Targeted proteomics to study mitochondrial biologyWolters, J. C., Permentier, H., Bakker, B. & Bischoff, R., 30-Aug-2019, Targeted proteomics to study mitochondrial biology. Springer Singapore, p. 101-117 17 p. (Advances in Experimental Medicine and Biology; vol. 1158).
Research output: Chapter in Book/Report/Conference proceeding › Chapter › Academic › peer-review
Targeted mass spectrometry in the selected or parallel reaction monitoring (SRM or PRM) mode is a widely used methodology to quantify proteins based on so-called signature or proteotypic peptides. SRM has the advantage of being able to quantify a range of proteins in a single analysis, for example, to measure the level of enzymes comprising a biochemical pathway. In this chapter, we will detail how to set up an SRM assay on the example of the mitochondrial protein succinate dehydrogenase [ubiquinone] flavoprotein subunit (mouse UniProt-code Q8K2B3). First, we will outline the in silico assay design including the choice of peptides based on a range of properties. We will further delineate different quantification strategies and introduce the reader to LC-MS assay development including the selection of the optimal peptide charge state and fragment ions as well as a discussion of the dynamic range of detection. The chapter will close with an application from the area of mitochondrial biology related to the quantification of a set of proteins isolated from mouse liver mitochondria in a study on mitochondrial respiratory flux decline in aging mouse muscle.
|Title of host publication||Targeted proteomics to study mitochondrial biology|
|Number of pages||17|
|Publication status||Published - 30-Aug-2019|
|Name||Advances in Experimental Medicine and Biology|
- Targeted proteomics, mitochondria, mass spectrometry, protein quantification