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Gel‐free mass spectrometry analysis of Drosophila melanogaster heads
Author(s) -
Aradska Jana,
Bulat Tanja,
Sialana Fernando J.,
BirnerGruenberger Ruth,
Erich Buchner,
Lubec Gert
Publication year - 2015
Publication title -
proteomics
Language(s) - Uncategorized
Resource type - Journals
SCImago Journal Rank - 1.26
H-Index - 167
eISSN - 1615-9861
pISSN - 1615-9853
DOI - 10.1002/pmic.201500092
Subject(s) - orbitrap , proteome , chromatography , label free quantification , proteomics , chemistry , mass spectrometry , tandem mass tag , tandem mass spectrometry , membrane protein , digestion (alchemy) , bottom up proteomics , drosophila melanogaster , biochemistry , protein mass spectrometry , quantitative proteomics , membrane , gene
Membrane proteins play key roles in several fundamental biological processes such as cell signalling, energy metabolism and transport. Despite the significance, these still remain an under-represented group in proteomics datasets. Herein, a bottom-up approach to analyse an enriched membrane fraction from Drosophila melanogaster heads using multidimensional liquid chromatography (LC) coupled with tandem-mass spectrometry (MS/MS) that relies on complete solubilisation and digestion of proteins, is reported. An enriched membrane fraction was prepared using equilibrium density centrifugation on a discontinuous sucrose gradient, followed by solubilisation using the filter-aided sample preparation (FASP), tryptic and sequential chymotryptic digestion of proteins. Peptides were separated by reversed-phase (RP) LC at high pH in the first dimension and acidic RP-LC in the second dimension coupled directly to an Orbitrap Velos Pro mass spectrometer. A total number of 4812 proteins from 114 865 redundant and 38 179 distinct peptides corresponding to 4559 genes were identified in the enriched membrane fraction from fly heads. These included brain receptors, transporters and channels that are most important elements as drug targets or are linked to disease. Data are available via ProteomeXchange with identifier PXD001712 (http://proteomecentral.proteomexchange.org/dataset/PXD001712).