Homozygosity mapping reveals novel and known mutations in Pakistani families with inherited retinal dystrophies

Muhammad Arif Nadeem Saqib, Konstantinos Nikopoulos, Ehsan Ullah, Falak Sher Khan, Jamila Iqbal, Rabia Bibi, Afeefa Jarral, Sundus Sajid, Koji M. Nishiguchi, Giulia Venturini, Muhammad Ansar, Carlo Rivolta

Research output: Contribution to journalArticlepeer-review

19 Citations (Scopus)

Abstract

Inherited retinal dystrophies are phenotypically and genetically heterogeneous. This extensive heterogeneity poses a challenge when performing molecular diagnosis of patients, especially in developing countries. In this study, we applied homozygosity mapping as a tool to reduce the complexity given by genetic heterogeneity and identify disease-causing variants in consanguineous Pakistani pedigrees. DNA samples from eight families with autosomal recessive retinal dystrophies were subjected to genome wide homozygosity mapping (seven by SNP arrays and one by STR markers) and genes comprised within the detected homozygous regions were analyzed by Sanger sequencing. All families displayed consistent autozygous genomic regions. Sequence analysis of candidate genes identified four previously-reported mutations in CNGB3, CNGA3, RHO, and PDE6A, as well as three novel mutations: c.2656C > €‰> €‰T (p.L886F) in RPGRIP1, c.991G €‰> €‰C (p.G331R) in CNGA3, and c.413-1G €‰> €‰A (IVS6-1G €‰> €‰A) in CNGB1. This latter mutation impacted pre-mRNA splicing of CNGB1 by creating a -1 frameshift leading to a premature termination codon. In addition to better delineating the genetic landscape of inherited retinal dystrophies in Pakistan, our data confirm that combining homozygosity mapping and candidate gene sequencing is a powerful approach for mutation identification in populations where consanguineous unions are common.

Original languageEnglish
Article number9965
JournalScientific reports
Volume5
DOIs
Publication statusPublished - 2015 May 6

ASJC Scopus subject areas

  • General

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