De Novo Missense Variants in FBXW11 Cause Diverse Developmental Phenotypes Including Brain, Eye, and Digit Anomalies

Richard J. Holt, Rodrigo M. Young, Berta Crespo, Fabiola Ceroni, Cynthia J. Curry, Emanuele Bellacchio, Dorine A. Bax, Andrea Ciolfi, Marleen Simon, Christina R. Fagerberg, Ellen van Binsbergen, Alessandro De Luca, Luigi Memo, William B. Dobyns, Alaa Afif Mohammed, Samuel J.H. Clokie, Celia Zazo Seco, Yong Hui Jiang, Kristina P. Sørensen, Helle AndersenJennifer Sullivan, Zöe Powis, Anna Chassevent, Constance Smith-Hicks, Slavé Petrovski, Thalia Antoniadi, Vandana Shashi, Bruce D. Gelb, Stephen W. Wilson, Dianne Gerrelli, Marco Tartaglia, Nicolas Chassaing, Patrick Calvas, Nicola K. Ragge

Research output: Contribution to journalArticlepeer-review

11 Scopus citations

Abstract

The identification of genetic variants implicated in human developmental disorders has been revolutionized by second-generation sequencing combined with international pooling of cases. Here, we describe seven individuals who have diverse yet overlapping developmental anomalies, and who all have de novo missense FBXW11 variants identified by whole exome or whole genome sequencing and not reported in the gnomAD database. Their phenotypes include striking neurodevelopmental, digital, jaw, and eye anomalies, and in one individual, features resembling Noonan syndrome, a condition caused by dysregulated RAS signaling. FBXW11 encodes an F-box protein, part of the Skp1-cullin-F-box (SCF) ubiquitin ligase complex, involved in ubiquitination and proteasomal degradation and thus fundamental to many protein regulatory processes. FBXW11 targets include β-catenin and GLI transcription factors, key mediators of Wnt and Hh signaling, respectively, critical to digital, neurological, and eye development. Structural analyses indicate affected residues cluster at the surface of the loops of the substrate-binding domain of FBXW11, and the variants are predicted to destabilize the protein and/or its interactions. In situ hybridization studies on human and zebrafish embryonic tissues demonstrate FBXW11 is expressed in the developing eye, brain, mandibular processes, and limb buds or pectoral fins. Knockdown of the zebrafish FBXW11 orthologs fbxw11a and fbxw11b resulted in embryos with smaller, misshapen, and underdeveloped eyes and abnormal jaw and pectoral fin development. Our findings support the role of FBXW11 in multiple developmental processes, including those involving the brain, eye, digits, and jaw.

Original languageEnglish (US)
Pages (from-to)640-657
Number of pages18
JournalAmerican Journal of Human Genetics
Volume105
Issue number3
DOIs
StatePublished - Sep 5 2019
Externally publishedYes

Bibliographical note

Funding Information:
This work was supported by grants from Baillie Gifford ; Visually Impaired Children Taking Action (VICTA) ( www.victa.org.uk ); Microphthalmia, Anophthalmia and Coloboma Support (MACS) ( www.macs.org.uk ); HEIF (Health Innovation Fund, Oxford Brookes University); La Fondation de France (grant number 2015-00060235 , 2015); Fondation Maladies Rares and Retina France ; Fondazione Bambino Gesù (Vite Coraggiose); E-Rare (NSEuroNet); AIRC (the Italian Foundation for Cancer Research) ( IG 21614 ); the Italian Ministry of Health (Ricerca Corrente); and the National Heart, Lung, and Blood Institute ( R35 HL135742 ). French patients are part of the Rare Disease Cohort (RaDiCo)-AC-Oeil. RaDiCo is funded by the French National Research Agency under the specific program “Investments for the Future,” cohort grant agreement ANR-10-COHO-0003 . V.S. and J.S. were supported by UCB Celltech and the Duke Genome Sequencing Clinic grant. W.B.D. was supported by the US National Institutes of Health under the National Institute of Neurological Disorders and Stroke (NINDS) grant R01NS058721 . R.M.Y. and S.W.W. were supported by an MRC (Medical Research Council) Programme Grant ( MR/L003775/1 to S.W.W. and G. Gestri) and a Wellcome Trust Investigator Award ( 104682/Z/14/Z ). The human embryonic and fetal material was provided by the Joint MRC/Wellcome Trust (grant MR/R006237/1 ) Human Developmental Biology Resource ( www.hdbr.org ).

Funding Information:
We would like to thank the families for their participation in our study. We are grateful to the West Midlands Regional Clinical Genetics Service and, in particular, Shaun Green for their help with sample processing and clinical genetic testing of UK families with AMC conditions. Data for individual 4 were obtained by the Duke Genome Sequencing clinic supported by the Duke University Health System. We would also like to thank Rebecca Spillmann (Duke Pediatric Medical Genetics, Duke University Medical Center, Durham, NC, USA), Ioana Cutcutache, Matthew Page (Translational Medicine, UCB Pharma, Slough, UK) and Martin Armstrong (Translational Medicine, UCB Pharma, Braine-l'Alleud, Belgium). This work was supported by grants from Baillie Gifford; Visually Impaired Children Taking Action (VICTA) (www.victa.org.uk); Microphthalmia, Anophthalmia and Coloboma Support (MACS) (www.macs.org.uk); HEIF (Health Innovation Fund, Oxford Brookes University); La Fondation de France (grant number 2015-00060235, 2015); Fondation Maladies Rares and Retina France; Fondazione Bambino Ges? (Vite Coraggiose); E-Rare (NSEuroNet); AIRC (the Italian Foundation for Cancer Research) (IG 21614); the Italian Ministry of Health (Ricerca Corrente); and the National Heart, Lung, and Blood Institute (R35 HL135742). French patients are part of the Rare Disease Cohort (RaDiCo)-AC-Oeil. RaDiCo is funded by the French National Research Agency under the specific program ?Investments for the Future,? cohort grant agreement ANR-10-COHO-0003. V.S. and J.S. were supported by UCB Celltech and the Duke Genome Sequencing Clinic grant. W.B.D. was supported by the US National Institutes of Health under the National Institute of Neurological Disorders and Stroke (NINDS) grant R01NS058721. R.M.Y. and S.W.W. were supported by an MRC (Medical Research Council) Programme Grant (MR/L003775/1 to S.W.W. and G. Gestri) and a Wellcome Trust Investigator Award (104682/Z/14/Z). The human embryonic and fetal material was provided by the Joint MRC/Wellcome Trust (grant MR/R006237/1) Human Developmental Biology Resource (www.hdbr.org).

Publisher Copyright:
© 2019 The Authors

Keywords

  • FBXW11
  • Noonan syndrome
  • WD40
  • Wnt
  • brain
  • development
  • digit
  • eye
  • hedgehog
  • neurodevelopment

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