Table II. Evaluation of the six extraction protocols compatible with liquid digestion and mass spectrometry in terms of yield, sample recovery, detection of flagellin, and OspC peptides.
The detection was performed in infected mouse skin biopsies using the first SRM method (M1). The number of crosses (+) indicates the number of detected peptides per protein. − indicates an absence of detection. FASP, filter-aided sample preparation.
| Yield | Sample recovery | OspC detection | Flagellin detection | |
|---|---|---|---|---|
| μg protein/mg skin biopsy | % | |||
| RapiGest | 109 | 84 | +++ | + |
| DOC | 96 | 36 | +++ | + |
| Urea | 100 | 85 | ++ | + |
| Octyl glucoside with a precipitation step | 34 | 61 | +++ | − |
| FASP | 162 | Not evaluated | − | − |
| SDS with a precipitation step | 186 | 15 | − | − |