Major LOXL1 risk allele is reversed in exfoliation glaucoma in a black South African population

Susan E.I. Williams, Benjamin T. Whigham, Yutao Liu, Trevor R. Carmichael, Xuejun Qin, Silke Schmidt, Michele Ramsay, Michael A. Hauser, R. Rand Allingham

Research output: Contribution to journalArticle

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Abstract

Purpose: To investigate whether variants in the lysyl oxidase-like 1 (LOXL1) gene are associated with exfoliation glaucoma (XFG) and primary open-angle glaucoma (POAG) in an ancestral population from South Africa. Methods: Black South African subjects with XFG, POAG, and age matched unaffected controls were recruited from the St. John Eye Hospital in Soweto, Johannesburg, South Africa, using standard clinical examination techniques. Fifty individuals were collected for each of the three groups: XFG, POAG, and normal controls. The complete coding region of LOXL1 was sequenced using the PCR-based Sanger method. The allele frequencies of the identified sequence variants were compared between XFG or POAG and controls using Fisher's exact test. Results: A large number of coding variants were identified, including rs1048661 (R141L), rs3825942 (G153D), S159A, S161L, rs41435250 (A320A), rs13329473 (F489F), and T567A. The allele frequencies of both rs3825942 and rs1048661 differed significantly between the XFG and control subjects from South Africa (p=5.2×10-13 and 1.7×10-5, respectively). The G allele for rs1048661 (encoding arginine) was the risk allele which is similar to other populations. The A allele of rs3825942 (encoding aspartic acid) was the risk allele, in sharp contrast to the G allele (encoding glycine) reported in multiple other populations. There was no significant difference in the allele frequencies of coding variants in LOXL1 between POAG and control subjects. Conclusions: This represents the first genetic association study of LOXL1 in an ancestral African population with XFG. We have confirmed the association between variants of LOXL1 and XFG. To date, the G allele of the major susceptibility variant rs3825942 has consistently been shown in multiple populations to increase the risk of XFG. Surprisingly, we have found a strong association with the opposite allele in the South African population. This suggests that other as yet unknown causal variants of LOXL1 contribute to the genetic risk of XFG.

Original languageEnglish (US)
Pages (from-to)705-712
Number of pages8
JournalMolecular Vision
Volume16
StatePublished - Aug 20 2010
Externally publishedYes

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Exfoliation Syndrome
Protein-Lysine 6-Oxidase
Alleles
Population
South Africa
Gene Frequency
Genetic Association Studies
Aspartic Acid
Glycine
Arginine
Primary Open Angle Glaucoma
Polymerase Chain Reaction

ASJC Scopus subject areas

  • Ophthalmology

Cite this

Williams, S. E. I., Whigham, B. T., Liu, Y., Carmichael, T. R., Qin, X., Schmidt, S., ... Allingham, R. R. (2010). Major LOXL1 risk allele is reversed in exfoliation glaucoma in a black South African population. Molecular Vision, 16, 705-712.

Major LOXL1 risk allele is reversed in exfoliation glaucoma in a black South African population. / Williams, Susan E.I.; Whigham, Benjamin T.; Liu, Yutao; Carmichael, Trevor R.; Qin, Xuejun; Schmidt, Silke; Ramsay, Michele; Hauser, Michael A.; Allingham, R. Rand.

In: Molecular Vision, Vol. 16, 20.08.2010, p. 705-712.

Research output: Contribution to journalArticle

Williams, SEI, Whigham, BT, Liu, Y, Carmichael, TR, Qin, X, Schmidt, S, Ramsay, M, Hauser, MA & Allingham, RR 2010, 'Major LOXL1 risk allele is reversed in exfoliation glaucoma in a black South African population', Molecular Vision, vol. 16, pp. 705-712.
Williams SEI, Whigham BT, Liu Y, Carmichael TR, Qin X, Schmidt S et al. Major LOXL1 risk allele is reversed in exfoliation glaucoma in a black South African population. Molecular Vision. 2010 Aug 20;16:705-712.
Williams, Susan E.I. ; Whigham, Benjamin T. ; Liu, Yutao ; Carmichael, Trevor R. ; Qin, Xuejun ; Schmidt, Silke ; Ramsay, Michele ; Hauser, Michael A. ; Allingham, R. Rand. / Major LOXL1 risk allele is reversed in exfoliation glaucoma in a black South African population. In: Molecular Vision. 2010 ; Vol. 16. pp. 705-712.
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abstract = "Purpose: To investigate whether variants in the lysyl oxidase-like 1 (LOXL1) gene are associated with exfoliation glaucoma (XFG) and primary open-angle glaucoma (POAG) in an ancestral population from South Africa. Methods: Black South African subjects with XFG, POAG, and age matched unaffected controls were recruited from the St. John Eye Hospital in Soweto, Johannesburg, South Africa, using standard clinical examination techniques. Fifty individuals were collected for each of the three groups: XFG, POAG, and normal controls. The complete coding region of LOXL1 was sequenced using the PCR-based Sanger method. The allele frequencies of the identified sequence variants were compared between XFG or POAG and controls using Fisher's exact test. Results: A large number of coding variants were identified, including rs1048661 (R141L), rs3825942 (G153D), S159A, S161L, rs41435250 (A320A), rs13329473 (F489F), and T567A. The allele frequencies of both rs3825942 and rs1048661 differed significantly between the XFG and control subjects from South Africa (p=5.2×10-13 and 1.7×10-5, respectively). The G allele for rs1048661 (encoding arginine) was the risk allele which is similar to other populations. The A allele of rs3825942 (encoding aspartic acid) was the risk allele, in sharp contrast to the G allele (encoding glycine) reported in multiple other populations. There was no significant difference in the allele frequencies of coding variants in LOXL1 between POAG and control subjects. Conclusions: This represents the first genetic association study of LOXL1 in an ancestral African population with XFG. We have confirmed the association between variants of LOXL1 and XFG. To date, the G allele of the major susceptibility variant rs3825942 has consistently been shown in multiple populations to increase the risk of XFG. Surprisingly, we have found a strong association with the opposite allele in the South African population. This suggests that other as yet unknown causal variants of LOXL1 contribute to the genetic risk of XFG.",
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AU - Williams, Susan E.I.

AU - Whigham, Benjamin T.

AU - Liu, Yutao

AU - Carmichael, Trevor R.

AU - Qin, Xuejun

AU - Schmidt, Silke

AU - Ramsay, Michele

AU - Hauser, Michael A.

AU - Allingham, R. Rand

PY - 2010/8/20

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N2 - Purpose: To investigate whether variants in the lysyl oxidase-like 1 (LOXL1) gene are associated with exfoliation glaucoma (XFG) and primary open-angle glaucoma (POAG) in an ancestral population from South Africa. Methods: Black South African subjects with XFG, POAG, and age matched unaffected controls were recruited from the St. John Eye Hospital in Soweto, Johannesburg, South Africa, using standard clinical examination techniques. Fifty individuals were collected for each of the three groups: XFG, POAG, and normal controls. The complete coding region of LOXL1 was sequenced using the PCR-based Sanger method. The allele frequencies of the identified sequence variants were compared between XFG or POAG and controls using Fisher's exact test. Results: A large number of coding variants were identified, including rs1048661 (R141L), rs3825942 (G153D), S159A, S161L, rs41435250 (A320A), rs13329473 (F489F), and T567A. The allele frequencies of both rs3825942 and rs1048661 differed significantly between the XFG and control subjects from South Africa (p=5.2×10-13 and 1.7×10-5, respectively). The G allele for rs1048661 (encoding arginine) was the risk allele which is similar to other populations. The A allele of rs3825942 (encoding aspartic acid) was the risk allele, in sharp contrast to the G allele (encoding glycine) reported in multiple other populations. There was no significant difference in the allele frequencies of coding variants in LOXL1 between POAG and control subjects. Conclusions: This represents the first genetic association study of LOXL1 in an ancestral African population with XFG. We have confirmed the association between variants of LOXL1 and XFG. To date, the G allele of the major susceptibility variant rs3825942 has consistently been shown in multiple populations to increase the risk of XFG. Surprisingly, we have found a strong association with the opposite allele in the South African population. This suggests that other as yet unknown causal variants of LOXL1 contribute to the genetic risk of XFG.

AB - Purpose: To investigate whether variants in the lysyl oxidase-like 1 (LOXL1) gene are associated with exfoliation glaucoma (XFG) and primary open-angle glaucoma (POAG) in an ancestral population from South Africa. Methods: Black South African subjects with XFG, POAG, and age matched unaffected controls were recruited from the St. John Eye Hospital in Soweto, Johannesburg, South Africa, using standard clinical examination techniques. Fifty individuals were collected for each of the three groups: XFG, POAG, and normal controls. The complete coding region of LOXL1 was sequenced using the PCR-based Sanger method. The allele frequencies of the identified sequence variants were compared between XFG or POAG and controls using Fisher's exact test. Results: A large number of coding variants were identified, including rs1048661 (R141L), rs3825942 (G153D), S159A, S161L, rs41435250 (A320A), rs13329473 (F489F), and T567A. The allele frequencies of both rs3825942 and rs1048661 differed significantly between the XFG and control subjects from South Africa (p=5.2×10-13 and 1.7×10-5, respectively). The G allele for rs1048661 (encoding arginine) was the risk allele which is similar to other populations. The A allele of rs3825942 (encoding aspartic acid) was the risk allele, in sharp contrast to the G allele (encoding glycine) reported in multiple other populations. There was no significant difference in the allele frequencies of coding variants in LOXL1 between POAG and control subjects. Conclusions: This represents the first genetic association study of LOXL1 in an ancestral African population with XFG. We have confirmed the association between variants of LOXL1 and XFG. To date, the G allele of the major susceptibility variant rs3825942 has consistently been shown in multiple populations to increase the risk of XFG. Surprisingly, we have found a strong association with the opposite allele in the South African population. This suggests that other as yet unknown causal variants of LOXL1 contribute to the genetic risk of XFG.

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