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Identification of a novel prostate cancer susceptibility variant in the KLK3 gene transcript

Kote-Jarai, Zsofia, Olama, Ali Amin Al, Leongamornlert, Daniel, Tymrakiewicz, Malgorzata, Saunders, E., Guy, Michelle, Giles, Graham, Severi, Gianluca, Southey, Melissa, Hopper, John, Sit, Kei Chun, Harris, Jonathan, Batra, Jyotsna, Spurdle, Amanda, Clements, Judith, Hamdy, Freddie, Neal, David, Donovan, Jenny, Muir, Ken, Pharoah, Paul, Chanock, Stephen, Brown, N., Benlloch, Sara, Castro, E., Mahmud, N., O'Brien, L., Hall, A., Sawyer, E., Wilkinson, R., Easton, Douglas, & Eeles, Rosalind (2011) Identification of a novel prostate cancer susceptibility variant in the KLK3 gene transcript. Human Genetics, 129(6), pp. 687-694.

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Abstract

Abstract

Genome-wide association studies (GWAS) have identified more than 30 prostate cancer (PrCa) susceptibility loci. One of these (rs2735839) is located close to a plausible candidate susceptibility gene, KLK3, which encodes prostate-specific antigen (PSA). PSA is widely used as a biomarker for PrCa detection and disease monitoring. To refine the association between PrCa and variants in this region, we used genotyping data from a two-stage GWAS using samples from the UK and Australia, and the Cancer Genetic Markers of Susceptibility (CGEMS) study. Genotypes were imputed for 197 and 312 single nucleotide polymorphisms (SNPs) from HapMap2 and the 1000 Genome Project, respectively. The most significant association with PrCa was with a previously unidentified SNP, rs17632542 (combined P = 3.9 × 10−22). This association was confirmed by direct genotyping in three stages of the UK/Australian GWAS, involving 10,405 cases and 10,681 controls (combined P = 1.9 × 10−34). rs17632542 is also shown to be associated with PSA levels and it is a non-synonymous coding SNP (Ile179Thr) in KLK3. Using molecular dynamic simulation, we showed evidence that this variant has the potential to introduce alterations in the protein or affect RNA splicing. We propose that rs17632542 may directly influence PrCa risk.

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ID Code: 52174
Item Type: Journal Article
DOI: 10.1007/s00439-011-0981-1
ISSN: 0340-6717
Subjects: Australian and New Zealand Standard Research Classification > BIOLOGICAL SCIENCES (060000) > GENETICS (060400)
Australian and New Zealand Standard Research Classification > MEDICAL AND HEALTH SCIENCES (110000) > COMPLEMENTARY AND ALTERNATIVE MEDICINE (110400)
Australian and New Zealand Standard Research Classification > MEDICAL AND HEALTH SCIENCES (110000) > PAEDIATRICS AND REPRODUCTIVE MEDICINE (111400)
Divisions: Current > QUT Faculties and Divisions > Faculty of Health
Current > Institutes > Institute of Health and Biomedical Innovation
Copyright Owner: Springer
Deposited On: 19 Jul 2012 16:28
Last Modified: 03 Dec 2012 12:06

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