Analysis of LOXL1 polymorphisms in a United States population with pseudoexfoliation glaucoma

Pratap Challa, Silke Schmidt, Yutao Liu, Xuejun Qin, Robin R. Vann, Pedro Gonzalez, R. Rand Allingham, Michael A. Hauser

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Abstract

Purpose: To identify if recently described LOXL1 (lysyl oxidase-like 1) polymorphisms are associated with pseudoexfollation glaucoma (XFG) in a United States (U.S.) Caucasian patient population. Methods: Individuals with XFG were identified using standard clinical examination techniques. TaqMan allelic discrimination assays were used to genotype 13 single nucleotide polymorphisms (SNPs) that tag LOXL1 in Caucasian individuals. The coding region of exon 1 that includes the previously associated SNP, rs1048661 was sequenced. Allele and genotype frequencies were compared between cases and unrelated controls. Results: Fifty affected individuals and 235 control individuals were recruited into this study. We replicated the previously reported association of three SNPs (rs1048661, rs2165241 and rs3825942) in our independent XFG population (single SNP p-values were 0.001-0.02). The risk alleles at these three and several other intragenic SNPs are part of an extended XFG-associated,, LOXL1 haplotype with a frequency of 32.0% in XFG patients and 21.6% in controls. Conclusions: We have performed an analysis of LOXL1 and XFG in a United States patient population and have confirmed the strong association previously reported for Icelandic and Swedish samples. However, due to the high frequency of risk alleles in non-XFG individuals, this association should not form the basis of a diagnostic test for XFG. It is likely that additional genetic or environmental factors modulate the penetrance of LOXL1 susceptibility, alleles.

Original languageEnglish (US)
Pages (from-to)146-149
Number of pages4
JournalMolecular Vision
Volume14
StatePublished - Jan 29 2008
Externally publishedYes

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Protein-Lysine 6-Oxidase
Glaucoma
Single Nucleotide Polymorphism
Population
Gene Frequency
Alleles
Genotype
Penetrance
Routine Diagnostic Tests
Haplotypes
Exons

ASJC Scopus subject areas

  • Ophthalmology

Cite this

Challa, P., Schmidt, S., Liu, Y., Qin, X., Vann, R. R., Gonzalez, P., ... Hauser, M. A. (2008). Analysis of LOXL1 polymorphisms in a United States population with pseudoexfoliation glaucoma. Molecular Vision, 14, 146-149.

Analysis of LOXL1 polymorphisms in a United States population with pseudoexfoliation glaucoma. / Challa, Pratap; Schmidt, Silke; Liu, Yutao; Qin, Xuejun; Vann, Robin R.; Gonzalez, Pedro; Allingham, R. Rand; Hauser, Michael A.

In: Molecular Vision, Vol. 14, 29.01.2008, p. 146-149.

Research output: Contribution to journalArticle

Challa, P, Schmidt, S, Liu, Y, Qin, X, Vann, RR, Gonzalez, P, Allingham, RR & Hauser, MA 2008, 'Analysis of LOXL1 polymorphisms in a United States population with pseudoexfoliation glaucoma', Molecular Vision, vol. 14, pp. 146-149.
Challa P, Schmidt S, Liu Y, Qin X, Vann RR, Gonzalez P et al. Analysis of LOXL1 polymorphisms in a United States population with pseudoexfoliation glaucoma. Molecular Vision. 2008 Jan 29;14:146-149.
Challa, Pratap ; Schmidt, Silke ; Liu, Yutao ; Qin, Xuejun ; Vann, Robin R. ; Gonzalez, Pedro ; Allingham, R. Rand ; Hauser, Michael A. / Analysis of LOXL1 polymorphisms in a United States population with pseudoexfoliation glaucoma. In: Molecular Vision. 2008 ; Vol. 14. pp. 146-149.
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abstract = "Purpose: To identify if recently described LOXL1 (lysyl oxidase-like 1) polymorphisms are associated with pseudoexfollation glaucoma (XFG) in a United States (U.S.) Caucasian patient population. Methods: Individuals with XFG were identified using standard clinical examination techniques. TaqMan allelic discrimination assays were used to genotype 13 single nucleotide polymorphisms (SNPs) that tag LOXL1 in Caucasian individuals. The coding region of exon 1 that includes the previously associated SNP, rs1048661 was sequenced. Allele and genotype frequencies were compared between cases and unrelated controls. Results: Fifty affected individuals and 235 control individuals were recruited into this study. We replicated the previously reported association of three SNPs (rs1048661, rs2165241 and rs3825942) in our independent XFG population (single SNP p-values were 0.001-0.02). The risk alleles at these three and several other intragenic SNPs are part of an extended XFG-associated,, LOXL1 haplotype with a frequency of 32.0{\%} in XFG patients and 21.6{\%} in controls. Conclusions: We have performed an analysis of LOXL1 and XFG in a United States patient population and have confirmed the strong association previously reported for Icelandic and Swedish samples. However, due to the high frequency of risk alleles in non-XFG individuals, this association should not form the basis of a diagnostic test for XFG. It is likely that additional genetic or environmental factors modulate the penetrance of LOXL1 susceptibility, alleles.",
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