Diagnosis of autosomal dominant polycystic kidney disease using efficient PKD1 and PKD2 targeted next‐generation sequencing. Issue 5 (23rd May 2014)

• Record Type: Journal Article
• Authors: Trujillano, Daniel; Bullich, Gemma; Ossowski, Stephan; Ballarín, José; Torra, Roser; Estivill, Xavier; Ars, Elisabet
• Is Part Of: Molecular genetics & genomic medicine. Volume 2:Issue 5(2014:Sep.)
• Page Start: 412
• Page End: 421
• Publication Date: 2014-05-23
• Subjects: Medical genetics -- Periodicals; Genomics -- Periodicals; 616.042
• DOI: 10.1002/mgg3.82
• Languages: English
• ISSNs: 2324-9269

Abstract

<abstract abstract-type="main" id="mgg382-abs-0001"> <title>Abstract</title> <p>Molecular diagnostics of autosomal dominant polycystic kidney disease (ADPKD) relies on mutation screening of <italic>PKD1</italic> and <italic>PKD2</italic>, which is complicated by extensive allelic heterogeneity and the presence of six highly homologous sequences of <italic>PKD1</italic>. To date, specific sequencing of <italic>PKD1</italic> requires laborious long‐range amplifications. The high cost and long turnaround time of <italic>PKD1</italic> and <italic>PKD2</italic> mutation analysis using conventional techniques limits its widespread application in clinical settings. We performed targeted next‐generation sequencing (NGS) of <italic>PKD1</italic> and <italic>PKD2</italic>. Pooled barcoded DNA patient libraries were enriched by in‐solution hybridization with <italic>PKD1</italic> and <italic>PKD2</italic> capture probes. Bioinformatics analysis was performed using an in‐house developed pipeline. We validated the assay in a cohort of 36 patients with previously known <italic>PKD1</italic> and <italic>PKD2</italic> mutations and five control individuals. Then, we used the same assay and bioinformatics analysis in a discovery cohort of 12 uncharacterized patients. We detected 35 out of 36 known definitely, highly likely, and likely pathogenic mutations in the validation cohort, including two large deletions. In the discovery cohort, we detected 11 different pathogenic mutations in 10 out of 12 patients. This study demonstrates that laborious long‐range PCRs of the repeated <italic>PKD1</italic> region can be avoided by in‐solution enrichment of <italic>PKD1</italic> and <italic>PKD2</italic> and NGS. This strategy significantly reduces the cost and time for simultaneous <italic>PKD1</italic> and <italic>PKD2</italic> sequence analysis, facilitating routine genetic diagnostics of ADPKD.</p> </abstract>