Whole Exome Sequencing Reveals Homozygous Mutations in RAI1, OTOF, and SLC26A4 Genes Associated with Nonsyndromic Hearing Loss in Altaian Families (South Siberia)

Persistent Link:
http://hdl.handle.net/10150/614680
Title:
Whole Exome Sequencing Reveals Homozygous Mutations in RAI1, OTOF, and SLC26A4 Genes Associated with Nonsyndromic Hearing Loss in Altaian Families (South Siberia)
Author:
Сhurbanov, Alexander Y.; Karafet, Tatiana M.; Morozov, Igor V.; Mikhalskaia, Valeriia Yu.; Zytsar, Marina V.; Bondar, Alexander A.; Posukh, Olga L. ( 0000-0003-1352-3591 )
Affiliation:
Univ Arizona, Arizona Res Labs
Issue Date:
2016-04-15
Publisher:
Public Library of Science
Citation:
Whole Exome Sequencing Reveals Homozygous Mutations in RAI1, OTOF, and SLC26A4 Genes Associated with Nonsyndromic Hearing Loss in Altaian Families (South Siberia) 2016, 11 (4):e0153841 PLOS ONE
Journal:
PLOS ONE
Rights:
© 2016 Churbanov 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
Collection Information:
This item from the UA Faculty Publications collection is made available by the University of Arizona with support from the University of Arizona Libraries. If you have questions, please contact us at repository@u.library.arizona.edu.
Abstract:
Hearing loss (HL) is one of the most common sensorineural disorders and several dozen genes contribute to its pathogenesis. Establishing a genetic diagnosis of HL is of great importance for clinical evaluation of deaf patients and for estimating recurrence risks for their families. Efforts to identify genes responsible for HL have been challenged by high genetic heterogeneity and different ethnic-specific prevalence of inherited deafness. Here we present the utility of whole exome sequencing (WES) for identifying candidate causal variants for previously unexplained nonsyndromic HL of seven patients from four unrelated Altaian families (the Altai Republic, South Siberia). The WES analysis revealed homozygous missense mutations in three genes associated with HL. Mutation c.2168A>G (SLC26A4) was found in one family, a novel mutation c.1111G>C (OTOF) was revealed in another family, and mutation c.5254G>A (RAI1) was found in two families. Sanger sequencing was applied for screening of identified variants in an ethnically diverse cohort of other patients with HL (n = 116) and in Altaian controls (n = 120). Identified variants were found only in patients of Altaian ethnicity (n = 93). Several lines of evidences support the association of homozygosity for discovered variants c.5254G>A (RAI1), c.1111C>G (OTOF), and c.2168A>G (SLC26A4) with HL in Altaian patients. Local prevalence of identified variants implies possible founder effect in significant number of HL cases in indigenous population of the Altai region. Notably, this is the first reported instance of patients with RAI1 missense mutation whose HL is not accompanied by specific traits typical for Smith-Magenis syndrome. Presumed association of RAI1 gene variant c.5254G>A with isolated HL needs to be proved by further experimental studies.
ISSN:
1932-6203
DOI:
10.1371/journal.pone.0153841
Keywords:
SMITH-MAGENIS-SYNDROME; ENLARGED VESTIBULAR AQUEDUCT; ACID-INDUCED 1; RETINOIC ACID; 17P11.2 DELETIONS; PENDRED-SYNDROME; PDS MUTATIONS; MOUSE MODELS; INNER-EAR; PROTEIN
Version:
Final published version
Sponsors:
This work was supported by grant #2011Y1SA09 from the Chinese Academy of Sciences Fellowship for Young International Scientists and NSFC grant #31150110466 (to AYC), by the State Project #0324-2015-0004, and by grant #0324-2015-0031 from the Siberian Branch of the Russian Academy of Sciences (to OLP). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
Additional Links:
http://dx.plos.org/10.1371/journal.pone.0153841

Full metadata record

DC FieldValue Language
dc.contributor.authorСhurbanov, Alexander Y.en
dc.contributor.authorKarafet, Tatiana M.en
dc.contributor.authorMorozov, Igor V.en
dc.contributor.authorMikhalskaia, Valeriia Yu.en
dc.contributor.authorZytsar, Marina V.en
dc.contributor.authorBondar, Alexander A.en
dc.contributor.authorPosukh, Olga L.en
dc.date.accessioned2016-06-24T21:18:27Z-
dc.date.available2016-06-24T21:18:27Z-
dc.date.issued2016-04-15-
dc.identifier.citationWhole Exome Sequencing Reveals Homozygous Mutations in RAI1, OTOF, and SLC26A4 Genes Associated with Nonsyndromic Hearing Loss in Altaian Families (South Siberia) 2016, 11 (4):e0153841 PLOS ONEen
dc.identifier.issn1932-6203-
dc.identifier.doi10.1371/journal.pone.0153841-
dc.identifier.urihttp://hdl.handle.net/10150/614680-
dc.description.abstractHearing loss (HL) is one of the most common sensorineural disorders and several dozen genes contribute to its pathogenesis. Establishing a genetic diagnosis of HL is of great importance for clinical evaluation of deaf patients and for estimating recurrence risks for their families. Efforts to identify genes responsible for HL have been challenged by high genetic heterogeneity and different ethnic-specific prevalence of inherited deafness. Here we present the utility of whole exome sequencing (WES) for identifying candidate causal variants for previously unexplained nonsyndromic HL of seven patients from four unrelated Altaian families (the Altai Republic, South Siberia). The WES analysis revealed homozygous missense mutations in three genes associated with HL. Mutation c.2168A>G (SLC26A4) was found in one family, a novel mutation c.1111G>C (OTOF) was revealed in another family, and mutation c.5254G>A (RAI1) was found in two families. Sanger sequencing was applied for screening of identified variants in an ethnically diverse cohort of other patients with HL (n = 116) and in Altaian controls (n = 120). Identified variants were found only in patients of Altaian ethnicity (n = 93). Several lines of evidences support the association of homozygosity for discovered variants c.5254G>A (RAI1), c.1111C>G (OTOF), and c.2168A>G (SLC26A4) with HL in Altaian patients. Local prevalence of identified variants implies possible founder effect in significant number of HL cases in indigenous population of the Altai region. Notably, this is the first reported instance of patients with RAI1 missense mutation whose HL is not accompanied by specific traits typical for Smith-Magenis syndrome. Presumed association of RAI1 gene variant c.5254G>A with isolated HL needs to be proved by further experimental studies.en
dc.description.sponsorshipThis work was supported by grant #2011Y1SA09 from the Chinese Academy of Sciences Fellowship for Young International Scientists and NSFC grant #31150110466 (to AYC), by the State Project #0324-2015-0004, and by grant #0324-2015-0031 from the Siberian Branch of the Russian Academy of Sciences (to OLP). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.en
dc.language.isoenen
dc.publisherPublic Library of Scienceen
dc.relation.urlhttp://dx.plos.org/10.1371/journal.pone.0153841en
dc.rights© 2016 Churbanov 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 crediteden
dc.subjectSMITH-MAGENIS-SYNDROMEen
dc.subjectENLARGED VESTIBULAR AQUEDUCTen
dc.subjectACID-INDUCED 1en
dc.subjectRETINOIC ACIDen
dc.subject17P11.2 DELETIONSen
dc.subjectPENDRED-SYNDROMEen
dc.subjectPDS MUTATIONSen
dc.subjectMOUSE MODELSen
dc.subjectINNER-EARen
dc.subjectPROTEINen
dc.titleWhole Exome Sequencing Reveals Homozygous Mutations in RAI1, OTOF, and SLC26A4 Genes Associated with Nonsyndromic Hearing Loss in Altaian Families (South Siberia)en
dc.typeArticleen
dc.contributor.departmentUniv Arizona, Arizona Res Labsen
dc.identifier.journalPLOS ONEen
dc.description.collectioninformationThis item from the UA Faculty Publications collection is made available by the University of Arizona with support from the University of Arizona Libraries. If you have questions, please contact us at repository@u.library.arizona.edu.en
dc.eprint.versionFinal published versionen
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