Details
| Original language | English |
|---|---|
| Pages (from-to) | 73-83 |
| Number of pages | 11 |
| Journal | Journal of proteomics |
| Volume | 91 |
| Publication status | Published - 11 Jul 2013 |
Abstract
Here, a first GelMap of the chloroplast "protein complex proteome" of Arabidopsis thaliana is presented. The GelMap software tool allows assigning multiple proteins to gel spots, thereby taking advantage of the high sensitivity of state-of-the-art mass spectrometry systems. Furthermore, the software allows functional annotation of all identified proteins. If applied to a 2D blue native (BN)/SDS gel, GelMap can selectively display protein complexes of low abundance. For the chloroplast GelMap, highly purified organelles were separated by 2D BN/SDS PAGE and spots were automatically detected using Delta 2D software. Within 287 spots, a total of 1841 proteins were identified (on average 6.4 proteins per spot), representing a set of 436 non redundant proteins. Most of these proteins form part of protein complexes. The quality of the map is reflected by its inclusion of a more or less complete set of protein complexes described for chloroplasts in the literature. The GelMap is publically available at www.gelmap.de/arabidopsis-chloro and may be used as a resource for identifying novel protein complexes within any of its functional categories. Biological significance: The chloroplast GelMap represents a data resource for the definition of protein complexes in the model plant A. thaliana. It should be useful for in depth understanding of chloroplast biochemistry, as illustrated by the discovery of so far unknown protein complexes. The GelMap is publically available at www.gelmap.de/arabidopsis-chloro.
Keywords
- Arabidopsis thaliana, Blue native, Chloroplast, GelMap, Protein complex
ASJC Scopus subject areas
- Biochemistry, Genetics and Molecular Biology(all)
- Biophysics
- Biochemistry, Genetics and Molecular Biology(all)
- Biochemistry
Cite this
- Standard
- Harvard
- Apa
- Vancouver
- BibTeX
- RIS
In: Journal of proteomics, Vol. 91, 11.07.2013, p. 73-83.
Research output: Contribution to journal › Article › Research › peer review
}
TY - JOUR
T1 - The 'protein complex proteome' of chloroplasts in Arabidopsis thaliana
AU - Behrens, Christof
AU - Blume, Christian
AU - Senkler, Michael
AU - Eubel, Holger
AU - Peterhänsel, Christoph
AU - Braun, Hans Peter
N1 - Funding information: We thank Dagmar Lewejohann and Marianne Langer for expert technical assistance and Joanna Melonek and Jennifer Klodmann for helpful discussions. This research project was financially supported by the State of Lower-Saxony and the Volkswagen Foundation, Hannover, Germany (Project VWZN2326) .
PY - 2013/7/11
Y1 - 2013/7/11
N2 - Here, a first GelMap of the chloroplast "protein complex proteome" of Arabidopsis thaliana is presented. The GelMap software tool allows assigning multiple proteins to gel spots, thereby taking advantage of the high sensitivity of state-of-the-art mass spectrometry systems. Furthermore, the software allows functional annotation of all identified proteins. If applied to a 2D blue native (BN)/SDS gel, GelMap can selectively display protein complexes of low abundance. For the chloroplast GelMap, highly purified organelles were separated by 2D BN/SDS PAGE and spots were automatically detected using Delta 2D software. Within 287 spots, a total of 1841 proteins were identified (on average 6.4 proteins per spot), representing a set of 436 non redundant proteins. Most of these proteins form part of protein complexes. The quality of the map is reflected by its inclusion of a more or less complete set of protein complexes described for chloroplasts in the literature. The GelMap is publically available at www.gelmap.de/arabidopsis-chloro and may be used as a resource for identifying novel protein complexes within any of its functional categories. Biological significance: The chloroplast GelMap represents a data resource for the definition of protein complexes in the model plant A. thaliana. It should be useful for in depth understanding of chloroplast biochemistry, as illustrated by the discovery of so far unknown protein complexes. The GelMap is publically available at www.gelmap.de/arabidopsis-chloro.
AB - Here, a first GelMap of the chloroplast "protein complex proteome" of Arabidopsis thaliana is presented. The GelMap software tool allows assigning multiple proteins to gel spots, thereby taking advantage of the high sensitivity of state-of-the-art mass spectrometry systems. Furthermore, the software allows functional annotation of all identified proteins. If applied to a 2D blue native (BN)/SDS gel, GelMap can selectively display protein complexes of low abundance. For the chloroplast GelMap, highly purified organelles were separated by 2D BN/SDS PAGE and spots were automatically detected using Delta 2D software. Within 287 spots, a total of 1841 proteins were identified (on average 6.4 proteins per spot), representing a set of 436 non redundant proteins. Most of these proteins form part of protein complexes. The quality of the map is reflected by its inclusion of a more or less complete set of protein complexes described for chloroplasts in the literature. The GelMap is publically available at www.gelmap.de/arabidopsis-chloro and may be used as a resource for identifying novel protein complexes within any of its functional categories. Biological significance: The chloroplast GelMap represents a data resource for the definition of protein complexes in the model plant A. thaliana. It should be useful for in depth understanding of chloroplast biochemistry, as illustrated by the discovery of so far unknown protein complexes. The GelMap is publically available at www.gelmap.de/arabidopsis-chloro.
KW - Arabidopsis thaliana
KW - Blue native
KW - Chloroplast
KW - GelMap
KW - Protein complex
UR - http://www.scopus.com/inward/record.url?scp=84881270213&partnerID=8YFLogxK
U2 - 10.1016/j.jprot.2013.07.001
DO - 10.1016/j.jprot.2013.07.001
M3 - Article
C2 - 23851315
AN - SCOPUS:84881270213
VL - 91
SP - 73
EP - 83
JO - Journal of proteomics
JF - Journal of proteomics
SN - 1874-3919
ER -