Comparisons of protein extraction procedures and quantification methods for the proteomic analysis of Gram-positive Paenibacillus sp. strain D9

Four protein extraction methods and three protein quantification techniques were compared with Paenibacillus sp. whole cells. Proteins were extracted using conventional cell disruption techniques encompassing: sonication and glass bead vortexing, as well as BugBuster Master Mix extraction and Total Protein Kit extraction. The Bradford assay, Folin-Lowry assay and UV absorbance at 280 nm were used for protein quantification methods. Differences in protein profiles were examined by 2D-PAGE and subsequently analysed using PDQuest Advanced 2D Analysis software. All extraction methods revealed proteins over broad molecular weight range. UV absorbance at 280 nm using the NanoDrop™1000 and the Bradford assay yielded best quantification results. Rapid and effective disruption and quantification of Paenibacillus sp. strain D9 cells was successfully achieved using the combination of Total Protein Extraction Kit-UV280 followed by BugBuster Master-UV280.