HUPO 4th Annual World Congress
Although promising approaches during the past decade, the availability of publicly accessible databases of rat liver proteins became limited. Since emerging proteomic technologies still depend on data generated by two-dimensional electrophoresis (2-DE), we decided to establish a new 2-DE map of male Wistar rat liver proteins in the context of a molecular toxicological joint research project. This information is useful to quickly retrieve protein information from 2-DE experiments. 2-DE separation was performed using the common IPG technique. Spots were excised from 2-D gels using a spot picker (ProPic, Genomic Solutions) and the proteins were identified after in-gel digestion with trypsin by using peptide mass fingerprint (MALDI-TOF-MS) and Tandem MS (LC-ESI-Quad-TOF). At present, the map contains about 621 proteins and could be the basis for a publicly accessible HTML-database, providing information to identify protein expression patterns of toxicological relevance. Protein spots are linked with detailed information, i.e. protein identity, EC-number, function, localization and molecular weight. Among the annotated protein spots we found several of proteins with relevance to mechanistic toxicological endpoints and some of them are well known as toxicological marker proteins. Furthermore we could assign many of them to toxicological categories like DNA damage response, detoxification, stress response or apoptosis. Expression patterns of marker proteins could contribute mechanistic data to assess toxic and carcinogenic effects of chemicals in short-term rodent bioassays. In perspective, our data should be integrated in comprehensive, publicly available toxicogenomic databases.