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Sang S, Ling J, Liu X, Mei L, Cai X, Li T, Li W, Li M, Wen J, Liu X, Liu J, Liu Y, Chen H, He C, Feng Y. Proband Whole-Exome Sequencing Identified Genes Responsible for Autosomal Recessive Non-Syndromic Hearing Loss in 33 Chinese Nuclear Families. Front Genet 2019; 10:639. [PMID: 31379920 PMCID: PMC6650584 DOI: 10.3389/fgene.2019.00639] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2019] [Accepted: 06/18/2019] [Indexed: 11/22/2022] Open
Abstract
Autosomal recessive non-syndromic hearing loss (ARNSHL) is a highly heterogeneous disease involving more than 70 pathogenic genes. However, most ARNSHL families have small-sized pedigrees with limited genetic information, rendering challenges for the molecular diagnosis of these patients. Therefore, we attempted to establish a strategy for identifying deleterious variants associated with ARNSHL by applying proband whole-exome sequencing (proband-WES). Aside from desiring to improve molecular diagnostic rates, we also aimed to search for novel deafness genes shared by patients with similar phenotype, making up for the deficiency of small ARNSHL families. In this study, 48.5% (16/33) families were detected the pathogenic variants in eight known deafness genes, including 10 novel variants identified in TMPRSS3 (MIM 605551), MYO15A (MIM 602666), TMC1 (MIM 606706), ADGRV1 (MIM 602851), and PTPRQ (MIM 603317). Apart from six novel variants with a truncating effect (nonsense, deletion, insertion, and splice-site), four novel missense variants were not found in 200 unrelated control population by using Sanger sequencing. It is important to note that none of novel genes were shared across different pedigrees, indicating that a larger sample size might be needed. Proband-WES is a cost-effective and precise way of identifying causative variants in nuclear families with ARNSHL. This economical strategy may be appropriated as a clinical application to provide molecular diagnostics, genetic counseling, and individualized health maintenance measures for patients with ARNSHL at hearing clinics.
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Affiliation(s)
- Shushan Sang
- Department of Otolaryngology, Xiangya Hospital, Central South University, Changsha, China.,Key Laboratory of Otolaryngology Major Diseases Research of Hunan Province, Changsha, China
| | - Jie Ling
- Department of Otolaryngology, Xiangya Hospital, Central South University, Changsha, China.,Institute of Molecular Precision Medicine, Xiangya Hospital, Central South University, Changsha, China.,Hunan Key Laboratory of Molecular Precision Medicine, Changsha, China
| | - Xuezhong Liu
- Department of Otolaryngology, Xiangya Hospital, Central South University, Changsha, China.,Department of Otolaryngology, University of Miami Miller School of Medicine, Miami, FL, United States.,Dr. John T. Macdonald Foundation Department of Human Genetics, University of Miami Miller School of Medicine, Miami, FL, United States
| | - Lingyun Mei
- Department of Otolaryngology, Xiangya Hospital, Central South University, Changsha, China.,Key Laboratory of Otolaryngology Major Diseases Research of Hunan Province, Changsha, China
| | - Xinzhang Cai
- Department of Otolaryngology, Xiangya Hospital, Central South University, Changsha, China.,Key Laboratory of Otolaryngology Major Diseases Research of Hunan Province, Changsha, China
| | - Taoxi Li
- Department of Otolaryngology, Xiangya Hospital, Central South University, Changsha, China.,Key Laboratory of Otolaryngology Major Diseases Research of Hunan Province, Changsha, China.,Hunan Jiahui Genetics Hospital, Changsha, China
| | - Wu Li
- Department of Otolaryngology, Xiangya Hospital, Central South University, Changsha, China.,Key Laboratory of Otolaryngology Major Diseases Research of Hunan Province, Changsha, China
| | - Meng Li
- Department of Otolaryngology, Xiangya Hospital, Central South University, Changsha, China.,Key Laboratory of Otolaryngology Major Diseases Research of Hunan Province, Changsha, China
| | - Jie Wen
- Department of Otolaryngology, Xiangya Hospital, Central South University, Changsha, China.,Key Laboratory of Otolaryngology Major Diseases Research of Hunan Province, Changsha, China
| | - Xianlin Liu
- Department of Otolaryngology, Xiangya Hospital, Central South University, Changsha, China.,Key Laboratory of Otolaryngology Major Diseases Research of Hunan Province, Changsha, China
| | - Jing Liu
- Department of Otolaryngology, Xiangya Hospital, Central South University, Changsha, China.,Key Laboratory of Otolaryngology Major Diseases Research of Hunan Province, Changsha, China
| | - Yalan Liu
- Department of Otolaryngology, Xiangya Hospital, Central South University, Changsha, China.,Key Laboratory of Otolaryngology Major Diseases Research of Hunan Province, Changsha, China
| | - Hongsheng Chen
- Department of Otolaryngology, Xiangya Hospital, Central South University, Changsha, China.,Key Laboratory of Otolaryngology Major Diseases Research of Hunan Province, Changsha, China
| | - Chufeng He
- Department of Otolaryngology, Xiangya Hospital, Central South University, Changsha, China.,Key Laboratory of Otolaryngology Major Diseases Research of Hunan Province, Changsha, China
| | - Yong Feng
- Department of Otolaryngology, Xiangya Hospital, Central South University, Changsha, China.,Key Laboratory of Otolaryngology Major Diseases Research of Hunan Province, Changsha, China.,Hunan Jiahui Genetics Hospital, Changsha, China.,National Clinical Research Center for Geriatric Disorders, Xiangya Hospital, Central South University, Changsha, China
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