Protein Fingerprinting *

Abstract

First came the Human Genome Project and now (drum roll please) the Human Proteome Project. Confused? Not surprising as the Human Proteome Project has not received the kind of press that the Human Genome Project did. Nonetheless it is a major, and potentially important, scientific undertaking. Just as the genome is the complete set of an organism's DNA, the proteome is all the proteins expressed in an organism. Why study the proteome? It is because proteins are the work horses of biological systems, performing all of the biochemical functions necessary to maintain cellular metabolism, architecture, and growth. Different tissues are made up of certain cell types that each have a unique population of proteins that make up the cellular environment. Because of this, different cell types have a unique protein profile, or fingerprint. That profile may change over time, for example babies and elderly adults may have different brain proteomes, or due to other conditions like diseases. Diseases, like cancer, can cause major changes in the protein profile. This is exactly the point of the Human Proteome Project, once you know what is normal versus abnormal you can do a better job of understanding the normal state, and diagnosing (and even treating) disease states. Watch the video to see how one of the participants in the Human Proteome Project, Dr. Joshua LaBaer, Director of the Biodesign Institute at Arizona State, highlights the role of proteomics.

Want to try your own hand at proteomics? If so, the Comparative Proteomics Kit I: Protein Profiler Module from the Bio-Rad Biotechnology Explorer Program is a good starting place. With this kit you can purify protein extract from different tissue sources, run the protein out on a gel (as shown in Figure 1, below), and compare the banding patterns of prominent cellular proteins between your samples. You can follow the kit instructions to examine muscle proteins purified from different fish species. Can you identify similarities and differences in these organisms' protein profiles, or fingerprints? Which species have the most similar muscle protein profile? Compare the fish protein profiles against an evolutionary tree. Do the data agree? What explanations can you suggest? You can also try this kit on muscle from other species, which you can buy at the grocery store. Use lean cuts of beef, pork, chicken, or lamb. Another idea is to compare the protein profiles of different parts of the body, like chicken muscle, chicken heart, chicken liver, egg white. Do the different cell types have similar or different protein profiles? A further idea would be to use the kit to investigate if the protein profile of a tissue source changes after being treated with some type of chemical or biochemical compound.

Figure 1. Using the Comparative Proteomics Kit I: Protein Profiler Module, you can compare the banding patterns of muscle proteins from different fish species on a gel, like the one shown here. (Photo courtesy of Bio-Rad Laboratories, Inc.)

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