The goal of this project is to discover and characterize new genes for inherited hearing loss by studying highly informative families from the Middle East. Families from regions with traditions of consanguinity or endogamy have been particularly informative for gene discovery for hearing loss, with other mutations responsible for both recessive and dominant hearing losses subsequently identified in other families. Over the past 19 years, our partnership has discovered seven new genes for hearing loss, contributed to the genotype-phenotype profiles of many others, evaluated the roles of microRNAs in hearing development, and characterized the functions of our mutant genes in patient cells and mouse models. During the current grant period, we published SYNE4 as a new gene for hearing loss and are in the midst of functional studies of five other candidate genes: ATOH1, CDKL3, CTBS, GOSR2, and OTOP2. We have also been at the forefront of application of genomic technologies to hearing research. We were among the first groups to apply exome sequencing to gene discovery for any phenotype and to develop targeted hybridization pools for thorough and efficient screening of candidate deafness genes. Our partnership has complementary strengths at Tel Aviv University, Bethlehem University, and the University of Washington in Seattle. Our greatest asset is our relationship with hundreds of highly informative Palestinian and Israeli families, each with multiple relatives with hearing loss who have been evaluated by audiology and for syndromic features. Complete families participate, are willing to be re-contacted, and remain in touch with us indefinitely.
In Aim 1, we will enroll each year all informative members of 80-100 multiplex Palestinian and Israeli families (400-500 individuals) with hearing loss, and use our targeted gene panel to sequence for mutations in known genes for hearing loss.
In Aim 2, families not resolved by Aim 1 will be evaluated by whole genome sequencing. Variants prioritized for functional studies will be rare coding sequence variants of predicted damaging effect in new candidate genes that co-segregate with hearing loss; and rare non-coding variants that lie in potential regulatory regions, as defined by several parameters, and that co-segregate with hearing loss.
In Aim 3, we will undertake functional studies of these new candidate genes and mutations. Our approaches will include functional analysis of wild type and mutant proteins in transfected cells and cochlear explants, and generation of mouse models of mutations from human families by CRISPR/Cas9 genome editing, followed by characterization of their hearing and inner ear phenotypes. In summary, we propose to use modern tools of genetics and genomics to reveal and characterize genes essential for development and maintenance of hearing. Our discoveries will aid in the development of biological strategies for treatment or cures for deafness.

Public Health Relevance

The goal of this project is to discover new genes responsible for inherited hearing loss and to understand the functions of these genes. We will study extremely informative families from the Middle East using genomics approaches. Genes critical to hearing in these families are also critical to hearing in all families worldwide. Our research will contribute to improved clinical diagnosis and to better understanding of the biological bases of hearing, and hence to the potential for development of therapeutics.

Agency
National Institute of Health (NIH)
Institute
National Institute on Deafness and Other Communication Disorders (NIDCD)
Type
Research Project (R01)
Project #
5R01DC011835-07
Application #
9698916
Study Section
Auditory System Study Section (AUD)
Program Officer
Watson, Bracie
Project Start
2011-07-01
Project End
2023-05-31
Budget Start
2019-06-01
Budget End
2020-05-31
Support Year
7
Fiscal Year
2019
Total Cost
Indirect Cost
Name
Tel Aviv University
Department
Type
DUNS #
600048417
City
Tel Aviv
State
Country
Israel
Zip Code
69978
Danial-Farran, Nada; Brownstein, Zippora; Gulsuner, Suleyman et al. (2018) Genetics of hearing loss in the Arab population of Northern Israel. Eur J Hum Genet 26:1840-1847
Perl, Kobi; Shamir, Ron; Avraham, Karen B (2018) Computational analysis of mRNA expression profiling in the inner ear reveals candidate transcription factors associated with proliferation, differentiation, and deafness. Hum Genomics 12:30
Yizhar-Barnea, Ofer; Valensisi, Cristina; Jayavelu, Naresh Doni et al. (2018) DNA methylation dynamics during embryonic development and postnatal maturation of the mouse auditory sensory epithelium. Sci Rep 8:17348
Ushakov, Kathy; Koffler-Brill, Tal; Rom, Aviv et al. (2017) Genome-wide identification and expression profiling of long non-coding RNAs in auditory and vestibular systems. Sci Rep 7:8637
Yizhar-Barnea, Ofer; Avraham, Karen B (2017) Single cell analysis of the inner ear sensory organs. Int J Dev Biol 61:205-213
Marcotti, Walter; Corns, Laura F; Goodyear, Richard J et al. (2016) The acquisition of mechano-electrical transducer current adaptation in auditory hair cells requires myosin VI. J Physiol 594:3667-81
Bhonker, Yoni; Abu-Rayyan, Amal; Ushakov, Kathy et al. (2016) The GPSM2/LGN GoLoco motifs are essential for hearing. Mamm Genome 27:29-46
Koffler, Tal; Ushakov, Kathy; Avraham, Karen B (2015) Genetics of Hearing Loss: Syndromic. Otolaryngol Clin North Am 48:1041-61
Sokolov, Meirav; Brownstein, Zippora; Frydman, Moshe et al. (2014) Apparent phenotypic anticipation in autosomal dominant connexin 26 deafness. J Basic Clin Physiol Pharmacol 25:289-92
Dror, Amiel A; Lenz, Danielle R; Shivatzki, Shaked et al. (2014) Atrophic thyroid follicles and inner ear defects reminiscent of cochlear hypothyroidism in Slc26a4-related deafness. Mamm Genome 25:304-16

Showing the most recent 10 out of 28 publications