title: Optimisation of protein extraction and 2-DE for metaproteomics of microbial communities from anaerobic wastewater treatment biofilms.
abstract: The feasibility of metaproteomic analysis of the microbial communities underpinning anaerobic wastewater treatment relies on efficient protein extraction and separation techniques. The microorganisms involved in anaerobic digestion (AD) of wastewater typically aggregate to form tightly organised, spherical granules, from which protein extraction is challenging. Here, we compare two methods of protein extraction, one using a French press previously used successfully to analyse the proteome of an activated sludge [Wilmes, P., Bond, P. L., Environ. Microbiol. 2004, 6, 911-920.] and one using sonication developed in the context of pure culture [Abram, F., Wan-Lin, S., Wiedmann, M., Boor, K. J., Coote, P., Botting, C., Karatzas, K. A. G., O'Byrne, C. P., Appl. Environ. Microbiol. 2008, 74, 594-604.]. We used 2-DE to carry out this comparison. The protein extraction using the sonication method resulted in a significant increase in the number of protein spots and higher quality 2-D gels.
authors: Department of Microbiology, School of Natural Sciences, National University of Ireland, Galway, Ireland.
authors: Florence
authors: F
authors: Abram
authors: Eoin
authors: E
authors: Gunnigle
authors: Vincent
authors: V
authors: O'Flaherty
mesh_terms: D000693:Anaerobiosis; D018441:Biofilms; D002458:Cell Fractionation / Q000379:methods; D015180:Electrophoresis, Gel, Two-Dimensional / Q000379:methods*; D011506:Proteins / Q000302:isolation & purification*; D040901:Proteomics / Q000379:methods*; D012722:Sewage / Q000382:microbiology*; D013010:Sonication / Q000379:methods
chemical_list: D011506:Proteins; D012722:Sewage