Protein turnover quantification in a multi-labeling approach - from data calculation to evaluation

Trötschel C, Albaum S, Wolff D, Schröder S, Goesmann A, Nattkemper TW, Poetsch A (2012)
Molecular & Cellular Proteomics 11(8): 512-526.

Zeitschriftenaufsatz | Veröffentlicht | Englisch
 
Download
Es wurde kein Volltext hochgeladen. Nur Publikationsnachweis!
Autor/in
; ; ; ; ; ;
Abstract / Bemerkung
Liquid chromatography coupled to tandem mass spectrometry in combination with stable-isotope labeling is an established and widely spread method to measure gene expression on the protein level. However, it is often not considered that two opposing processes are responsible for the amount of a protein in a cell - the synthesis as well as the degradation. With this work, we provide an integrative, high-throughput method - from the experimental setup to the bioinformatics analysis - to measure synthesis and degradation rates of an organism's proteome. Applicability of the approach is demonstrated with an investigation of heat shock response, a well-understood regulatory mechanism in bacteria, on the biotechnologically relevant Corynebacterium glutamicum. Utilizing a multi-labeling approach using both heavy stable nitrogen as well as carbon isotopes cells are metabolically labeled in a pulse chase experiment to trace the labels' incorporation in newly synthesized proteins and its loss during protein degradation. Our work aims not only at the calculation of protein turnover rates but also at their statistical evaluation, including variance and hierarchical cluster analysis using the rich internet application QuPE.
Stichworte
Protein Synthesis; Protein Degradation; Data evaluation; Bioinformatics; Quantification; Protein Turnover; Tandem Mass Spectrometry; Algorithms
Erscheinungsjahr
2012
Zeitschriftentitel
Molecular & Cellular Proteomics
Band
11
Ausgabe
8
Seite(n)
512-526
ISSN
1535-9476
eISSN
1535-9484
Page URI
https://pub.uni-bielefeld.de/record/2498232

Zitieren

Trötschel C, Albaum S, Wolff D, et al. Protein turnover quantification in a multi-labeling approach - from data calculation to evaluation. Molecular & Cellular Proteomics. 2012;11(8):512-526.
Trötschel, C., Albaum, S., Wolff, D., Schröder, S., Goesmann, A., Nattkemper, T. W., & Poetsch, A. (2012). Protein turnover quantification in a multi-labeling approach - from data calculation to evaluation. Molecular & Cellular Proteomics, 11(8), 512-526. doi:10.1074/mcp.M111.014134
Trötschel, C., Albaum, S., Wolff, D., Schröder, S., Goesmann, A., Nattkemper, T. W., and Poetsch, A. (2012). Protein turnover quantification in a multi-labeling approach - from data calculation to evaluation. Molecular & Cellular Proteomics 11, 512-526.
Trötschel, C., et al., 2012. Protein turnover quantification in a multi-labeling approach - from data calculation to evaluation. Molecular & Cellular Proteomics, 11(8), p 512-526.
C. Trötschel, et al., “Protein turnover quantification in a multi-labeling approach - from data calculation to evaluation”, Molecular & Cellular Proteomics, vol. 11, 2012, pp. 512-526.
Trötschel, C., Albaum, S., Wolff, D., Schröder, S., Goesmann, A., Nattkemper, T.W., Poetsch, A.: Protein turnover quantification in a multi-labeling approach - from data calculation to evaluation. Molecular & Cellular Proteomics. 11, 512-526 (2012).
Trötschel, C, Albaum, Stefan, Wolff, D, Schröder, S, Goesmann, Alexander, Nattkemper, Tim Wilhelm, and Poetsch, A. “Protein turnover quantification in a multi-labeling approach - from data calculation to evaluation”. Molecular & Cellular Proteomics 11.8 (2012): 512-526.
Link(s) zu Volltext(en)
Access Level
Restricted Closed Access

Export

Markieren/ Markierung löschen
Markierte Publikationen

Open Data PUB

Web of Science

Dieser Datensatz im Web of Science®

Quellen

PMID: 22493176
PubMed | Europe PMC

Suchen in

Google Scholar