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A DNA resequencing array for genes involved in Parkinson's disease

Citation

Wilkins, EJ and Rubio, JP and Kotschet, KE and Cowie, TF and Boon, WC and O'Hely, M and Burfoot, R and Wang, W and Sue, CM and Speed, TP and Stankovich, J and Horne, MK, A DNA resequencing array for genes involved in Parkinson's disease, Parkinsonism and related disorders, 18, (4) pp. 386-390. ISSN 1353-8020 (2012) [Refereed Article]

Copyright Statement

Crown Copyright 2011

DOI: doi:10.1016/j.parkreldis.2011.12.012

Abstract

Parkinson's disease (PD) is aetiologically complex with both familial and sporadic forms. Familial PD results from rare, highly penetrant pathogenic mutations whereas multiple variants of low penetrance may contribute to the risk of sporadic PD. Common variants implicated in PD risk appear to explain only a minor proportion of the familial clustering observed in sporadic PD. It is therefore plausible that combinations of rare and/or common variants in genes already implicated in disease pathogenesis may help to explain the genetic basis of PD. We have developed a CustomSeq Affymetrix resequencing array to enable high-throughput sequencing of 13 genes (44 kb) implicated in the pathogenesis of PD.

Using the array we sequenced 269 individuals, including 186 PD patients and 75 controls, achieving an overall call rate of 96.5% and 93.6%, for two respective versions of the array, and >99.9% accuracy for five samples sequenced by capillary sequencing in parallel. We identified modest associations with common variants in SNCA and LRRK2 and a trend suggestive of an over-representation of rare variants in cases compared to controls for several genes. We propose that this technology offers a robust and cost-effective alternative to targeted sequencing using traditional sequencing methods, and here we demonstrate the potential of this approach for either routine clinical investigation or for research studies aimed at understanding the genetic aetiology of PD.

Item Details

Item Type:Refereed Article
Keywords:Parkinsons diesease, Affymetrix resequencing array, DNA resequencing
Research Division:Biological Sciences
Research Group:Genetics
Research Field:Genomics
Objective Division:Health
Objective Group:Clinical Health (Organs, Diseases and Abnormal Conditions)
Objective Field:Nervous System and Disorders
Author:Stankovich, J (Dr Jim Stankovich)
ID Code:82203
Year Published:2012
Web of Science® Times Cited:4
Deposited By:Menzies Institute for Medical Research
Deposited On:2013-01-21
Last Modified:2013-04-19
Downloads:0

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