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      Mouse screen reveals multiple new genes underlying mouse and human hearing loss

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          Abstract

          Adult-onset hearing loss is very common, but we know little about the underlying molecular pathogenesis impeding the development of therapies. We took a genetic approach to identify new molecules involved in hearing loss by screening a large cohort of newly generated mouse mutants using a sensitive electrophysiological test, the auditory brainstem response (ABR). We review here the findings from this screen. Thirty-eight unexpected genes associated with raised thresholds were detected from our unbiased sample of 1,211 genes tested, suggesting extreme genetic heterogeneity. A wide range of auditory pathophysiologies was found, and some mutant lines showed normal development followed by deterioration of responses, revealing new molecular pathways involved in progressive hearing loss. Several of the genes were associated with the range of hearing thresholds in the human population and one, SPNS2, was involved in childhood deafness. The new pathways required for maintenance of hearing discovered by this screen present new therapeutic opportunities.

          Abstract

          This study uses an electrophysiological screen of over a thousand new mutant mouse lines to identify 38 new genes underlying deafness, some associated with human hearing function, revealing a wide range of molecular and pathological mechanisms.

          Author summary

          Progressive hearing loss with age is extremely common in the population, leading to difficulties in understanding speech, increased social isolation, and associated depression. We know it has a significant heritability, but so far we know very little about the molecular pathways leading to hearing loss, hampering the development of treatments. Here, we describe a large-scale screen of 1,211 new targeted mouse mutant lines, resulting in the identification of 38 genes underlying hearing loss that were not previously suspected of involvement in hearing. Some of these genes reveal molecular pathways that may be useful targets for drug development. Our further analysis of the genes identified and the varied pathological mechanisms within the ear resulting from the mutations suggests that hearing loss is an extremely heterogeneous disorder and may have as many as 1,000 genes involved.

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          Most cited references43

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          Dementia prevention, intervention, and care

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            14-3-3 proteins: structure, function, and regulation.

            The 14-3-3 proteins are a family of conserved regulatory molecules expressed in all eukaryotic cells. A striking feature of the 14-3-3 proteins is their ability to bind a multitude of functionally diverse signaling proteins, including kinases, phosphatases, and transmembrane receptors. This plethora of interacting proteins allows 14-3-3 to play important roles in a wide range of vital regulatory processes, such as mitogenic signal transduction, apoptotic cell death, and cell cycle control. In this review, we examine the structural basis for 14-3-3-ligand interactions, proposed functions of 14-3-3 in various signaling pathways, and emerging views of mechanisms that regulate 14-3-3 actions.
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              A physiological place-frequency map of the cochlea in the CBA/J mouse.

              Genetically manipulated mice have gained a prominent role in in vivo research on development and function of the auditory system. A prerequisite for the interpretation of normal and abnormal structural and functional features of the inner ear is the exact knowledge of the cochlear place-frequency map. Using a stereotaxic approach to the projection site of the auditory nerve fibers in the cochlear nucleus, we succeeded in labelling physiologically characterized auditory nerve afferents and determined their peripheral innervation site in the cochlea. From the neuronal characteristic frequency (CF) and the innervation site in the organ of Corti a place-frequency map was established for characteristic frequencies between 7.2 and 61.8 kHz, corresponding to locations between 90% and 10% basilar membrane length (base = 0%, apex = 100%, mean length measured under the inner hair cells 5.13 mm). The relation between normalized distance from the base (d) and frequency (kHz) can be described by a simple logarithmic function: d(%) = 156.5-82.5 x log(f), with a slope of 1.25 mm/octave of frequency. The present map, recorded under physiological conditions, differs from earlier maps determined with different methods. The simple logarithmic place-frequency relation found in the mouse indicates that mice are acoustic generalists rather than specialists.
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                Author and article information

                Contributors
                Role: Data curationRole: Formal analysisRole: InvestigationRole: MethodologyRole: Project administrationRole: ResourcesRole: SoftwareRole: SupervisionRole: ValidationRole: VisualizationRole: Writing – original draftRole: Writing – review & editing
                Role: Data curationRole: Formal analysisRole: InvestigationRole: SupervisionRole: ValidationRole: VisualizationRole: Writing – review & editing
                Role: Data curationRole: InvestigationRole: Writing – review & editing
                Role: Formal analysisRole: InvestigationRole: VisualizationRole: Writing – review & editing
                Role: Formal analysisRole: InvestigationRole: SupervisionRole: ValidationRole: Writing – review & editing
                Role: Data curationRole: Formal analysisRole: InvestigationRole: SupervisionRole: VisualizationRole: Writing – review & editing
                Role: Formal analysisRole: InvestigationRole: SupervisionRole: VisualizationRole: Writing – review & editing
                Role: Formal analysisRole: InvestigationRole: SupervisionRole: VisualizationRole: Writing – review & editing
                Role: Formal analysisRole: InvestigationRole: VisualizationRole: Writing – review & editing
                Role: InvestigationRole: VisualizationRole: Writing – review & editing
                Role: InvestigationRole: Writing – review & editing
                Role: InvestigationRole: ResourcesRole: Writing – review & editing
                Role: InvestigationRole: ResourcesRole: Writing – review & editing
                Role: Data curationRole: Formal analysisRole: InvestigationRole: Project administrationRole: SupervisionRole: VisualizationRole: Writing – review & editing
                Role: Data curationRole: Formal analysisRole: InvestigationRole: VisualizationRole: Writing – review & editing
                Role: Data curationRole: Formal analysisRole: InvestigationRole: MethodologyRole: Project administrationRole: ResourcesRole: SupervisionRole: ValidationRole: Writing – review & editing
                Role: ConceptualizationRole: Data curationRole: Formal analysisRole: Funding acquisitionRole: InvestigationRole: MethodologyRole: Project administrationRole: ResourcesRole: SupervisionRole: ValidationRole: VisualizationRole: Writing – original draftRole: Writing – review & editing
                Role: Academic Editor
                Journal
                PLoS Biol
                PLoS Biol
                plos
                plosbiol
                PLoS Biology
                Public Library of Science (San Francisco, CA USA )
                1544-9173
                1545-7885
                11 April 2019
                April 2019
                11 April 2019
                : 17
                : 4
                : e3000194
                Affiliations
                [1 ] Wellcome Trust Sanger Institute, Hinxton, United Kingdom
                [2 ] Wolfson Centre for Age-Related Diseases, Institute of Psychiatry, Psychology and Neuroscience, King’s College London, London, United Kingdom
                [3 ] Department of Emerging Genetics Medicine, Ambry Genetics, Aliso Viejo, California, United States of America
                [4 ] Mid-Atlantic Permanente Medical Group, Rockville, Maryland, United States of America
                [5 ] UCL Ear Institute, University College London, London, United Kingdom
                University of Edinburgh, UNITED KINGDOM
                Author notes

                I have read the journal's policy and the authors of this manuscript have the following competing interests: ZP is employed by Ambry Genetics, and exome sequencing is among the commercially available tests. The other authors have declared that no competing interests exist.

                Author information
                http://orcid.org/0000-0002-0916-7347
                http://orcid.org/0000-0003-1547-1975
                http://orcid.org/0000-0002-1225-0870
                http://orcid.org/0000-0002-1846-8600
                http://orcid.org/0000-0002-4623-8642
                http://orcid.org/0000-0001-8038-8866
                http://orcid.org/0000-0003-1370-2872
                http://orcid.org/0000-0003-0228-5081
                http://orcid.org/0000-0001-8087-4530
                http://orcid.org/0000-0002-8019-5359
                Article
                PBIOLOGY-D-18-01144
                10.1371/journal.pbio.3000194
                6459510
                30973865
                60350a2a-f26f-49b2-a3ed-a740631cb43c
                © 2019 Ingham et al

                This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

                History
                : 6 November 2018
                : 7 March 2019
                Page count
                Figures: 6, Tables: 1, Pages: 30
                Funding
                Funded by: funder-id http://dx.doi.org/10.13039/100004440, Wellcome Trust;
                Award ID: 098051
                Award Recipient :
                Funded by: funder-id http://dx.doi.org/10.13039/100004440, Wellcome Trust;
                Award ID: 100699
                Award Recipient :
                Funded by: funder-id http://dx.doi.org/10.13039/501100000265, Medical Research Council;
                Award ID: MC_qA137918
                Award Recipient :
                Funded by: funder-id http://dx.doi.org/10.13039/501100000265, Medical Research Council;
                Award ID: G0300212
                Award Recipient :
                Funded by: EC
                Award ID: LSHG-CT-2006-037188
                Award Recipient :
                Funded by: funder-id http://dx.doi.org/10.13039/501100000703, Action on Hearing Loss;
                Award Recipient :
                Funded by: funder-id http://dx.doi.org/10.13039/501100000265, Medical Research Council;
                Award ID: G0000934
                Funded by: funder-id http://dx.doi.org/10.13039/100004440, Wellcome Trust;
                Award ID: 068545/Z/02
                Funded by: funder-id http://dx.doi.org/10.13039/100004440, Wellcome Trust;
                Award ID: 076113
                Funded by: funder-id http://dx.doi.org/10.13039/501100000293, Deafness Research UK;
                Award Recipient :
                Funded by: Haigh Fellowship
                Award Recipient :
                This work was supported by The Wellcome Trust (KPS, 098051; 100699; 089622), the Medical Research Council (KPS, MC_qA137918; G0300212), European Commission (KPS, EUMODIC contract LSHG-CT-2006-037188), Action on Hearing Loss (KPS), the Haigh Fellowship in age related deafness (SJD), and Deafness Research UK (SJD). This work made use of data and samples generated by the 1958 Birth Cohort ( http://www2.le.ac.uk/projects/birthcohort, http://www.bristol.ac.uk/alspac/, http://www.cls.ioe.ac.uk/ncds, http://www.esds.ac.uk/findingData/ncds.asp) under grant G0000934 from the Medical Research Council and grant 068545/Z/02 from the Wellcome Trust. Genotyping was undertaken as part of the Wellcome Trust Case-Control Consortium (WTCCC) under Wellcome Trust award 076113, and a full list of the investigators who contributed to the generation of the data is available at www.wtccc.org.uk. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
                Categories
                Research Article
                Medicine and Health Sciences
                Otorhinolaryngology
                Otology
                Hearing Disorders
                Deafness
                Biology and Life Sciences
                Genetics
                Gene Identification and Analysis
                Genetic Screens
                Biology and Life Sciences
                Anatomy
                Brain
                Brainstem
                Medicine and Health Sciences
                Anatomy
                Brain
                Brainstem
                Biology and Life Sciences
                Genetics
                Genetic Loci
                Alleles
                Biology and Life Sciences
                Anatomy
                Head
                Ears
                Middle Ear
                Medicine and Health Sciences
                Anatomy
                Head
                Ears
                Middle Ear
                Biology and Life Sciences
                Genetics
                Phenotypes
                Biology and Life Sciences
                Computational Biology
                Genome Analysis
                Gene Ontologies
                Biology and Life Sciences
                Genetics
                Genomics
                Genome Analysis
                Gene Ontologies
                Biology and Life Sciences
                Anatomy
                Head
                Ears
                Inner Ear
                Medicine and Health Sciences
                Anatomy
                Head
                Ears
                Inner Ear
                Custom metadata
                All mutant mice reported here are available via public mouse repositories for further investigation. All plotted data points are presented in the data files in the Supporting Information. The unprocessed ABR data are available at Dryad ( http://dx.doi.org/10.5061/dryad.cv803rv).

                Life sciences
                Life sciences

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