Quantitative analysis of the zebrafish caudal fin by MS-based proteomics.
(A) Alcian blue/alizarin red stain of cartilage/bone structures in the caudal fin skeleton. Lateral images of two time points used for protein extraction (left to right: 28 dpf, 358 dpf). (B) VENN diagram of proteins selected for label-free quantification, with areas drawn to represent the number of proteins. Total number of proteins as well as distinct and common proteins are indicated for each time point. Proteins that did not qualify for label-free quantification are depicted in grey. (C) Ratio abundance plot showing log total iBAQ intensities versus log protein abundance ratio of the 358/28 dpf caudal fin region ratios of all the proteins that met the strict criteria for label-free quantification (dark grey circles, significantly differential abundant proteins at FDR = 0.05; light grey circles, no significant change in abundance). The numbers correspond to the proteins listed in 4D. (D) Table containing several of the significant differentially abundant proteins within the cranial skeleton. Specific proteins are discussed in the text.