Comprehensive transcriptome analysis of cochlear spiral ganglion neurons at multiple ages
Inner ear cochlear spiral ganglion neurons (SGNs) transmit sound information to the brainstem. Recent single cell RNA-Seq studies have revealed heterogeneities within SGNs. Nonetheless, much remains unknown about the transcriptome of SGNs, especially which genes are specifically expressed in SGNs. T...
| Main Authors: | , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
eLife Sciences Publications Ltd
2020-01-01
|
| Series: | eLife |
| Subjects: | |
| Online Access: | https://elifesciences.org/articles/50491 |
| _version_ | 1811180748867108864 |
|---|---|
| author | Chao Li Xiang Li Zhenghong Bi Ken Sugino Guangqin Wang Tong Zhu Zhiyong Liu |
| author_facet | Chao Li Xiang Li Zhenghong Bi Ken Sugino Guangqin Wang Tong Zhu Zhiyong Liu |
| author_sort | Chao Li |
| collection | DOAJ |
| description | Inner ear cochlear spiral ganglion neurons (SGNs) transmit sound information to the brainstem. Recent single cell RNA-Seq studies have revealed heterogeneities within SGNs. Nonetheless, much remains unknown about the transcriptome of SGNs, especially which genes are specifically expressed in SGNs. To address these questions, we needed a deeper and broader gene coverage than that in previous studies. We performed bulk RNA-Seq on mouse SGNs at five ages, and on two reference cell types (hair cells and glia). Their transcriptome comparison identified genes previously unknown to be specifically expressed in SGNs. To validate our dataset and provide useful genetic tools for this research field, we generated two knockin mouse strains: Scrt2-P2A-tdTomato and Celf4-3xHA-P2A-iCreER-T2A-EGFP. Our comprehensive analysis confirmed the SGN-selective expression of the candidate genes, testifying to the quality of our transcriptome data. These two mouse strains can be used to temporally label SGNs or to sort them. |
| first_indexed | 2024-04-11T09:07:23Z |
| format | Article |
| id | doaj.art-90250314f9ad4dde90ae47c1a7b1b5a7 |
| institution | Directory Open Access Journal |
| issn | 2050-084X |
| language | English |
| last_indexed | 2024-04-11T09:07:23Z |
| publishDate | 2020-01-01 |
| publisher | eLife Sciences Publications Ltd |
| record_format | Article |
| series | eLife |
| spelling | doaj.art-90250314f9ad4dde90ae47c1a7b1b5a72022-12-22T04:32:35ZengeLife Sciences Publications LtdeLife2050-084X2020-01-01910.7554/eLife.50491Comprehensive transcriptome analysis of cochlear spiral ganglion neurons at multiple agesChao Li0Xiang Li1Zhenghong Bi2Ken Sugino3https://orcid.org/0000-0002-5795-0635Guangqin Wang4Tong Zhu5Zhiyong Liu6https://orcid.org/0000-0002-9675-1233Institute of Neuroscience, State Key Laboratory of Neuroscience, CAS Center for Excellence in Brain Science and Intelligence Technology, Chinese Academy of Sciences, Shanghai, ChinaInstitute of Neuroscience, State Key Laboratory of Neuroscience, CAS Center for Excellence in Brain Science and Intelligence Technology, Chinese Academy of Sciences, Shanghai, ChinaInstitute of Neuroscience, State Key Laboratory of Neuroscience, CAS Center for Excellence in Brain Science and Intelligence Technology, Chinese Academy of Sciences, Shanghai, ChinaHoward Hughes Medical Institute, Janelia Research Campus, Ashburn, United StatesInstitute of Neuroscience, State Key Laboratory of Neuroscience, CAS Center for Excellence in Brain Science and Intelligence Technology, Chinese Academy of Sciences, Shanghai, ChinaInstitute of Neuroscience, State Key Laboratory of Neuroscience, CAS Center for Excellence in Brain Science and Intelligence Technology, Chinese Academy of Sciences, Shanghai, ChinaInstitute of Neuroscience, State Key Laboratory of Neuroscience, CAS Center for Excellence in Brain Science and Intelligence Technology, Chinese Academy of Sciences, Shanghai, China; Shanghai Center for Brain Science and Brain-Inspired Intelligence Technology, Shanghai, ChinaInner ear cochlear spiral ganglion neurons (SGNs) transmit sound information to the brainstem. Recent single cell RNA-Seq studies have revealed heterogeneities within SGNs. Nonetheless, much remains unknown about the transcriptome of SGNs, especially which genes are specifically expressed in SGNs. To address these questions, we needed a deeper and broader gene coverage than that in previous studies. We performed bulk RNA-Seq on mouse SGNs at five ages, and on two reference cell types (hair cells and glia). Their transcriptome comparison identified genes previously unknown to be specifically expressed in SGNs. To validate our dataset and provide useful genetic tools for this research field, we generated two knockin mouse strains: Scrt2-P2A-tdTomato and Celf4-3xHA-P2A-iCreER-T2A-EGFP. Our comprehensive analysis confirmed the SGN-selective expression of the candidate genes, testifying to the quality of our transcriptome data. These two mouse strains can be used to temporally label SGNs or to sort them.https://elifesciences.org/articles/50491inner earspiral ganglion neuronRNA-Seqscrt2celf4cochlea |
| spellingShingle | Chao Li Xiang Li Zhenghong Bi Ken Sugino Guangqin Wang Tong Zhu Zhiyong Liu Comprehensive transcriptome analysis of cochlear spiral ganglion neurons at multiple ages eLife inner ear spiral ganglion neuron RNA-Seq scrt2 celf4 cochlea |
| title | Comprehensive transcriptome analysis of cochlear spiral ganglion neurons at multiple ages |
| title_full | Comprehensive transcriptome analysis of cochlear spiral ganglion neurons at multiple ages |
| title_fullStr | Comprehensive transcriptome analysis of cochlear spiral ganglion neurons at multiple ages |
| title_full_unstemmed | Comprehensive transcriptome analysis of cochlear spiral ganglion neurons at multiple ages |
| title_short | Comprehensive transcriptome analysis of cochlear spiral ganglion neurons at multiple ages |
| title_sort | comprehensive transcriptome analysis of cochlear spiral ganglion neurons at multiple ages |
| topic | inner ear spiral ganglion neuron RNA-Seq scrt2 celf4 cochlea |
| url | https://elifesciences.org/articles/50491 |
| work_keys_str_mv | AT chaoli comprehensivetranscriptomeanalysisofcochlearspiralganglionneuronsatmultipleages AT xiangli comprehensivetranscriptomeanalysisofcochlearspiralganglionneuronsatmultipleages AT zhenghongbi comprehensivetranscriptomeanalysisofcochlearspiralganglionneuronsatmultipleages AT kensugino comprehensivetranscriptomeanalysisofcochlearspiralganglionneuronsatmultipleages AT guangqinwang comprehensivetranscriptomeanalysisofcochlearspiralganglionneuronsatmultipleages AT tongzhu comprehensivetranscriptomeanalysisofcochlearspiralganglionneuronsatmultipleages AT zhiyongliu comprehensivetranscriptomeanalysisofcochlearspiralganglionneuronsatmultipleages |