Figure 7.

Protein identification from head PM preparation. A - SDS PAGE analysis of proteins eluted from the ConA in a head PM preparation from ~20 g of flies. Gel is stained with colloidal coomasie blue. Asterisk - prominent ConA band that coelutes from the column, probably due to tetramer disassembly. The presence of this band prevents us from an accurate protein determination from our preparation; however we estimate there to be 50-100 μg protein on this gel. Three such preparations were combined for our MudPIT analysis. B - Pie chart showing the breakdown of protein types and compartments identified with high reliability in our MudPIT analysis. Compartment assignments were taken from annotations at Flybase.org in conjunction with our hydropathy analsysis (see text and Table 2). Plasma Membrane -integral or peripheral plasma membrane proteins; PM candidates (integral) - integral membrane proteins with no current assignment to any compartment (see text); PM candidates (peripheral) - have no predicted transmembrane domain and no currently assigned compartment (see text); Other - ribosome, cytoskeleton, synaptic vesicle, cytoplasmic; Mitochondria - mitochondrial; ER & Golgi - endoplasmic reticulum and Golgi apparatus; Lipid particles - lipid particles. Some of these may also be present in mitochondria and/or ER (see text for discussion). C - Pie chart showing the functional annotation of proteins identified in the plasma membrane fraction in B. 78% are associated with cell surface activities (Cell adhesion, Ion transport, Neurotransmission, Signal Transduction). See Additional File 5 for the specific assignment of each protein.