Figure 1
From: Tracking genome-editing and associated molecular perturbations by SWATH mass spectrometry
SWATH detects protein silencing and accompanying proteome response. (a) ANXA1 peptides (indicated by purple horizontal bars) from SWATH comparison of ANXA1−/− vs. ANXA1+/− samples presented with their quantified fold changes (y-axis) and respective positions on the ANXA1 protein sequence (x-axis, numbers represent amino acid residue numbers). Expression of all quantified ANXA1 peptides was considerably lower in the ANXA1−/− samples, confirming ANXA1 protein knockout. (b) A premature termination codon was introduced using zinc finger nuclease (ZFN) in the st14a gene (site indicated by red arrow). Similarly, quantified St14a peptides (indicated by turquoise horizontal bars) observed to be in substantially lower levels in the st14asq10/sq10 mutant adult fin samples, indicating loss of St14a protein. (c) Volcano plot visualisation of accompanying proteome changes in response to loss of St14a, showing 73 over-expressed and 98 under-expressed proteins with cut-off criteria of fold change >1.5 and fold change confidence >0.7. (d) Top ten biological process networks which show significant enrichment in differentially expressed proteins in the st14a mutants compared to siblings.
