Figure 2.

Protein profiles in neuronal cell bodies and axons measured by proteomics. The quantified-quantified (Q-Q) Scatterplot of proteins (A) was generated by a Scaffold Viewer software based on protein extracts from cell body (Y axis) and axonal (X axis) compartments on DIV5. The numbers in X and Y axis are the normalized spectral counts which represent the relative content of proteins. The dots show the identified proteins exclusively in axon (green), cell body (red) and both (blue). The 45 degree line indicates the same abundance of proteins in cell body and axonal compartments, while the two dash lines show proteins with the two standard deviations above and below the 45 degree line. Red and green dots plotted outside the standard deviation lines likely represent that proteins were differentially expressed in cell body and axonal compartments, respectively. Panel B lists representative proteins exclusively detected in cell body (red) or axonal (green) compartment within the boxed area in panel A. Listed proteins exclusively in cell body compartment are nuclear proteins, while listed proteins in axonal compartment are involved in regulating axonal growth. As noted, PDE5 protein was detected in both cell body and axonal compartments (a yellow dot in B). A venn diagram of proteins (C) shows the total number of proteins identified in axon (green), cell body (red) and both (yellow).