Shin2020 | R Documentation |
Data from 'Spatial proteomics defines the content of trafficking vesicles captured by golgin tethers'
Intracellular traffic between compartments of the secretory and endocytic pathways is mediated by vesicle-based carriers. The precise and complete proteomes of carriers destined for many organelles are ill-defined because the vesicular intermediates are transient, low-abundance and difficult to purify. Here, we combine vesicle relocalisation with organelle proteomics and Bayesian analysis to define the content of different endosome-derived vesicles destined for the trans-Golgi network (TGN). The golgin coiled-coil proteins golgin-97, golgin-245 and GCC88, shown previously to capture endosome-derived vesicles at the TGN, were individually relocalised to mitochondria and the content of subsequently re-routed vesicles was determined by organelle proteomics. Our findings revealed 45 integral and 51 peripheral membrane proteins re-routed by golgin-97, evidence for a distinct class of vesicles shared by golgin-97 and GCC88, and various cargoes specific to individual golgins. These results illustrate a general strategy for analysing intracellular sub-proteomes by combining acute cellular re-wiring with high-resolution spatial proteomics.
data("Shin2019MitoControlrep1")
data("Shin2019MitoGcc88rep1")
data("Shin2019MitoGol97rep1")
The data is an instance of class MSnSet
from package
MSnbase
.
Spatial proteomics defines the content of trafficking vesicles captured by golgin tethers. John J.H. Shin, Oliver M. Crook, Alicia C. Borgeaud, Jerome Cattin-Ortola, Sew-Yeu Peak- Chew, Jessica Chadwick, Kathryn S. Lilley, Sean Munro.
data(Shin2019MitoControlrep1)
Shin2019MitoControlrep1
pData(Shin2019MitoControlrep1)
exprs(Shin2019MitoControlrep1)[1:3,1:3]
library("pRoloc")
plot2D(Shin2019MitoControlrep1, main = "Shin 2019 HeK 293T WT")
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