Microarray analysis of gene expression during auditory hair cell regeneration in zebrafish (Danio rerio)

Fishes are capable of regenerating sensory hair cells in the inner ear after overexposure to sound [1]. However, the time course and gene expression of auditory hair cell regeneration has not been established for zebrafish (Danio rerio). This study establishes a time course of cell proliferation associated with hair cell regeneration in the zebrafish inner ear and examines gene expression patterns exhibited during this process.

Adult zebrafish were exposed to a 100 Hz pure tone at 179 dB re 1 μPa RMS for 36 hours, and then allowed to recover for 0 to 14 days before morphological analysis. Saccular hair cells were quantified through visualization of stereocilia stained by phalloidin at 0, 2, 7, and 14 days post-sound exposure. Cell proliferation was quantified through BrdU labeling at 0, 1, 2, 3, 7 and 10 days after the end of sound exposure. Groups of 18–20 fish were allowed to survive 0, 2 or 4 days post-sound exposure at which time the whole ears from each group were pooled and RNA extracted. Fluorescent cRNA from each treatment sample was hybridized to three duplicate Agilent Zebrafish oligonucleotide arrays (4 × 44 K, 60-mer oligonucleotides).

The zebrafish ear is a good model for examining genes involved during the process of hair cell regeneration. A large number of genes were either up- or down-regulated at 2- and 4-days post-sound exposure. Putative biological processes for some of these genes have been identified, but more work will be needed to determine their function in the zebrafish inner ear.