The 'protein complex proteome' of chloroplasts in Arabidopsis thaliana

authored by

Christof Behrens, Christian Blume, Michael Senkler, Holger Eubel, Christoph Peterhänsel, Hans Peter Braun

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.

Organisation(s)

Institute of Botany
Section Plant Molecular Biology and Plant Proteomics
Institute of Plant Genetics

Type

Article

Journal

Journal of proteomics

Volume

91

Pages

73-83

No. of pages

11

ISSN

1874-3919

Publication date

11.07.2013

Publication status

Published

Peer reviewed

Yes

ASJC Scopus subject areas

Biophysics, Biochemistry

Electronic version(s)

https://doi.org/10.1016/j.jprot.2013.07.001 (Access: Unknown)