The use of analytical biochemical techniques with different separation properties allows us to better understand the proteome. To demonstrate this we have used two different methodologies to analyze embryos from a Tunisian cultivar of durum wheat (Triticum durum Desf.), variety Oum Rabiaa. We compared conventional 2D electrophoresis with liquid-phase chromatography. Our results show that a similar number of proteins were detected with both techniques. However, analysis of protein resolution at different pH ranges showed significant differences. By using a large pH gradient we observed that liquid chromatography presents higher resolution at extreme pH, either acidic or basic. Conversely, 2DE is more resolutive at intermediate pH (pH 5-6.5). Taking these results in consideration, we propose that 2DE and liquid chromatography are complementary methods to analyze complex protein extracts and can be used in parallel to acquire a wider perspective and a better understanding of the embryo proteome.