Abstract
OMICs-based investigations of microorganisms are becoming more and more widespread in the upcoming era of systems and synthetic biology. Here, proteomics plays a key role and two-dimensional difference gel electrophoresis (2D DIGE) remains the “gold-standard” for globally determining protein abundance changes on a quantitative and statistically confident level—in particular also for laboratories not having full-cycle proteomic facilities at their disposal. In this contribution we summarize our methodological procedures and experiences with 2D DIGE accumulated over the past 15 years.
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Wöhlbrand L, Trautwein K, Rabus R (2013) Proteomic tools for environmental microbiology—a roadmap from sample preparation to protein identification and quantification. Proteomics 13(18–19):2700–2730
Rabus R, Trautwein K, Wöhlbrand L (2014) Towards habitat-oriented systems biology of “Aromatoleum aromaticum” EbN1: chemical sensing, catabolic network modulation and growth control in anaerobic aromatic compound degradation. Appl Microbiol Biotechnol 98(8):3371–3388
Rabus R (2014) Fifteen years of physiological proteo(geno)mics with (marine) environmental bacteria. Arch Physiol Biochem 120(5):173–187
Rabilloud T, Chevallet M, Luche S, Lelong C (2010) Two-dimensional gel electrophoresis in proteomics: past, present and future. J Proteome 73(11):2064–2077
Görg A, Obermaier C, Boguth G, Harder A, Scheibe B, Wildgruber R, Weiss W (2000) The current state of two-dimensional electrophoresis with immobilized pH gradients. Electrophoresis 21(6):1037–1053
Görg A, Weiss W, Dunn MJ (2004) Current two-dimensional electrophoresis technology for proteomics. Proteomics 4(12):3665–3685
Hoving S, Voshol H, van Oostrum J (2000) Towards high performance two-dimensional gel electrophoresis using ultrazoom gels. Electrophoresis 21(13):2617–2621
Ünlü M, Morgan ME, Minden JS (1997) Difference gel electrophoresis: a single gel method for detecting changes in protein extracts. Electrophoresis 18(11):2071–2077
Gade D, Thiermann J, Markowsky D, Rabus R (2003) Evaluation of two-dimensional difference gel electrophoresis for protein profiling. Soluble proteins of the marine bacterium Pirellula sp. strain 1. J Mol Microbiol Biotechnol 5(4):240–251
Rabus R, Trautwein K (2010) Proteogenomics to study the anaerobic degradation of aromatic compounds and hydrocarbons. In: Timmis KN (ed) Handbook of hydrocarbon and lipid microbiology. Springer, Berlin, pp 4385–4405
Neuhoff V, Arold N, Taube D, Ehrhardt W (1988) Improved staining of proteins in polyacrylamide gels including isoelectric focusing gels with clear background at nanogram sensitivity using Coomassie Brilliant Blue G-250 and R-250. Electrophoresis 9(6):255–262
Strijkstra A, Trautwein K, Roesler S, Feenders C, Danzer D, Riemenschneider U, Blasius B, Rabus R (2016) High performance CCD camera system for digitalization of 2D DIGE gels. Proteomics 16(14):1975–1979
Zech H, Echtermeyer C, Wöhlbrand L, Blasius B, Rabus R (2011) Biological versus technical variability in 2-D DIGE experiments with environmental bacteria. Proteomics 11(16):3380–3389
Acknowledgment
Proteomic research (incl. DIGE) in our laboratory was supported by the German Federal Ministry of Education and Research BMBF (REGX-project), the Max Planck Society, and the Deutsche Forschungsgemeinschaft (SPP 1319, SFB TRR 51, GRK 1885).
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Trautwein, K., Rabus, R. (2018). Applications of Difference Gel Electrophoresis (DIGE) in the Study of Microorganisms. In: Becher, D. (eds) Microbial Proteomics. Methods in Molecular Biology, vol 1841. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-8695-8_8
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DOI: https://doi.org/10.1007/978-1-4939-8695-8_8
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