Reliability and Reproducibility of 2- Dimensional Electrophoresis in Determining the Standard Protein Profile of Healthy Rabbit Chondrocytes

Differential proteome analysis is important to determine the differences of protein expressed between two or more sample conditions. An analytical strategy to overcome variation between samples was also needed to ensure that future extrapolated data would not result in misleading conclusions. Therefore, in this study, we determined to measure the reproducibility of the observed spot patterns among technical replicates as well as biological replicates in the proteome of rabbit chondrocytes. Two-dimensional electrophoresis (2-DE) of chondrocyte intracellular protein was carried out in replicates from related and unrelated-sources of healthy adult rabbits. Following analyses (n=9), average matching intrasample (within the same rabbit) gel patterns was 52.89% ± 8.18% (SD) in relation to spot volume percentage. Conversely, the average matching of the inter-sample (different rabbit) gel patterns was 32.20% ± 11.45% (SD). We can therefore conclude that the proteome mapping established using adult rabbit chondrocytes proved reliable and highly accurate in determining the presence of high abundance proteins.