Please use this identifier to cite or link to this item: https://doi.org/10.1371/journal.pgen.1004372
Title: Discovery and Functional Annotation of SIX6 Variants in Primary Open-Angle Glaucoma
Authors: Ulmer Carnes M.
Liu Y.P.
Allingham R.R. 
Whigham B.T.
Havens S.
Garrett M.E.
Qiao C.
Katsanis N.
Wiggs J.L.
Pasquale L.R.
Ashley-Koch A.
Oh E.C.
Hauser M.A. 
Brilliant M.
Budenz D.L.
Chin H.R.
Cooke Bailey J.
Fingert J.
Friedman D.S.
Gaasterland D.
Gaasterland T.
Haines J.
Hauser M.A.
Kang J.H.
Lee R.K.
Lichter P.R.
Liu Y.
Loomis S.
McCarty C.E.
Moroi S.E.
Pasquale L.R.
Pericak-Vance M.
Realini A.
Richards J.E.
Schuman J.S.
Scott W.K.
Singh K.
Sit A.
Vollrath D.
Weinreb R.N.
Wiggs J.L.
Wollstein G.
Yaspan B.L.
Zack D.
Zhang K.
Keywords: asparagine
histidine
transcription factor
transcription factor Six6
unclassified drug
article
controlled study
DNA sequence
gene deletion
gene disruption
gene expression
gene frequency
gene identification
gene locus
genetic association
genetic variability
genotype
homozygosity
in vitro study
in vivo study
missense mutation
nonhuman
open angle glaucoma
optical coherence tomography
phenotype
protein function
retinal nerve fiber layer thickness
risk factor
single nucleotide polymorphism
visual impairment
Issue Date: 2014
Citation: Ulmer Carnes M., Liu Y.P., Allingham R.R., Whigham B.T., Havens S., Garrett M.E., Qiao C., Katsanis N., Wiggs J.L., Pasquale L.R., Ashley-Koch A., Oh E.C., Hauser M.A., Brilliant M., Budenz D.L., Chin H.R., Cooke Bailey J., Fingert J., Friedman D.S., Gaasterland D., Gaasterland T., Haines J., Hauser M.A., Kang J.H., Lee R.K., Lichter P.R., Liu Y., Loomis S., McCarty C.E., Moroi S.E., Pasquale L.R., Pericak-Vance M., Realini A., Richards J.E., Schuman J.S., Scott W.K., Singh K., Sit A., Vollrath D., Weinreb R.N., Wiggs J.L., Wollstein G., Yaspan B.L., Zack D., Zhang K. (2014). Discovery and Functional Annotation of SIX6 Variants in Primary Open-Angle Glaucoma. PLoS Genetics 10 (5) : e1004372. ScholarBank@NUS Repository. https://doi.org/10.1371/journal.pgen.1004372
Rights: Attribution 4.0 International
Abstract: Glaucoma is a leading cause of blindness worldwide. Primary open-angle glaucoma (POAG) is the most common subtype and is a complex trait with multigenic inheritance. Genome-wide association studies have previously identified a significant association between POAG and the SIX6 locus (rs10483727, odds ratio (OR) = 1.32, p = 3.87?10-11). SIX6 plays a role in ocular development and has been associated with the morphology of the optic nerve. We sequenced the SIX6 coding and regulatory regions in 262 POAG cases and 256 controls and identified six nonsynonymous coding variants, including five rare and one common variant, Asn141His (rs33912345), which was associated significantly with POAG (OR = 1.27, p = 4.2?10-10) in the NEIGHBOR/GLAUGEN datasets. These variants were tested in an in vivo Danio rerio (zebrafish) complementation assay to evaluate ocular metrics such as eye size and optic nerve structure. Five variants, found primarily in POAG cases, were hypomorphic or null, while the sixth variant, found only in controls, was benign. One variant in the SIX6 enhancer increased expression of SIX6 and disrupted its regulation. Finally, to our knowledge for the first time, we have identified a clinical feature in POAG patients that appears to be dependent upon SIX6 genotype: patients who are homozygous for the SIX6 risk allele (His141) have a statistically thinner retinal nerve fiber layer than patients homozygous for the SIX6 non-risk allele (Asn141). Our results, in combination with previous SIX6 work, lead us to hypothesize that SIX6 risk variants disrupt the development of the neural retina, leading to a reduced number of retinal ganglion cells, thereby increasing the risk of glaucoma-associated vision loss. ? 2014 Ulmer Carnes et al.
Source Title: PLoS Genetics
URI: https://scholarbank.nus.edu.sg/handle/10635/161941
ISSN: 15537390
DOI: 10.1371/journal.pgen.1004372
Rights: Attribution 4.0 International
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