USH1C

USH1C
Available structures PDB Ortholog search: PDBe RCSB List of PDB id codes 3K1R, 2KBS, 2LSR, 2KBQ, 2KBR, 1X5N, 5F3X
Identifiers
Aliases	USH1C, AIE-75, DFNB18, DFNB18A, NY-CO-37, NY-CO-38, PDZ-45, PDZ-73, PDZ-73/NY-CO-38, PDZ73, PDZD7C, ush1cpst, USH1 protein network component harmonin
External IDs	OMIM: 605242; MGI: 1919338; HomoloGene: 77476; GeneCards: USH1C; OMA:USH1C - orthologs
Gene location (Human) Chr. Chromosome 11 (human)[1] Band 11p15.1 Start 17,493,895 bp[1] End 17,544,416 bp[1]
Gene location (Mouse) Chr. Chromosome 7 (mouse)[2] Band 7 B3|7 29.66 cM Start 45,844,774 bp[2] End 45,887,927 bp[2]
RNA expression pattern Bgee Human Mouse (ortholog) Top expressed in mucosa of transverse colon C1 segment rectum mucosa of ileum duodenum optic nerve gallbladder human kidney jejunal mucosa pancreatic ductal cell Top expressed in utricle intestinal villus vestibular sensory epithelium saccule crypt of lieberkuhn of small intestine duodenum ileum right kidney jejunum colon More reference expression data BioGPS More reference expression data
Gene ontology Molecular function spectrin binding actin filament binding protein binding Cellular component cytoplasm apical part of cell brush border cytoskeleton cell projection microvillus cytosol photoreceptor outer segment photoreceptor inner segment plasma membrane stereocilium synapse stereocilia ankle link stereocilia ankle link complex photoreceptor connecting cilium stereocilium tip Biological process sensory perception of light stimulus hearing G2/M transition of mitotic cell cycle equilibrioception photoreceptor cell maintenance regulation of microvillus length cell differentiation parallel actin filament bundle assembly inner ear morphogenesis inner ear auditory receptor cell differentiation actin filament bundle assembly inner ear receptor cell stereocilium organization protein localization to microvillus brush border assembly retinal cone cell development Sources:Amigo / QuickGO
Orthologs Species Human Mouse Entrez 10083 72088 Ensembl ENSG00000006611 ENSMUSG00000030838 UniProt Q9Y6N9 Q9ES64 RefSeq (mRNA) NM_001297764 NM_005709 NM_153676 NM_001163733 NM_001291182 NM_023649 NM_153677 RefSeq (protein) NP_001284693 NP_005700 NP_710142 NP_001157205 NP_001278111 NP_076138 NP_710143 Location (UCSC) Chr 11: 17.49 – 17.54 Mb Chr 7: 45.84 – 45.89 Mb PubMed search [3] [4]
Wikidata
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Harmonin is a protein that in humans is encoded by the USH1C gene.^[5][6][7] It is expressed in sensory cells of the inner ear and retina, where it plays a role in hearing, balance, and vision.^{[5][6][8][9][10]} Mutations at the USH1C locus cause Usher syndrome type 1c and nonsyndromic sensorineural deafness.^{[5][6][8][11]}

The USH1C gene is located on chromosome 11 and contains 28 exons.^[5] Alternative splicing generates multiple mRNA transcript variants, some of which are associated with the rare disorder phenotypes of Usher syndrome and nonsyndromic sensorineural deafness.^[5][6] The encoded protein harmonin has multiple protein isoforms due to the alternative splicing, including a standard isoform with 552 amino acids.^[5] Harmonin contains a PDZ domain, which assists in attaching the protein to the cell membrane and to cytoskeletal components.^[5]

Harmonin is found at the apex of inner hair cells (IHCs), which convert mechanical signals from sound waves into electrical signals interpreted by the brain as sound.^{[5][9][10][12]} IHCs have an apical bundle of actin-rich stereocilia that vary in height and are connected to each other by flexible tip links.^{[5][9][10][12]} Tip links are protein complexes of cadherin 23 (CDH23) and protocadherin 15 (PCDH15).^{[5][9][10][12]} Harmonin binds to proteins that are involved in connecting the tip link to the cytoskeleton.^[13][14][15] Sound waves physically displace the  bundle towards the tallest stereocilium, stretching the tip links and causing mechanically gated ion channels to open.^[15] Influx of calcium (Ca²⁺) and potassium (K⁺) depolarizes the hair cell, triggering the release of excitatory neurotransmitters onto the innervating nerve terminals.^[15] The process is called mechanoelectrical transduction and ultimately results in the perception of sound.^[15] Intact tip links and their associated proteins, including harmonin, are required for channel activation and normal hearing.^[5][12]

USH1C mutations inherited in an autosomal recessive pattern have been identified as the genetic basis of both Usher syndrome type 1c and nonsyndromic sensorineural deafness type 18 (DFNB18).^{[5][6][8][11]} A diploid individual has two alleles, or copies, of the USH1C gene, one inherited from the maternal parent and one inherited from the paternal parent.^[11] A wild type USH1C allele encodes the functional harmonin protein, whereas a mutant USH1C allele cannot.^[11] Expression of the wild type USH1C allele is dominant over the mutant USH1C allele.^[11] An individual with two wild type alleles will be unaffected, an individual with one wild type allele and one mutant allele will be an asymptomatic carrier, and an individual with two mutant alleles will experience the disorder phenotype.^[11] The molecular personality of each USH1c mutation determines whether the resulting phenotype is nonsyndromic deafness or Usher syndrome.^[6][11]

A common mutation that causes Usher syndrome is a single nucleotide polymorphism (SNP) at nucleotide 216 that replaces the base guanine with the base adenine, creating a frameshift with a deletion of 35 base pairs.^[16][17] The 216 G to A mutation introduces a cryptic splice site that is used instead of the wild-type splice site during post-transcriptional RNA processing.^[16][17] The consequent mis-splicing causes the 35-nucleotide deletion in the mature mRNA transcript.^[16][17] Since the change in the RNA sequence is not a multiple of three, the mRNA contains a frameshift and a premature stop codon after 189 nucleotides.^[16][17] If the mRNA were translated, a 135-amino-acid protein would be formed instead of wild type harmonin, but there is no evidence that protein is made from the misspliced mRNA.^[16][17] An individual will experience Usher syndrome type 1c if they are homozygous for the 216 G to A mutant allele, which is found at high frequencies in Acadian populations.^[16]

Usher syndrome is a rare autosomal recessive disorder caused by a mutation in one of several genes involved in hearing, balance, and vision.^[11] There are multiple types of Usher syndrome that vary in severity and symptomatology depending on the affected gene.^[11] Usher syndrome type 1c is caused by a mutation at the USH1C locus and is characterized by childhood onset of bilateral sensorineural hearing loss, vestibular dysfunction, and vision loss from retinitis pigmentosa.^{[5][6][8][11]} Usher syndrome type 1 is the most severe form of Usher syndrome.^[18] The prevalence of Usher syndrome is approximately 3-6 in 100,000 live births, rendering the disorder the most common cause of comorbid hearing and vision loss.^[11][18] Usher syndrome type 1c is prevalent in Acadian populations but is found worldwide.^[6][16][19] Although there is no cure, studies to evaluate potential gene therapies are ongoing.^[17][19]

Human hearing develops by 19 weeks gestation.^[20] At birth, individuals with Usher syndrome type 1c already have sensorineural hearing loss from mutant harmonin, and mammalian hearing loss is presently irreversible.^[17] It is hypothesized that gene therapy to correct the USH1C mutation and restore the wild type harmonin protein is most effective during the critical developmental window that is hypothesized to close one week before hearing onset.^[17][21] Studies of mouse models of Usher syndrome type 1c note that hearing develops in mice at postnatal day 12.^[22] Gene therapy to deliver an antisense oligonucleotide to the mouse inner ear rescued wild type harmonin mRNA splicing as well as hearing and vestibular function when delivered at embryonic day 12.5 or postnatal days 1-5 but was significantly less effective thereafter.^[17] The antisense oligonucleotide sequence is complementary to a segment of the 216 G to A mutant mRNA and mechanically blocks the cryptic splice site so that the wild type splice site is used.^[17] Likewise, gene therapy to deliver an adeno-associated viral (AAV) vector encoding wild type harmonin to the mouse inner ear rescued hearing and vestibular function when delivered on postnatal days 0-1 but was ineffective at postnatal days 10-12.^[23]

Gene therapy is controversial due to ethical and social considerations.^[24][25][26] For example, some members of the deaf community embrace hearing loss as a positive aspect of their identity and culture that they do not wish to change, whereas other members seek therapeutic interventions.^[24][25] However, there is widespread interest in developing gene therapies to provide treatment options for patients, especially when the symptoms of a genetic disorder are debilitating and difficult to manage with conventional strategies.^[19][26]

• GeneReviews/NCBI/NIH/UW entry on Usher Syndrome Type I
• USH1C human gene location in the UCSC Genome Browser.
• USH1C human gene details in the UCSC Genome Browser.
• Overview of all the structural information available in the PDB for UniProt: Q9Y6N9 (Human Harmonin) at the PDBe-KB.
• Overview of all the structural information available in the PDB for UniProt: Q9ES64 (Mouse Harmonin) at the PDBe-KB.