Definition of a RACK1 Interaction Network in Drosophila melanogaster Using SWATH-MS

G3 : Genes - Genomes - Genetics
Lauriane KuhnCarine Meignin

Abstract

Receptor for Activated protein C kinase 1 (RACK1) is a scaffold protein that has been found in association with several signaling complexes, and with the 40S subunit of the ribosome. Using the model organism Drosophila melanogaster, we recently showed that RACK1 is required at the ribosome for internal ribosome entry site (IRES)-mediated translation of viruses. Here, we report a proteomic characterization of the interactome of RACK1 in Drosophila S2 cells. We carried out Label-Free quantitation using both Data-Dependent and Data-Independent Acquisition (DDA and DIA, respectively) and observed a significant advantage for the Sequential Window Acquisition of all THeoretical fragment-ion spectra (SWATH) method, both in terms of identification of interactants and quantification of low abundance proteins. These data represent the first SWATH spectral library available for Drosophila and will be a useful resource for the community. A total of 52 interacting proteins were identified, including several molecules involved in translation such as structural components of the ribosome, factors regulating translation initiation or elongation, and RNA binding proteins. Among these 52 proteins, 15 were identified as partners by the SWATH stra...Continue Reading

References

Feb 1, 1994·Proceedings of the National Academy of Sciences of the United States of America·D RonD Mochly-Rosen
Jan 27, 1998·The Journal of Biological Chemistry·J Liliental, D D Chang
Sep 11, 2002·Proceedings of the National Academy of Sciences of the United States of America·Vincent P Mauro, Gerald M Edelman
Jan 24, 2006·Nature·Anne-Claude GavinGiulio Superti-Furga
Mar 24, 2006·Nature·Nevan J KroganJack F Greenblatt
Jun 28, 2007·Nature Reviews. Molecular Cell Biology·Anne-Claude GingrasRuedi Aebersold
Aug 21, 2007·Molecular & Cellular Proteomics : MCP·Oliver ValeriusGerhard H Braus
Feb 10, 2009·Nature Methods·Alexander WepfMatthias Gstaiger
Dec 8, 2009·Science·Sebastian KühnerAnne-Claude Gavin
Apr 20, 2010·Nature Structural & Molecular Biology·Arabinda NayakRaul Andino
Oct 12, 2010·Current Opinion in Biotechnology·Anne-Claude GavinSebastian Kühner
Oct 28, 2010·Proceedings of the National Academy of Sciences of the United States of America·Stefanie MuellerJean-Luc Imler
Jan 8, 2011·The Journal of Biological Chemistry·Feng WangMasabumi Shibuya
May 3, 2011·Cell·Ivan Topisirovic, Nahum Sonenberg
Oct 8, 2011·Cell Communication and Signaling : CCS·David R AdamsPatrick A Kiely
Nov 23, 2011·Proteomics·Lea M StaritaStanley Fields
Dec 23, 2011·Molecular & Cellular Proteomics : MCP·Ching-Yun ChangOlga Vitek
May 15, 2012·FEBS Letters·Toby J Gibson
Aug 24, 2012·PLoS Pathogens·Joël T van MierloRonald P van Rij
Nov 22, 2012·Proceedings of the National Academy of Sciences of the United States of America·Amy Si-Ying LeeSean P J Whelan
Dec 12, 2012·Journal of Structural Biology·Gyanesh SharmaJoachim Frank
Jun 12, 2013·Proceedings of the National Academy of Sciences of the United States of America·Hidehiro FukuyamaJules A Hoffmann
Jun 3, 2014·Oncogene·J-J Li, D Xie
Nov 25, 2014·Cell·Karim MajzoubJean-Luc Imler
Jan 4, 2015·Journal of Proteomics·Cecilia González-CalixtoFidel de la Cruz Hernández-Hernández
Jan 7, 2015·Molecular & Cellular Proteomics : MCP·Nathalie SelevsekRuedi Aebersold
Apr 25, 2015·Nature Reviews. Molecular Cell Biology·Maria Barna
Sep 23, 2016·Current Opinion in Virology·Nelson MartinsCarine Meignin
Nov 9, 2016·Molecular and Cellular Biology·Kerstin SchmittOliver Valerius

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Datasets Mentioned

BETA
PXD002965

Methods Mentioned

BETA
immunoprecipitation
transfection
PCR
Assay
affinity purification
co-IP
co-immunoprecipitation
electrophoresis
PCA
ubiquitination

Software Mentioned

Paragon
Mascot
SWATH
PeakView
PANTHER
MarkerView
Sciex
STRING
Proteinscape
DIA

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