“…After reduction and carbamidomethylation the proteins were digested with trypsin (Promega, Madison, WI, USA), and the resulting peptides were separated by reverse-phase high-performance liquid chromatography (RP-HPLC) and analyzed by a hybrid LTQ-Orbitrap XL mass spectrometer (Thermo Fisher Scientific, Waltham, MA, USA) interfaced with a nanoelectrospray source (12). Mass spectra were further processed with an in-house processing pipeline (26). In brief, fragment ion mass spectra were extracted from Thermo RAW files using msconvert (ProteoWizard, version 3.0.3831), merged in one MGF file per gel and searched against a composite B. japonicum USDA 110 protein database (RefSeq NC_004463.1, 22 July 2013) containing 256 common contaminants (e.g., human keratin and trypsin).…”