2 8 2023
medline: 2 8 2023
entrez: 2 8 2023
Statut: ppublish

Résumé

Protein phosphatase 1 regulatory subunit 3F (PPP1R3F) is a member of the glycogen targeting subunits (GTSs), which belong to the large group of regulatory subunits of protein phosphatase 1 (PP1), a major eukaryotic serine/threonine protein phosphatase that regulates diverse cellular processes. Here, we describe the identification of hemizygous variants in PPP1R3F associated with a novel X-linked recessive neurodevelopmental disorder in 13 unrelated individuals. This disorder is characterized by developmental delay, mild intellectual disability, neurobehavioral issues such as autism spectrum disorder, seizures and other neurological findings including tone, gait and cerebellar abnormalities. PPP1R3F variants segregated with disease in affected hemizygous males that inherited the variants from their heterozygous carrier mothers. We show that PPP1R3F is predominantly expressed in brain astrocytes and localizes to the endoplasmic reticulum in cells. Glycogen content in PPP1R3F knockout astrocytoma cells appears to be more sensitive to fluxes in extracellular glucose levels than in wild-type cells, suggesting that PPP1R3F functions in maintaining steady brain glycogen levels under changing glucose conditions. We performed functional studies on nine of the identified variants and observed defects in PP1 binding, protein stability, subcellular localization and regulation of glycogen metabolism in most of them. Collectively, the genetic and molecular data indicate that deleterious variants in PPP1R3F are associated with a new X-linked disorder of glycogen metabolism, highlighting the critical role of GTSs in neurological development. This research expands our understanding of neurodevelopmental disorders and the role of PP1 in brain development and proper function.

Identifiants

pubmed: 37531237
pii: 7235668
doi: 10.1093/hmg/ddad124
pmc: PMC10549786
doi:

Types de publication

Journal Article

Langues

eng

Sous-ensembles de citation

IM

Pagination

2981-2995

Subventions

Organisme : NIH HHS
ID : R01HL094505
Pays : United States
Organisme : NHGRI NIH HHS
ID : K08 HG008986
Pays : United States
Organisme : NHGRI NIH HHS
ID : U01 HG011758
Pays : United States
Organisme : NHLBI NIH HHS
ID : R01 HL094505
Pays : United States
Organisme : NIGMS NIH HHS
ID : T32 GM007526
Pays : United States

Informations de copyright

© The Author(s) 2023. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oup.com.

Références

Cell Metab. 2019 Nov 5;30(5):903-916.e7
pubmed: 31523006
J Cell Sci. 2017 May 1;130(9):1675-1687
pubmed: 28325759
Science. 1997 Mar 7;275(5305):1475-8
pubmed: 9045612
J Biol Chem. 2000 Aug 25;275(34):26396-403
pubmed: 10862764
Mol Psychiatry. 2021 May;26(5):1458-1471
pubmed: 32055008
Hum Mutat. 2015 Oct;36(10):928-30
pubmed: 26220891
Am J Hum Genet. 2000 Dec;67(6):1555-62
pubmed: 11047757
J Biol Chem. 2018 May 11;293(19):7108-7116
pubmed: 29572349
Nature. 2012 Apr 04;485(7397):246-50
pubmed: 22495309
Nat Genet. 2002 Aug;31(4):379-84
pubmed: 12118251
Sci Transl Med. 2014 Dec 3;6(265):265ra168
pubmed: 25473036
FEBS J. 2018 Dec;285(24):4646-4659
pubmed: 30422398
J Biol Chem. 2018 May 11;293(19):7117-7125
pubmed: 29483193
J Cell Sci. 2002 Jan 15;115(Pt 2):241-56
pubmed: 11839776
Adv Protein Chem Struct Biol. 2014;96:235-65
pubmed: 25443960
Cell Signal. 2009 Jul;21(7):1123-34
pubmed: 19275933
J Mol Graph. 1996 Feb;14(1):33-8, 27-8
pubmed: 8744570
Biochem J. 1998 Dec 15;336 ( Pt 3):699-704
pubmed: 9841883
J Neurochem. 2011 Aug;118(4):596-610
pubmed: 21668450
Mol Psychiatry. 2011 Aug;16(8):867-80
pubmed: 20479760
Mol Endocrinol. 2014 Jan;28(1):116-26
pubmed: 24264575
Chem Biol. 2009 Apr 24;16(4):365-71
pubmed: 19389623
Circulation. 2019 Aug 20;140(8):681-693
pubmed: 31185731
J Biol Chem. 2022 Jan;298(1):101536
pubmed: 34954140
J Vis Exp. 2013 Jan 19;(71):
pubmed: 23380713
Biochem Soc Trans. 2017 Feb 8;45(1):89-99
pubmed: 28202662
FEBS J. 2005 Mar;272(6):1478-89
pubmed: 15752363
FEBS Lett. 1997 Nov 24;418(1-2):210-4
pubmed: 9414128
Nat Genet. 2001 Mar;27(3):277-85
pubmed: 11242109
Mol Psychiatry. 2016 Aug;21(8):1070-6
pubmed: 26503760
Adv Neurobiol. 2019;23:311-329
pubmed: 31667813
Nat Genet. 2000 Nov;26(3):319-23
pubmed: 11062471
J Cell Biol. 1987 Dec;105(6 Pt 1):2665-74
pubmed: 3121636
Nat Genet. 1998 Jul;19(3):264-7
pubmed: 9662400
Cell. 2011 Mar 4;144(5):810-23
pubmed: 21376239
Science. 2016 Dec 23;354(6319):
pubmed: 28008009
Diabetes. 2003 Mar;52(3):596-604
pubmed: 12606498
Sci Adv. 2018 Nov 14;4(11):eaau6044
pubmed: 30443599
Curr Protoc Bioinformatics. 2002 Aug;Chapter 2:Unit 2.3
pubmed: 18792934
Genet Med. 2018 Jan;20(1):31-41
pubmed: 28726809
J Biol Chem. 2005 Feb 25;280(8):7147-55
pubmed: 15591318
Trends Neurosci. 2020 Aug;43(8):608-621
pubmed: 32507511
Diabetes. 2003 Sep;52(9):2221-6
pubmed: 12941760
Nat Genet. 2000 Nov;26(3):324-7
pubmed: 11062472
Front Cell Neurosci. 2015 Oct 27;9:431
pubmed: 26578889
PLoS One. 2011;6(12):e28427
pubmed: 22180782

Auteurs

Zhigang Liu (Z)

Genomic Medicine Institute, Cleveland Clinic Lerner Research Institute, Cleveland, OH 44195, USA.

Baozhong Xin (B)

DDC Clinic for Special Needs Children, Middlefield, OH 44062, USA.

Iris N Smith (IN)

Genomic Medicine Institute, Cleveland Clinic Lerner Research Institute, Cleveland, OH 44195, USA.

Valerie Sency (V)

DDC Clinic for Special Needs Children, Middlefield, OH 44062, USA.

Julia Szekely (J)

DDC Clinic for Special Needs Children, Middlefield, OH 44062, USA.

Anna Alkelai (A)

Regeneron Genetics Center, Regeneron Pharmaceuticals, Tarrytown, NY 10591, USA.

Alan Shuldiner (A)

Regeneron Genetics Center, Regeneron Pharmaceuticals, Tarrytown, NY 10591, USA.

Stephanie Efthymiou (S)

Department of Neuromuscular Disorders, University College London (UCL) Institute of Neurology, London WC1N 3BG, UK.

Farrah Rajabi (F)

Division of Genetics & Genomics, Boston Children's Hospital, Boston, MA 02115, USA.

Stephanie Coury (S)

Division of Genetics & Genomics, Boston Children's Hospital, Boston, MA 02115, USA.

Catherine A Brownstein (CA)

Division of Genetics & Genomics, Boston Children's Hospital, Boston, MA 02115, USA.
The Manton Center for Orphan Disease Research, Boston Children's Hospital, Boston, MA 02115, USA.

Sabine Rudnik-Schöneborn (S)

Institute for Human Genetics, Medical University Innsbruck, Innsbruck 6020, Austria.

Ange-Line Bruel (AL)

Inserm UMR1231 GAD, Génétique des Anomalies du Développement, Fédération Hospitalo-Universitaire Médecine Translationnelle et Anomalies du Développement (FHU TRANSLAD), CHU Dijon Bourgogne, Dijon 21000, France.
UF Innovation en diagnostic génomique des maladies rares, CHU Dijon Bourgogne, Dijon 21000, France.

Julien Thevenon (J)

Université Grenoble Alpes, Institute for Advanced Biosciences, Grenoble, France.

Shimriet Zeidler (S)

Department of Clinical Genetics, Erasmus University Medical Center, Rotterdam 3015 GD, The Netherlands.

Parul Jayakar (P)

Division of Genetics and Metabolism, Nicklaus Children's Hospital, Miami, FL 33155, USA.

Axel Schmidt (A)

Institute of Human Genetics, University of Bonn, School of Medicine & University Hospital Bonn, 53105 Bonn, Germany.

Kirsten Cremer (K)

Institute of Human Genetics, University of Bonn, School of Medicine & University Hospital Bonn, 53105 Bonn, Germany.

Hartmut Engels (H)

Institute of Human Genetics, University of Bonn, School of Medicine & University Hospital Bonn, 53105 Bonn, Germany.

Sophia O Peters (SO)

Institute of Human Genetics, University of Bonn, School of Medicine & University Hospital Bonn, 53105 Bonn, Germany.

Maha S Zaki (MS)

Clinical Genetics Department, Human Genetics and Genome Research Institute National Research Centre, Cairo 12622, Egypt.

Ruizhi Duan (R)

Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA.

Changlian Zhu (C)

Center for Brain Repair and Rehabilitation, Institute of Neuroscience and Physiology, University of Gothenburg, Göteborg 417 56, Sweden.
Henan Key Laboratory of Child Brain Injury and Henan Pediatric Clinical Research Center, Institute of Neuroscience and Third Affiliated Hospital of Zhengzhou University, Zhengzhou 450052, China.

Yiran Xu (Y)

Henan Key Laboratory of Child Brain Injury and Henan Pediatric Clinical Research Center, Institute of Neuroscience and Third Affiliated Hospital of Zhengzhou University, Zhengzhou 450052, China.

Chao Gao (C)

Department of Pediatric Rehabilitation Medicine, Children's Hospital Affiliated to Zhengzhou University, Zhengzhou 450012, China.

Tania Sepulveda-Morales (T)

International Laboratory for Human Genome Research, Laboratorio Internacional de Investigación sobre el Genoma Humano, Universidad Nacional Autónoma de México, Juriquilla, Querétaro 76226, México.

Reza Maroofian (R)

Department of Neuromuscular Disorders, University College London (UCL) Institute of Neurology, London WC1N 3BG, UK.

Issam A Alkhawaja (IA)

Al-Bashir Hospital, Pediatric Department, Pediatric Neurology Unit, Amman, Jordan.

Mariam Khawaja (M)

Prince Hamzah Hospital, Amman, Jordan.
Hospital Clínic and Fundació Hospital Sant Joan de Déu de Martorell/Barcelona, Barcelona, Spain.

Hunaida Alhalasah (H)

Al-Karak Government Teaching Hospital, Al-Karak, Jordan.

Henry Houlden (H)

Department of Neuromuscular Disorders, University College London (UCL) Institute of Neurology, London WC1N 3BG, UK.

Jill A Madden (JA)

Division of Genetics & Genomics, Boston Children's Hospital, Boston, MA 02115, USA.
The Manton Center for Orphan Disease Research, Boston Children's Hospital, Boston, MA 02115, USA.

Valentina Turchetti (V)

Department of Neuromuscular Disorders, University College London (UCL) Institute of Neurology, London WC1N 3BG, UK.

Dana Marafi (D)

Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA.
Department of Pediatrics, Faculty of Medicine, Kuwait University, Kuwait City 13060, Kuwait.

Pankaj B Agrawal (PB)

Division of Genetics & Genomics, Boston Children's Hospital, Boston, MA 02115, USA.
The Manton Center for Orphan Disease Research, Boston Children's Hospital, Boston, MA 02115, USA.
Division of Neonatology, Department of Pediatrics, University of Miami School of Medicine and Jackson Health System, Miami, FL 33136, USA.

Ulrich Schatz (U)

Institute for Human Genetics, Medical University Innsbruck, Innsbruck 6020, Austria.

Ari Rotenberg (A)

Houston Specialty Clinic, Houston, TX 77024, USA.

Joshua Rotenberg (J)

Houston Specialty Clinic, Houston, TX 77024, USA.

Grazia M S Mancini (GMS)

Department of Clinical Genetics, Erasmus University Medical Center, Rotterdam 3015 GD, The Netherlands.

Somayeh Bakhtiari (S)

Pediatric Movement Disorders Program, Division of Pediatric Neurology, Barrow Neurological Institute, Phoenix Children's Hospital, Phoenix, AZ 85016, USA.
Departments of Child Health, Neurology, and Cellular & Molecular Medicine, and Program in Genetics, University of Arizona College of Medicine-Phoenix, Phoenix, AZ 85004, USA.

Michael Kruer (M)

Pediatric Movement Disorders Program, Division of Pediatric Neurology, Barrow Neurological Institute, Phoenix Children's Hospital, Phoenix, AZ 85016, USA.
Departments of Child Health, Neurology, and Cellular & Molecular Medicine, and Program in Genetics, University of Arizona College of Medicine-Phoenix, Phoenix, AZ 85004, USA.

Isabelle Thiffault (I)

Genomic Medicine Center, Children's Mercy Kansas City, Children's Mercy Research Institute, Kansas City, MO 64108, USA.

Steffen Hirsch (S)

Institute if Human Genetics, Heidelberg University Hospital, 69120 Heidelberg, Germany.

Maja Hempel (M)

Institute if Human Genetics, Heidelberg University Hospital, 69120 Heidelberg, Germany.

Lara G Stühn (LG)

Institute of Medical Genetics and Applied Genomics, University of Tübingen, 72076 Tübingen, Germany.

Tobias B Haack (TB)

Institute of Medical Genetics and Applied Genomics, University of Tübingen, 72076 Tübingen, Germany.

Jennifer E Posey (JE)

Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA.

James R Lupski (JR)

Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA.
Texas Children's Hospital, Houston, TX 77030, USA.
Human Genome Sequencing Center, Baylor College of Medicine, Houston, TX 77030, USA.
Department of Pediatrics, Baylor College of Medicine, Houston, TX 77030, USA.

Hyunpil Lee (H)

Genomic Medicine Institute, Cleveland Clinic Lerner Research Institute, Cleveland, OH 44195, USA.

Nicholas B Sarn (NB)

Genomic Medicine Institute, Cleveland Clinic Lerner Research Institute, Cleveland, OH 44195, USA.

Charis Eng (C)

Genomic Medicine Institute, Cleveland Clinic Lerner Research Institute, Cleveland, OH 44195, USA.

Claudia Gonzaga-Jauregui (C)

International Laboratory for Human Genome Research, Laboratorio Internacional de Investigación sobre el Genoma Humano, Universidad Nacional Autónoma de México, Juriquilla, Querétaro 76226, México.

Bin Zhang (B)

Genomic Medicine Institute, Cleveland Clinic Lerner Research Institute, Cleveland, OH 44195, USA.

Heng Wang (H)

DDC Clinic for Special Needs Children, Middlefield, OH 44062, USA.

Classifications MeSH