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Single-cell RNA-sequencing of zebrafish hair cells reveals novel genes potentially involved in hearing loss
Hair cells play key roles in hearing and balance, and hair cell loss would result in hearing loss or vestibular dysfunction. Cellular and molecular research in hair cell biology provides us a better understanding of hearing and deafness. Zebrafish, owing to their hair cell-enriched organs, have been...
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Published in: | Cellular and molecular life sciences : CMLS 2022-07, Vol.79 (7), p.385-385, Article 385 |
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container_title | Cellular and molecular life sciences : CMLS |
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creator | Qian, Fuping Wei, Guanyun Gao, Yajing Wang, Xin Gong, Jie Guo, Chao Wang, Xiaoning Zhang, Xu Zhao, Jinxiang Wang, Cheng Xu, Mengting Hu, Yuebo Yin, Guoli Kang, Jiahui Chai, Renjie Xie, Gangcai Liu, Dong |
description | Hair cells play key roles in hearing and balance, and hair cell loss would result in hearing loss or vestibular dysfunction. Cellular and molecular research in hair cell biology provides us a better understanding of hearing and deafness. Zebrafish, owing to their hair cell-enriched organs, have been widely applied in hair cell-related research worldwide. Similar to mammals, zebrafish have inner ear hair cells. In addition, they also have lateral line neuromast hair cells. These different types of hair cells vary in morphology and function. However, systematic analysis of their molecular characteristics remains lacking. In this study, we analyzed the GFP+ cells isolated from
Tg(Brn3c:mGFP)
larvae with GFP expression in all hair cells using single-cell RNA-sequencing (scRNA-seq). Three subtypes of hair cells, namely macula hair cell (MHC), crista hair cell (CHC), and neuromast hair cell (NHC), were characterized and validated by whole-mount in situ hybridization analysis of marker genes. The hair cell scRNA-seq data revealed hair cell-specific genes, including hearing loss genes that have been identified in humans and novel genes potentially involved in hair cell formation and function. Two novel genes were discovered to specifically function in NHCs and MHCs, corresponding to their specific expression in NHCs and MHCs. This study allows us to understand the specific genes in hair cell subpopulations of zebrafish, which will shed light on the genetics of both human vestibular and cochlear hair cell function. |
doi_str_mv | 10.1007/s00018-022-04410-2 |
format | article |
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Tg(Brn3c:mGFP)
larvae with GFP expression in all hair cells using single-cell RNA-sequencing (scRNA-seq). Three subtypes of hair cells, namely macula hair cell (MHC), crista hair cell (CHC), and neuromast hair cell (NHC), were characterized and validated by whole-mount in situ hybridization analysis of marker genes. The hair cell scRNA-seq data revealed hair cell-specific genes, including hearing loss genes that have been identified in humans and novel genes potentially involved in hair cell formation and function. Two novel genes were discovered to specifically function in NHCs and MHCs, corresponding to their specific expression in NHCs and MHCs. This study allows us to understand the specific genes in hair cell subpopulations of zebrafish, which will shed light on the genetics of both human vestibular and cochlear hair cell function.</description><identifier>ISSN: 1420-682X</identifier><identifier>EISSN: 1420-9071</identifier><identifier>DOI: 10.1007/s00018-022-04410-2</identifier><identifier>PMID: 35753015</identifier><language>eng</language><publisher>Cham: Springer International Publishing</publisher><subject>Animals ; Balance ; Biochemistry ; Biomedical and Life Sciences ; Biomedicine ; Brn-3 protein ; Cell Biology ; Cochlea ; Cytology ; Danio rerio ; Deafness ; Gene sequencing ; Genes ; Genetics ; Hair ; Hair cells ; Hair Cells, Auditory ; Hearing Loss ; Hearing protection ; Hybridization analysis ; Inner ear ; Larvae ; Lateral line ; Life Sciences ; Mammals - genetics ; Organs ; Original ; Original Article ; Ribonucleic acid ; RNA ; RNA - metabolism ; Subpopulations ; Vestibular system ; Zebrafish ; Zebrafish - genetics ; Zebrafish - metabolism ; Zebrafish Proteins - genetics ; Zebrafish Proteins - metabolism</subject><ispartof>Cellular and molecular life sciences : CMLS, 2022-07, Vol.79 (7), p.385-385, Article 385</ispartof><rights>The Author(s), under exclusive licence to Springer Nature Switzerland AG 2022. corrected publication 2023. Springer Nature or its licensor (e.g. a society or other partner) holds exclusive rights to this article under a publishing agreement with the author(s) or other rightsholder(s); author self-archiving of the accepted manuscript version of this article is solely governed by the terms of such publishing agreement and applicable law.</rights><rights>2022. The Author(s), under exclusive licence to Springer Nature Switzerland AG.</rights><rights>The Author(s), under exclusive licence to Springer Nature Switzerland AG 2022, corrected publication 2023. Springer Nature or its licensor (e.g. a society or other partner) holds exclusive rights to this article under a publishing agreement with the author(s) or other rightsholder(s); author self-archiving of the accepted manuscript version of this article is solely governed by the terms of such publishing agreement and applicable law.</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c475t-fe84cac31b473d02c656a57ef70c945692a3fb8d1b547d683289560c875a421c3</citedby><cites>FETCH-LOGICAL-c475t-fe84cac31b473d02c656a57ef70c945692a3fb8d1b547d683289560c875a421c3</cites><orcidid>0000-0002-2764-6544</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC11072488/pdf/$$EPDF$$P50$$Gpubmedcentral$$H</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC11072488/$$EHTML$$P50$$Gpubmedcentral$$H</linktohtml><link.rule.ids>230,314,727,780,784,885,27924,27925,53791,53793</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/35753015$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Qian, Fuping</creatorcontrib><creatorcontrib>Wei, Guanyun</creatorcontrib><creatorcontrib>Gao, Yajing</creatorcontrib><creatorcontrib>Wang, Xin</creatorcontrib><creatorcontrib>Gong, Jie</creatorcontrib><creatorcontrib>Guo, Chao</creatorcontrib><creatorcontrib>Wang, Xiaoning</creatorcontrib><creatorcontrib>Zhang, Xu</creatorcontrib><creatorcontrib>Zhao, Jinxiang</creatorcontrib><creatorcontrib>Wang, Cheng</creatorcontrib><creatorcontrib>Xu, Mengting</creatorcontrib><creatorcontrib>Hu, Yuebo</creatorcontrib><creatorcontrib>Yin, Guoli</creatorcontrib><creatorcontrib>Kang, Jiahui</creatorcontrib><creatorcontrib>Chai, Renjie</creatorcontrib><creatorcontrib>Xie, Gangcai</creatorcontrib><creatorcontrib>Liu, Dong</creatorcontrib><title>Single-cell RNA-sequencing of zebrafish hair cells reveals novel genes potentially involved in hearing loss</title><title>Cellular and molecular life sciences : CMLS</title><addtitle>Cell. Mol. Life Sci</addtitle><addtitle>Cell Mol Life Sci</addtitle><description>Hair cells play key roles in hearing and balance, and hair cell loss would result in hearing loss or vestibular dysfunction. Cellular and molecular research in hair cell biology provides us a better understanding of hearing and deafness. Zebrafish, owing to their hair cell-enriched organs, have been widely applied in hair cell-related research worldwide. Similar to mammals, zebrafish have inner ear hair cells. In addition, they also have lateral line neuromast hair cells. These different types of hair cells vary in morphology and function. However, systematic analysis of their molecular characteristics remains lacking. In this study, we analyzed the GFP+ cells isolated from
Tg(Brn3c:mGFP)
larvae with GFP expression in all hair cells using single-cell RNA-sequencing (scRNA-seq). Three subtypes of hair cells, namely macula hair cell (MHC), crista hair cell (CHC), and neuromast hair cell (NHC), were characterized and validated by whole-mount in situ hybridization analysis of marker genes. The hair cell scRNA-seq data revealed hair cell-specific genes, including hearing loss genes that have been identified in humans and novel genes potentially involved in hair cell formation and function. Two novel genes were discovered to specifically function in NHCs and MHCs, corresponding to their specific expression in NHCs and MHCs. This study allows us to understand the specific genes in hair cell subpopulations of zebrafish, which will shed light on the genetics of both human vestibular and cochlear hair cell function.</description><subject>Animals</subject><subject>Balance</subject><subject>Biochemistry</subject><subject>Biomedical and Life Sciences</subject><subject>Biomedicine</subject><subject>Brn-3 protein</subject><subject>Cell Biology</subject><subject>Cochlea</subject><subject>Cytology</subject><subject>Danio rerio</subject><subject>Deafness</subject><subject>Gene sequencing</subject><subject>Genes</subject><subject>Genetics</subject><subject>Hair</subject><subject>Hair cells</subject><subject>Hair Cells, Auditory</subject><subject>Hearing Loss</subject><subject>Hearing protection</subject><subject>Hybridization analysis</subject><subject>Inner ear</subject><subject>Larvae</subject><subject>Lateral line</subject><subject>Life Sciences</subject><subject>Mammals - genetics</subject><subject>Organs</subject><subject>Original</subject><subject>Original Article</subject><subject>Ribonucleic acid</subject><subject>RNA</subject><subject>RNA - metabolism</subject><subject>Subpopulations</subject><subject>Vestibular system</subject><subject>Zebrafish</subject><subject>Zebrafish - genetics</subject><subject>Zebrafish - metabolism</subject><subject>Zebrafish Proteins - genetics</subject><subject>Zebrafish Proteins - metabolism</subject><issn>1420-682X</issn><issn>1420-9071</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2022</creationdate><recordtype>article</recordtype><recordid>eNp9kU1vEzEQhi1ERdvAH-CALHHhYurPtfeEqqpQpKpIfEjcLK93NnFx1sFOViq_Hi8JLXDg4vHHM69n5kXoOaOvGaX6rFBKmSGUc0KlZJTwR-iESU5JSzV7fNg3hn89Rqel3FZaGd48QcdCaSXq6QR9-xTGZQTiIUb88eacFPi-g9HXW5wG_AO67IZQVnjlQsYzVXCGCVyNY5og4iWMUPAmbWHcBhfjHQ7jlOIEfd3gFbg8a8VUylN0NNQ8eHaIC_Tl7eXniyty_eHd-4vza-KlVlsygJHeecE6qUVPuW9U45SGQVPfStW03ImhMz3rlNR9YwQ3rWqoN1o5yZkXC_Rmr7vZdWvofS0su2g3OaxdvrPJBfv3yxhWdpkmyxjVXBpTFV4dFHKq4yhbuw5lbt6NkHbF8sYwKqSqywK9_Ae9Tbs81v5mirasGqMqxfeUz3UQGYb7ahi1s5l2b6atZtpfZlpek1782cd9ym_3KiD2QNnMQ4b88Pd_ZH8C5QarHg</recordid><startdate>20220701</startdate><enddate>20220701</enddate><creator>Qian, Fuping</creator><creator>Wei, Guanyun</creator><creator>Gao, Yajing</creator><creator>Wang, Xin</creator><creator>Gong, Jie</creator><creator>Guo, Chao</creator><creator>Wang, Xiaoning</creator><creator>Zhang, Xu</creator><creator>Zhao, Jinxiang</creator><creator>Wang, Cheng</creator><creator>Xu, Mengting</creator><creator>Hu, Yuebo</creator><creator>Yin, Guoli</creator><creator>Kang, Jiahui</creator><creator>Chai, Renjie</creator><creator>Xie, Gangcai</creator><creator>Liu, Dong</creator><general>Springer International Publishing</general><general>Springer Nature B.V</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>3V.</scope><scope>7QL</scope><scope>7QP</scope><scope>7QR</scope><scope>7SS</scope><scope>7T5</scope><scope>7T7</scope><scope>7TK</scope><scope>7TM</scope><scope>7TO</scope><scope>7U7</scope><scope>7U9</scope><scope>7X2</scope><scope>7X7</scope><scope>7XB</scope><scope>88A</scope><scope>88E</scope><scope>8AO</scope><scope>8FD</scope><scope>8FE</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>8G5</scope><scope>ABUWG</scope><scope>AFKRA</scope><scope>ATCPS</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>C1K</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FR3</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>GUQSH</scope><scope>H94</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>LK8</scope><scope>M0K</scope><scope>M0S</scope><scope>M1P</scope><scope>M2O</scope><scope>M7N</scope><scope>M7P</scope><scope>MBDVC</scope><scope>P64</scope><scope>PATMY</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PYCSY</scope><scope>Q9U</scope><scope>RC3</scope><scope>7X8</scope><scope>5PM</scope><orcidid>https://orcid.org/0000-0002-2764-6544</orcidid></search><sort><creationdate>20220701</creationdate><title>Single-cell RNA-sequencing of zebrafish hair cells reveals novel genes potentially involved in hearing loss</title><author>Qian, Fuping ; Wei, Guanyun ; Gao, Yajing ; Wang, Xin ; Gong, Jie ; Guo, Chao ; Wang, Xiaoning ; Zhang, Xu ; Zhao, Jinxiang ; Wang, Cheng ; Xu, Mengting ; Hu, Yuebo ; Yin, Guoli ; Kang, Jiahui ; Chai, Renjie ; Xie, Gangcai ; Liu, Dong</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c475t-fe84cac31b473d02c656a57ef70c945692a3fb8d1b547d683289560c875a421c3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2022</creationdate><topic>Animals</topic><topic>Balance</topic><topic>Biochemistry</topic><topic>Biomedical and Life Sciences</topic><topic>Biomedicine</topic><topic>Brn-3 protein</topic><topic>Cell Biology</topic><topic>Cochlea</topic><topic>Cytology</topic><topic>Danio rerio</topic><topic>Deafness</topic><topic>Gene sequencing</topic><topic>Genes</topic><topic>Genetics</topic><topic>Hair</topic><topic>Hair cells</topic><topic>Hair Cells, Auditory</topic><topic>Hearing Loss</topic><topic>Hearing protection</topic><topic>Hybridization analysis</topic><topic>Inner ear</topic><topic>Larvae</topic><topic>Lateral line</topic><topic>Life Sciences</topic><topic>Mammals - 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Mol. Life Sci</stitle><addtitle>Cell Mol Life Sci</addtitle><date>2022-07-01</date><risdate>2022</risdate><volume>79</volume><issue>7</issue><spage>385</spage><epage>385</epage><pages>385-385</pages><artnum>385</artnum><issn>1420-682X</issn><eissn>1420-9071</eissn><abstract>Hair cells play key roles in hearing and balance, and hair cell loss would result in hearing loss or vestibular dysfunction. Cellular and molecular research in hair cell biology provides us a better understanding of hearing and deafness. Zebrafish, owing to their hair cell-enriched organs, have been widely applied in hair cell-related research worldwide. Similar to mammals, zebrafish have inner ear hair cells. In addition, they also have lateral line neuromast hair cells. These different types of hair cells vary in morphology and function. However, systematic analysis of their molecular characteristics remains lacking. In this study, we analyzed the GFP+ cells isolated from
Tg(Brn3c:mGFP)
larvae with GFP expression in all hair cells using single-cell RNA-sequencing (scRNA-seq). Three subtypes of hair cells, namely macula hair cell (MHC), crista hair cell (CHC), and neuromast hair cell (NHC), were characterized and validated by whole-mount in situ hybridization analysis of marker genes. The hair cell scRNA-seq data revealed hair cell-specific genes, including hearing loss genes that have been identified in humans and novel genes potentially involved in hair cell formation and function. Two novel genes were discovered to specifically function in NHCs and MHCs, corresponding to their specific expression in NHCs and MHCs. This study allows us to understand the specific genes in hair cell subpopulations of zebrafish, which will shed light on the genetics of both human vestibular and cochlear hair cell function.</abstract><cop>Cham</cop><pub>Springer International Publishing</pub><pmid>35753015</pmid><doi>10.1007/s00018-022-04410-2</doi><tpages>1</tpages><orcidid>https://orcid.org/0000-0002-2764-6544</orcidid><oa>free_for_read</oa></addata></record> |
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ispartof | Cellular and molecular life sciences : CMLS, 2022-07, Vol.79 (7), p.385-385, Article 385 |
issn | 1420-682X 1420-9071 |
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source | Springer Nature; PubMed Central |
subjects | Animals Balance Biochemistry Biomedical and Life Sciences Biomedicine Brn-3 protein Cell Biology Cochlea Cytology Danio rerio Deafness Gene sequencing Genes Genetics Hair Hair cells Hair Cells, Auditory Hearing Loss Hearing protection Hybridization analysis Inner ear Larvae Lateral line Life Sciences Mammals - genetics Organs Original Original Article Ribonucleic acid RNA RNA - metabolism Subpopulations Vestibular system Zebrafish Zebrafish - genetics Zebrafish - metabolism Zebrafish Proteins - genetics Zebrafish Proteins - metabolism |
title | Single-cell RNA-sequencing of zebrafish hair cells reveals novel genes potentially involved in hearing loss |
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