Cargando…
Next-generation sequencing of small RNAs from inner ear sensory epithelium identifies microRNAs and defines regulatory pathways
BACKGROUND: The mammalian inner ear contains sensory organs, the organ of Corti in the cochlea and cristae and maculae in the vestibule, with each comprised of patterned sensory epithelia that are responsible for hearing and balance. The development, cell fate, patterning, and innervation of both th...
Autores principales: | , , , , , , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
BioMed Central
2014
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4073505/ https://www.ncbi.nlm.nih.gov/pubmed/24942165 http://dx.doi.org/10.1186/1471-2164-15-484 |
_version_ | 1782323122338267136 |
---|---|
author | Rudnicki, Anya Isakov, Ofer Ushakov, Kathy Shivatzki, Shaked Weiss, Inbal Friedman, Lilach M Shomron, Noam Avraham, Karen B |
author_facet | Rudnicki, Anya Isakov, Ofer Ushakov, Kathy Shivatzki, Shaked Weiss, Inbal Friedman, Lilach M Shomron, Noam Avraham, Karen B |
author_sort | Rudnicki, Anya |
collection | PubMed |
description | BACKGROUND: The mammalian inner ear contains sensory organs, the organ of Corti in the cochlea and cristae and maculae in the vestibule, with each comprised of patterned sensory epithelia that are responsible for hearing and balance. The development, cell fate, patterning, and innervation of both the sensory and nonsensory regions of the inner ear are governed by tight regulation involving, among others, transcription factors and microRNAs (miRNAs). In humans, mutations in specific miRNA genes are associated with hearing loss. In mice, experimental reduction or mutations of miRNAs in the inner ear leads to severe developmental and structural abnormalities. A comprehensive identification of miRNAs in the sensory epithelia and their gene targets will enable pathways of auditory and vestibular function to be defined. RESULTS: In this study, we used Next-Generation Sequencing (NGS) to identify the most prominent miRNAs in the inner ear and to define miRNA-target pairs that form pathways crucial for the function of the sensory epithelial cells. NGS of RNA from inner ear sensory epithelial cells led to the identification of 455 miRNAs in both cochlear and vestibular sensory epithelium, with 30 and 44 miRNAs found in only cochlea or vestibule, respectively. miR-6715-3p and miR-6715-5p were defined for the first time in the inner ear. Gene targets were identified for each of these miRNAs, including Arhgap12, a GTPase activating protein, for miR-6715-3p, implicating this miRNA in sensory hair cell bundle development, actin reorganization, cell adhesion and inner ear morphogenesis. CONCLUSIONS: This study provides a comprehensive atlas of miRNAs in the inner ear sensory epithelia. The results provide further support of the essential regulatory role of miRNAs in inner ear sensory epithelia and in regulating pathways that define development and growth of these cells. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/1471-2164-15-484) contains supplementary material, which is available to authorized users. |
format | Online Article Text |
id | pubmed-4073505 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2014 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-40735052014-07-01 Next-generation sequencing of small RNAs from inner ear sensory epithelium identifies microRNAs and defines regulatory pathways Rudnicki, Anya Isakov, Ofer Ushakov, Kathy Shivatzki, Shaked Weiss, Inbal Friedman, Lilach M Shomron, Noam Avraham, Karen B BMC Genomics Research Article BACKGROUND: The mammalian inner ear contains sensory organs, the organ of Corti in the cochlea and cristae and maculae in the vestibule, with each comprised of patterned sensory epithelia that are responsible for hearing and balance. The development, cell fate, patterning, and innervation of both the sensory and nonsensory regions of the inner ear are governed by tight regulation involving, among others, transcription factors and microRNAs (miRNAs). In humans, mutations in specific miRNA genes are associated with hearing loss. In mice, experimental reduction or mutations of miRNAs in the inner ear leads to severe developmental and structural abnormalities. A comprehensive identification of miRNAs in the sensory epithelia and their gene targets will enable pathways of auditory and vestibular function to be defined. RESULTS: In this study, we used Next-Generation Sequencing (NGS) to identify the most prominent miRNAs in the inner ear and to define miRNA-target pairs that form pathways crucial for the function of the sensory epithelial cells. NGS of RNA from inner ear sensory epithelial cells led to the identification of 455 miRNAs in both cochlear and vestibular sensory epithelium, with 30 and 44 miRNAs found in only cochlea or vestibule, respectively. miR-6715-3p and miR-6715-5p were defined for the first time in the inner ear. Gene targets were identified for each of these miRNAs, including Arhgap12, a GTPase activating protein, for miR-6715-3p, implicating this miRNA in sensory hair cell bundle development, actin reorganization, cell adhesion and inner ear morphogenesis. CONCLUSIONS: This study provides a comprehensive atlas of miRNAs in the inner ear sensory epithelia. The results provide further support of the essential regulatory role of miRNAs in inner ear sensory epithelia and in regulating pathways that define development and growth of these cells. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/1471-2164-15-484) contains supplementary material, which is available to authorized users. BioMed Central 2014-06-18 /pmc/articles/PMC4073505/ /pubmed/24942165 http://dx.doi.org/10.1186/1471-2164-15-484 Text en © Rudnicki et al.; licensee BioMed Central Ltd. 2014 This article is published under license to BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated. |
spellingShingle | Research Article Rudnicki, Anya Isakov, Ofer Ushakov, Kathy Shivatzki, Shaked Weiss, Inbal Friedman, Lilach M Shomron, Noam Avraham, Karen B Next-generation sequencing of small RNAs from inner ear sensory epithelium identifies microRNAs and defines regulatory pathways |
title | Next-generation sequencing of small RNAs from inner ear sensory epithelium identifies microRNAs and defines regulatory pathways |
title_full | Next-generation sequencing of small RNAs from inner ear sensory epithelium identifies microRNAs and defines regulatory pathways |
title_fullStr | Next-generation sequencing of small RNAs from inner ear sensory epithelium identifies microRNAs and defines regulatory pathways |
title_full_unstemmed | Next-generation sequencing of small RNAs from inner ear sensory epithelium identifies microRNAs and defines regulatory pathways |
title_short | Next-generation sequencing of small RNAs from inner ear sensory epithelium identifies microRNAs and defines regulatory pathways |
title_sort | next-generation sequencing of small rnas from inner ear sensory epithelium identifies micrornas and defines regulatory pathways |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4073505/ https://www.ncbi.nlm.nih.gov/pubmed/24942165 http://dx.doi.org/10.1186/1471-2164-15-484 |
work_keys_str_mv | AT rudnickianya nextgenerationsequencingofsmallrnasfrominnerearsensoryepitheliumidentifiesmicrornasanddefinesregulatorypathways AT isakovofer nextgenerationsequencingofsmallrnasfrominnerearsensoryepitheliumidentifiesmicrornasanddefinesregulatorypathways AT ushakovkathy nextgenerationsequencingofsmallrnasfrominnerearsensoryepitheliumidentifiesmicrornasanddefinesregulatorypathways AT shivatzkishaked nextgenerationsequencingofsmallrnasfrominnerearsensoryepitheliumidentifiesmicrornasanddefinesregulatorypathways AT weissinbal nextgenerationsequencingofsmallrnasfrominnerearsensoryepitheliumidentifiesmicrornasanddefinesregulatorypathways AT friedmanlilachm nextgenerationsequencingofsmallrnasfrominnerearsensoryepitheliumidentifiesmicrornasanddefinesregulatorypathways AT shomronnoam nextgenerationsequencingofsmallrnasfrominnerearsensoryepitheliumidentifiesmicrornasanddefinesregulatorypathways AT avrahamkarenb nextgenerationsequencingofsmallrnasfrominnerearsensoryepitheliumidentifiesmicrornasanddefinesregulatorypathways |