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Genes (Basel). 2017 Aug 24;8(9). pii: E210. doi: 10.3390/genes8090210.

Whole Genome Sequencing Revealed Mutations in Two Independent Genes as the Underlying Cause of Retinal Degeneration in an Ashkenazi Jewish Pedigree.

Author information

1
Ophthalmology, University of California, San Francisco, San Francisco, CA 94143-0730, USA. kevingustafson11@gmail.com.
2
Ophthalmology, University of California, San Francisco, San Francisco, CA 94143-0730, USA. jacque.duncan@ucsf.edu.
3
REVA University, Bengaluru, Karnataka 560034, India. pobiswas@ucsd.edu.
4
Shiley Eye Institute, University of California, San Diego, La Jolla, CA 92093-0946, USA. pobiswas@ucsd.edu.
5
Shiley Eye Institute, University of California, San Diego, La Jolla, CA 92093-0946, USA. ashermida@ucsd.edu.
6
Biomedical Sciences Graduate Program, University of California, San Diego, La Jolla, CA 92093, USA. hmatsui@ucsd.edu.
7
Biomedical Sciences Graduate Program, University of California, San Diego, La Jolla, CA 92093, USA. djakubos@ucsd.edu.
8
Shiley Eye Institute, University of California, San Diego, La Jolla, CA 92093-0946, USA. jjsuk@ucsd.edu.
9
Human Longevity, Inc., San Diego, CA 92121, USA. atelenti@humanlongevity.com.
10
Biomedical Sciences Graduate Program, University of California, San Diego, La Jolla, CA 92093, USA. kafrazer@ucsd.edu.
11
Department of Pediatrics, Rady Children's Hospital, Division of Genome Information Sciences, San Diego, CA 92093, USA. kafrazer@ucsd.edu.
12
Shiley Eye Institute, University of California, San Diego, La Jolla, CA 92093-0946, USA. rayyagari@ucsd.edu.

Abstract

Retinitis pigmentosa (RP) causes progressive photoreceptor loss resulting from mutations in over 80 genes. This study identified the genetic cause of RP in three members of a non-consanguineous pedigree. Detailed ophthalmic evaluation was performed in the three affected family members. Whole exome sequencing (WES) and whole genome sequencing (WGS) were performed in the three affected and the two unaffected family members and variants were filtered to detect rare, potentially deleterious variants segregating with disease. WES and WGS did not identify potentially pathogenic variants shared by all three affected members. However, WES identified a previously reported homozygous nonsense mutation in KIZ (c.226C>T, p.Arg76*) in two affected sisters, but not in their affected second cousin. WGS revealed a novel 1.135 kb homozygous deletion in a retina transcript of C21orf2 and a novel 30.651 kb heterozygous deletion in CACNA2D4 in the affected second cousin. The sisters with the KIZ mutation carried no copies of the C21orf2 or CACNA2D4 deletions, while the second cousin with the C21orf2 and CACNA2D4 deletions carried no copies of the KIZ mutation. This study identified two independent, homozygous mutations in genes previously reported in autosomal recessive RP in a non-consanguineous family, and demonstrated the value of WGS when WES fails to identify likely disease-causing mutations.

KEYWORDS:

genetics; retina; retinitis pigmentosa

Conflict of interest statement

All authors declare no conflict of interest except Amalio Telenti is an employee of Human Longevity, Inc. and Radha Ayyagari’s spouse is an employee of Pfizer. The funding sponsors had no role in the design of the study; in the collection, analyses, or interpretation of data; in the writing of the manuscript, and in the decision to publish the results.

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