Project description:Proteome DIA analysis of brain tissue from old (32 weeks old) killifish treated for 3 weeks with bortezomib to reduce the proteasome activity or DMSO as control.
Project description:Ribosome profiling on killifish brains coming from adult and old animals. Fractions have been pulled as described in the M&M and analysed by DIA proteomics.
Project description:Aging and neurodegeneration entail diverse cellular and molecular hallmarks. Here, we studied the effects of aging on the transcriptome, translatome, and multiple layers of the proteome in the brain of a short-lived killifish. We reveal that aging causes widespread reduction of proteins enriched in basic amino acids that is independent of mRNA regulation, and it is not due to impaired proteasome activity. Instead, we identify a cascade of events where aberrant translation pausing leads to reduced ribosome availability resulting in proteome remodeling independently of transcriptional regulation. Our research uncovers a vulnerable point in the aging brain's biology - the biogenesis of basic DNA/RNA binding proteins. This vulnerability may represent a unifying principle that connects various aging hallmarks, encompassing genome integrity and the biosynthesis of macromolecules.
Project description:Fasting-refeeding paradigms result in drastic shifts in metabolism and gene expression patterns. The effect of fasting-refeeding changes between young and old individuals. We sought to decipher the changes in response to fasting-refeeding in young and old animals by profiling gene expression in adipose tissue of killifish Nothobranchius furzeri.
Project description:To explore the effects of the housing condition (group- or single-housing) on killifish, we performed RNA-seq analysis for the whole bodies of male and female juveniles, gonads of males and females from puberty to middle age, and livers of young and old males.