University of Tasmania
Browse

Rare, potentially pathogenic variants in ZNF469 are not enriched in keratoconus in a large Australian cohort of European descent

Download (276.82 kB)
journal contribution
posted on 2023-05-19, 14:25 authored by Sionne LucasSionne Lucas, Zhou, T, Nicholas BlackburnNicholas Blackburn, Mills, RA, Ellis, J, Leo, P, Souzeau, E, Ridge, B, Jac CharlesworthJac Charlesworth, Brown, MA, Lindsay, RC, Craig, JE, Kathryn BurdonKathryn Burdon
Purpose: The Zinc Finger Protein 469 (ZNF469) gene has been proposed as a candidate gene for keratoconus due to the association of an upstream polymorphism (rs9938149) with the disease in two independent studies, and the role of the gene in the autosomal recessive disease Brittle Cornea Syndrome. Coding variants in ZNF469 have been assessed for association with keratoconus in several small studies, with conflicting results. We assessed rare, potentially pathogenic variants in ZNF469 for enrichment in keratoconus patients in a cohort larger than all previous studies combined.

Methods: ZNF469 was sequenced in 385 Australian keratoconus patients of European descent, 346 population controls, and 230 ethnically matched screened controls by either whole exome sequencing or targeted gene sequencing. The frequency of rare and very rare potentially pathogenic variants was compared between cases and controls using χ2 or Fisher's exact tests and further explored using a gene based test (Sequence Kernel Association Test [SKAT]), weighting on the rarity of variants.

Results: A total of 49 rare, including 33 very rare, potentially pathogenic variants were identified across all groups. No enrichment of rare or very rare potentially pathogenic variants in ZNF469 was observed in our cases compared to the control groups following analysis using χ2 or Fisher's exact tests. This finding was further supported by the SKAT results, which found no significant difference in the frequency of variants predicted to be damaging between cases and either control group (P = 0.06).

Conclusions: Rare variants in ZNF469 do not contribute to keratoconus susceptibility and do not account for the association at rs9938149.

History

Publication title

Investigative Ophthalmology and Visual Science (Iovs)

Volume

58

Issue

14

Pagination

6248-6256

ISSN

0146-0404

Department/School

Menzies Institute for Medical Research

Publisher

Assoc Research Vision Ophthalmology Inc

Place of publication

12300 Twinbrook Parkway, Rockville, USA, Md, 20852-1606

Rights statement

Copyright 2017 The Authors. Licensed under Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License. https://creativecommons.org/licenses/by-nc-nd/4.0/

Repository Status

  • Open

Socio-economic Objectives

Clinical health not elsewhere classified

Usage metrics

    University Of Tasmania

    Categories

    Exports

    RefWorks
    BibTeX
    Ref. manager
    Endnote
    DataCite
    NLM
    DC