Genome-wide association identifies ATOH7 as a major gene determining human optic disc size

Stuart Macgregor, Alex W. Hewitt, Pirro G. Hysi, Jonathan B. Ruddle, Sarah E. Medland, Anjali K. Henders, Scott D. Gordon, Toby Andrew, Brian McEvoy, Paul G. Sanfilippo, Francis Carbonaro, Vikas Tah, Yi Ju Li, Sonya L. Bennett, Jamie E. Craig, Grant W. Montgomery, Khanh Nhat Tran-Viet, Nadean L Brown, Timothy D. Spector, Nicholas G. MartinTerri L. Young, Christopher J. Hammond, David A. Mackey

Research output: Contribution to journalArticle

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Abstract

Optic nerve assessment is important formany blinding diseases,with cup-to-disc ratio (CDR) assessments commonly used in both diagnosis and progression monitoring of glaucoma patients. Optic disc, cup, rim area and CDR measurements all show substantial variation between human populations and high heritability estimates within populations. To identify loci underlying these quantitative traits, weperformed a genome-wide association study in two Australian twin cohorts and identified rs3858145, P = 6.2 × 10-10, near the ATOH7 gene as associated with the mean disc area. ATOH7 is known from studies in model organisms to play a key role in retinal ganglion cell formation. The association with rs3858145 was replicated in a cohort of UK twins, with a metaanalysis of the combined data yielding P = 3.4 × 10-10. Imputation further increased the evidence for association for several SNPs in and around ATOH7 (P = 1.3 × 10-10 to 4.3 × 10-11, top SNP rs1900004). The meta-analysis also provided suggestive evidence for association for the cup area at rs690037, P = 1.5 × 10-7, in the gene RFTN1.Direct sequencing ofATOH7 in 12 patients withoptic nerve hypoplasia, one of the leadingcauses ofblindness in children, revealed two novel non-synonymous mutations (Arg65Gly, Ala47Thr) which were not found in 90 unrelated controls (combined Fisher's exact P = 0.0136). Furthermore, theArg65Gly variantwas found to have very low frequency (0.00066) in an additional set of 672 controls.

Original languageEnglish (US)
Article numberddq144
Pages (from-to)2716-2724
Number of pages9
JournalHuman Molecular Genetics
Volume19
Issue number13
DOIs
StatePublished - Apr 15 2010
Externally publishedYes

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Optic Disk
Single Nucleotide Polymorphism
Genome
Retinal Ganglion Cells
Quantitative Trait Loci
Genome-Wide Association Study
Physiologic Monitoring
Optic Nerve
Glaucoma
Population
Genes
Meta-Analysis
Mutation

ASJC Scopus subject areas

  • Genetics
  • Genetics(clinical)
  • Molecular Biology

Cite this

Macgregor, S., Hewitt, A. W., Hysi, P. G., Ruddle, J. B., Medland, S. E., Henders, A. K., ... Mackey, D. A. (2010). Genome-wide association identifies ATOH7 as a major gene determining human optic disc size. Human Molecular Genetics, 19(13), 2716-2724. [ddq144]. https://doi.org/10.1093/hmg/ddq144

Genome-wide association identifies ATOH7 as a major gene determining human optic disc size. / Macgregor, Stuart; Hewitt, Alex W.; Hysi, Pirro G.; Ruddle, Jonathan B.; Medland, Sarah E.; Henders, Anjali K.; Gordon, Scott D.; Andrew, Toby; McEvoy, Brian; Sanfilippo, Paul G.; Carbonaro, Francis; Tah, Vikas; Li, Yi Ju; Bennett, Sonya L.; Craig, Jamie E.; Montgomery, Grant W.; Tran-Viet, Khanh Nhat; Brown, Nadean L; Spector, Timothy D.; Martin, Nicholas G.; Young, Terri L.; Hammond, Christopher J.; Mackey, David A.

In: Human Molecular Genetics, Vol. 19, No. 13, ddq144, 15.04.2010, p. 2716-2724.

Research output: Contribution to journalArticle

Macgregor, S, Hewitt, AW, Hysi, PG, Ruddle, JB, Medland, SE, Henders, AK, Gordon, SD, Andrew, T, McEvoy, B, Sanfilippo, PG, Carbonaro, F, Tah, V, Li, YJ, Bennett, SL, Craig, JE, Montgomery, GW, Tran-Viet, KN, Brown, NL, Spector, TD, Martin, NG, Young, TL, Hammond, CJ & Mackey, DA 2010, 'Genome-wide association identifies ATOH7 as a major gene determining human optic disc size', Human Molecular Genetics, vol. 19, no. 13, ddq144, pp. 2716-2724. https://doi.org/10.1093/hmg/ddq144
Macgregor S, Hewitt AW, Hysi PG, Ruddle JB, Medland SE, Henders AK et al. Genome-wide association identifies ATOH7 as a major gene determining human optic disc size. Human Molecular Genetics. 2010 Apr 15;19(13):2716-2724. ddq144. https://doi.org/10.1093/hmg/ddq144
Macgregor, Stuart ; Hewitt, Alex W. ; Hysi, Pirro G. ; Ruddle, Jonathan B. ; Medland, Sarah E. ; Henders, Anjali K. ; Gordon, Scott D. ; Andrew, Toby ; McEvoy, Brian ; Sanfilippo, Paul G. ; Carbonaro, Francis ; Tah, Vikas ; Li, Yi Ju ; Bennett, Sonya L. ; Craig, Jamie E. ; Montgomery, Grant W. ; Tran-Viet, Khanh Nhat ; Brown, Nadean L ; Spector, Timothy D. ; Martin, Nicholas G. ; Young, Terri L. ; Hammond, Christopher J. ; Mackey, David A. / Genome-wide association identifies ATOH7 as a major gene determining human optic disc size. In: Human Molecular Genetics. 2010 ; Vol. 19, No. 13. pp. 2716-2724.
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AU - Medland, Sarah E.

AU - Henders, Anjali K.

AU - Gordon, Scott D.

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AU - Tran-Viet, Khanh Nhat

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AU - Spector, Timothy D.

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