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Whole exome sequencing identifies a mutation for a novel form of corneal intraepithelial dyskeratosis
  1. Vincent José Soler1,2,
  2. Khanh-Nhat Tran-Viet1,
  3. Stéphane D Galiacy2,
  4. Vachiranee Limviphuvadh3,
  5. Thomas Patrick Klemm4,
  6. Elizabeth St Germain1,
  7. Pierre R Fournié2,5,
  8. Céline Guillaud2,5,
  9. Sebastian Maurer-Stroh3,6,
  10. Felicia Hawthorne1,
  11. Cyrielle Suarez2,5,
  12. Bernadette Kantelip7,
  13. Natalie A Afshari8,
  14. Isabelle Creveaux9,
  15. Xiaoyan Luo1,
  16. Weihua Meng2,
  17. Patrick Calvas2,
  18. Myriam Cassagne2,5,
  19. Jean-Louis Arné5,
  20. Steven G Rozen4,
  21. François Malecaze2,5,
  22. Terri L Young1,8
  1. 1Duke Center for Human Genetics, Duke University Medical Center, Durham, North Carolina, USA
  2. 2EA-4555 Genetics of refractive disorders and developmental defects of the Eye, Centre de Physiopathologie de Toulouse Purpan, Toulouse III Paul-Sabatier University, Toulouse, France
  3. 3Bioinformatics Institute, Agency for Science Technology and Research, Singapore, Singapore
  4. 4Duke-National University of Singapore Graduate Medical School, Singapore, Singapore
  5. 5Ophthalmology Department, Purpan Hospital, Toulouse, France
  6. 6School of Biological Sciences, Nanyang Technological University, Singapore, Singapore
  7. 7Service d'Anatomie Pathologique, Centre Hospitalier Universitaire de Besançon, Besançon, France
  8. 8Department of Ophthalmology, Duke University Eye Center, Durham, North Carolina, USA
  9. 9Laboratoire de biochimie médicale et de biologie moléculaire, Faculté de médecine de Clermont-Ferrand, Clermont-Ferrand, France
  1. Correspondence to Dr Vincent José Soler, Ophthalmology Department, Pavillon Dieulafoy, Place Baylac, 31057 Toulouse Cedex 9, France; vincesoler{at}yahoo.fr

Abstract

Background Corneal intraepithelial dyskeratosis is an extremely rare condition. The classical form, affecting Native American Haliwa-Saponi tribe members, is called hereditary benign intraepithelial dyskeratosis (HBID). Herein, we present a new form of corneal intraepithelial dyskeratosis for which we identified the causative gene by using deep sequencing technology.

Methods and results A seven member Caucasian French family with two corneal intraepithelial dyskeratosis affected individuals (6-year-old proband and his mother) was ascertained. The proband presented with bilateral complete corneal opacification and dyskeratosis. Palmoplantar hyperkeratosis and laryngeal dyskeratosis were associated with the phenotype. Histopathology studies of cornea and vocal cord biopsies showed dyskeratotic keratinisation. Quantitative PCR ruled out 4q35 duplication, classically described in HBID cases. Next generation sequencing with mean coverage of 50× using the Illumina Hi Seq and whole exome capture processing was performed. Sequence reads were aligned, and screened for single nucleotide variants and insertion/deletion calls. In-house pipeline filtering analyses and comparisons with available databases were performed. A novel missense mutation M77T was discovered for the gene NLRP1 which maps to chromosome 17p13.2. This was a de novo mutation in the proband's mother, following segregation in the family, and not found in 738 control DNA samples. NLRP1 expression was determined in adult corneal epithelium. The amino acid change was found to destabilise significantly the protein structure.

Conclusions We describe a new corneal intraepithelial dyskeratosis and how we identified its causative gene. The NLRP1 gene product is implicated in inflammation, autoimmune disorders, and caspase mediated apoptosis. NLRP1 polymorphisms are associated with various diseases.

  • Ophthalmology
  • Genetics

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