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Generation of Inner Ear Hair Cells by Direct Lineage Conversion of Primary Somatic Cells [ATAC-seq]

ABSTRACT: Generation of Inner Ear Hair Cells by Direct Lineage Conversion of Primary Somatic Cells [ATAC-seq]

PROVIDER: PRJNA627751 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR11601812_1.fastq.gz	Fastqsanger.gz
	SRR11601812_2.fastq.gz	Fastqsanger.gz
	SRR11601813_1.fastq.gz	Fastqsanger.gz
	SRR11601813_2.fastq.gz	Fastqsanger.gz
	SRR11601814_1.fastq.gz	Fastqsanger.gz

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Generation of Inner Ear Hair Cells by Direct Lineage Conversion of Primary Somatic Cells

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Project description:Hair cells of the inner ear are essential for hearing and balance. As a consequence, pathogenic variants in genes specifically expressed in hair cells often cause hereditary deafness. Hair cells are few in number and not easily isolated from the adjacent supporting cells, so the biochemistry and molecular biology of hair cells can be difficult to study. To study gene expression in hair cells, we developed a protocol for hair cell isolation by FACS sorting. With nearly pure hair cells and surrounding cells, from cochlea and utricle and from embryonic day 16 to postnatal day 7, we performed a comprehensive cell-type-specific RNA-Seq study of gene expression during mouse inner ear development. Expression profiling revealed new hair-cell genes with distinct expression patterns: some are specific for vestibular hair cells, others for cochlear hair cells, and some are expressed just before or after maturation of mechanosensitivity. We found that many of the known hereditary deafness genes are much more highly expressed in hair cells than surrounding cells, suggesting that genes preferentially expressed in hair cells are good candidates for unknown deafness genes.

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Project description:To understand the basic biological property of hair cells (HCs) from lower vertebrates, we examined transcriptomes of adult zebrafish HCs. GFP-labeled HCs were isolated from the utricle, saccule, and lagena, the three inner-ear sensory epithelia of a pou4f3 promoter-driven GAP-GFP line of transgenic zebrafish. 2,000 HCs and 2,000 non-sensory cells from the inner ear were individually collected by suction pipet technique. RNA sequencing was performed and the resulting sequences were mapped, analyzed, and compared. Comparisons allow us to identify enriched genes in HCs, which may underlie HC specialization.

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