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Danio rerio

ABSTRACT: Gene expression analysis of hair cell regeneration in the zebrafish lateral line

PROVIDER: PRJNA242641 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR1205160.fastq.gz	Fastqsanger.gz
	SRR1205170.fastq.gz	Fastqsanger.gz
	SRR1205151.fastq.gz	Fastqsanger.gz
	SRR1205161.fastq.gz	Fastqsanger.gz
	SRR1205171.fastq.gz	Fastqsanger.gz

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Danio rerio

Project description:Dynamic gene expression by putative hair-cell progenitors during regeneration in the zebrafish lateral line

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Gene expression analysis of hair cell regeneration in the zebrafish lateral line

Project description:Deafness due to the terminal loss of inner ear hair cells is one of the most common sensory diseases. However, non-mammalian animals (e.g. birds, amphibian and fish) regenerate damaged hair cells. In order to better understand the reasons underpinning such regeneration disparities in vertebrates, we set out to define the changes in gene expression associated with the regeneration of hair cells in the zebrafish lateral line at high resolution. We performed RNA-Seq analyses on regenerating support cells purified by fluorescence activated cell sorting (FACS). The zebrafish lateral line provides an experimentally accessible system to define the complex signaling events triggered by injury and regeneration, because these cells can be acutely killed by exposure to neomycin, after which they regenerate rapidly. Lateral line hair cells are located in the center of a mechanosensory organ known as the neuromast and are surrounded by inner support cells and an outer ring of mantle cells. Tg(sqET20) larvae express GFP strongly in mantle cells and to a lesser degree in inner support cells. We isolated GFP positive and GFP negative cells from 5 days post fertilization (dpf) Tg(sqET20) larvae at 1, 3 and 5 hours post neomycin treatment, as well as from a non-treated control. Transgenic zebrafish Tg(sqET20) larvae at 5 days post fertilization were exposed to neomycin, dissociated, and FACS sorted into GFP positive and GFP negative populations at 1, 3, and 5 hours following treatment, along with a mock treated 1 hr control. The experiment was performed in triplicate, for a total of 24 samples.

2014-03-26 | E-GEOD-56176 | biostudies-arrayexpress

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Project description:Transcriptomic Analysis of Adult Zebrafish Inner Ear Hair Cells

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Single cell RNA-Seq reveals Fgf signaling dynamics during sensory hair cell regeneration

Project description:Loss of sensory hair cells leads to deafness and balance deficiencies. In contrast to mammalian hair cells, zebrafish ear and lateral line hair cells regenerate from poorly characterized, proliferating support cells. Equally ill-defined is the gene regulatory network underlying the progression of support cells to cycling hair cell progenitors and differentiated hair cells. We used single-cell RNA-Sequencing (scRNA-Seq) of lateral line sensory organs and uncovered five different support cell types, including quiescent and activated stem cells. In silico ordering of support cells along a developmental trajectory identified cells that self-renew and new groups of genes required for hair cell differentiation. scRNA-Seq analyses of fgf3 mutants, in which hair cell regeneration is increased demonstrates that Fgf and Notch signaling inhibit proliferation of support cells in parallel by inhibiting Wnt signaling. Our scRNA-Seq analyses set the foundation for mechanistic studies of sensory organ regeneration and is crucial for identifying factors to trigger hair cell production in mammals.

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