Label-free protein quantification for plant Golgi protein localization and abundance.
Nino NikolovskiPavel V ShliahaLaurent GattoPaul DupreeKathryn S LilleyPublished in: Plant physiology (2014)
The proteomic composition of the Arabidopsis (Arabidopsis thaliana) Golgi apparatus is currently reasonably well documented; however, little is known about the relative abundances between different proteins within this compartment. Accurate quantitative information of Golgi resident proteins is of great importance: it facilitates a better understanding of the biochemical processes that take place within this organelle, especially those of different polysaccharide synthesis pathways. Golgi resident proteins are challenging to quantify because the abundance of this organelle is relatively low within the cell. In this study, an organelle fractionation approach targeting the Golgi apparatus was combined with a label-free quantitative mass spectrometry (data-independent acquisition method using ion mobility separation known as LC-IMS-MS(E) [or HDMS(E)]) to simultaneously localize proteins to the Golgi apparatus and assess their relative quantity. In total, 102 Golgi-localized proteins were quantified. These data show that organelle fractionation in conjunction with label-free quantitative mass spectrometry is a powerful and relatively simple tool to access protein organelle localization and their relative abundances. The findings presented open a unique view on the organization of the plant Golgi apparatus, leading toward unique hypotheses centered on the biochemical processes of this organelle.
Keyphrases
- label free
- endoplasmic reticulum
- mass spectrometry
- high resolution
- liquid chromatography
- arabidopsis thaliana
- electronic health record
- protein protein
- multiple sclerosis
- stem cells
- binding protein
- high performance liquid chromatography
- big data
- small molecule
- cell therapy
- capillary electrophoresis
- healthcare
- drug delivery
- solid phase extraction