RGD Reference Report - Transcriptome characterization by RNA-Seq reveals the involvement of the complement components in noise-traumatized rat cochleae. - Rat Genome Database

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Transcriptome characterization by RNA-Seq reveals the involvement of the complement components in noise-traumatized rat cochleae.

Authors: Patel, M  Hu, Z  Bard, J  Jamison, J  Cai, Q  Hu, BH 
Citation: Patel M, etal., Neuroscience. 2013 May 30;248C:1-16. doi: 10.1016/j.neuroscience.2013.05.038.
RGD ID: 8662317
Pubmed: PMID:23727008   (View Abstract at PubMed)
PMCID: PMC3868636   (View Article at PubMed Central)
DOI: DOI:10.1016/j.neuroscience.2013.05.038   (Journal Full-text)

Acoustic trauma, a leading cause of sensorineural hearing loss in adults, induces a complex degenerative process in the cochlea. Although previous investigations have identified multiple stress pathways, a comprehensive analysis of cochlear responses to acoustic injury is still lacking. In the current study, we used the next-generation RNA-sequencing (RNA-Seq) technique to sequence the whole transcriptome of the normal and noise-traumatized cochlear sensory epithelia (CSE). CSE tissues were collected from rat inner ears 1d after the rats were exposed to a 120-dB (sound pressure level) noise for 2h. The RNA-Seq generated over 176 million sequence reads for the normal CSE and over 164 million reads for the noise-traumatized CSE. Alignment of these sequences with the rat Rn4 genome revealed the expression of over 17,000 gene transcripts in the CSE, over 2000 of which were exclusively expressed in either the normal or noise-traumatized CSE. Seventy-eight gene transcripts were differentially expressed (70 upregulated and 8 downregulated) after acoustic trauma. Many of the differentially expressed genes are related to the innate immune system. Further expression analyses using quantitative real time PCR confirmed the constitutive expression of multiple complement genes in the normal organ of Corti and the changes in the expression levels of the complement factor I (Cfi) and complement component 1, s subcomponent (C1s) after acoustic trauma. Moreover, protein expression analysis revealed strong expression of Cfi and C1s proteins in the organ of Corti. Importantly, these proteins exhibited expression changes following acoustic trauma. Collectively, the results of the current investigation suggest the involvement of the complement components in cochlear responses to acoustic trauma.

RGD Manual Disease Annotations    Click to see Annotation Detail View
TermQualifierEvidenceWithReferenceNotesSourceOriginal Reference(s)
Hearing Loss, Noise-Induced  ISOCfi (Rattus norvegicus)8662317; 8662317mRNA:increased expression:spiral organ of cochlea and sensory epitheliumRGD 
Hearing Loss, Noise-Induced  IEP 8662317mRNA:increased expression:spiral organ of cochlea and sensory epitheliumRGD 

Objects Annotated

Genes (Rattus norvegicus)
Cfi  (complement factor I)

Genes (Mus musculus)
Cfi  (complement component factor i)

Genes (Homo sapiens)
CFI  (complement factor I)


Additional Information