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Next generation sequencing of pooled samples reveals new SNRNP200 mutations associated with retinitis pigmentosa
Author(s) -
Benaglio Paola,
McGee Terri L.,
Capelli Leonardo P.,
Harper Shyana,
Berson Eliot L.,
Rivolta Carlo
Publication year - 2011
Publication title -
human mutation
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.981
H-Index - 162
eISSN - 1098-1004
pISSN - 1059-7794
DOI - 10.1002/humu.21485
Subject(s) - biology , retinitis pigmentosa , sanger sequencing , genetics , missense mutation , dna sequencing , gene , exon , genomic dna , mutation , rna splicing , rna
The gene SNRNP200 is composed of 45 exons and encodes a protein essential for pre‐mRNA splicing, the 200 kDa helicase hBrr2. Two mutations in SNRNP200 have recently been associated with autosomal dominant retinitis pigmentosa (adRP), a retinal degenerative disease, in two families from China. In this work we analyzed the entire 35‐Kb SNRNP200 genomic region in a cohort of 96 unrelated North American patients with adRP. To complete this large‐scale sequencing project, we performed ultra high‐throughput sequencing of pooled, untagged PCR products. We then validated the detected DNA changes by Sanger sequencing of individual samples from this cohort and from an additional one of 95 patients. One of the two previously known mutations (p.S1087L) was identified in 3 patients, while 4 new missense changes (p.R681C, p.R681H, p.V683L, p.Y689C) affecting highly conserved codons were identified in 6 unrelated individuals, indicating that the prevalence of SNRNP200 ‐associated adRP is relatively high. We also took advantage of this research to evaluate the pool‐and‐sequence method, especially with respect to the generation of false positive and negative results. We conclude that, although this strategy can be adopted for rapid discovery of new disease‐associated variants, it still requires extensive validation to be used in routine DNA screenings. © 2011 Wiley‐Liss, Inc.