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Central functions of the lumenal and peripheral thylakoid proteome of Arabidopsis determined by experimentation and genome-wide prediction
Stockholms universitet.ORCID iD: 0000-0002-8879-9245
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2002 (English)In: The Plant Cell, ISSN 1040-4651, E-ISSN 1532-298X, Vol. 14, no 1, 211-236 p.Article in journal (Refereed) Published
Abstract [en]

Experimental proteome analysis was combined with a genome-wide prediction screen to characterize the protein content of the thylakoid lumen of Arabidopsis chloroplasts. Soluble thylakoid proteins were separated by two-dimensional electrophoresis and identified by mass spectrometry. The identities of 81 proteins were established, and N termini were sequenced to validate localization prediction. Gene annotation of the identified proteins was corrected by experimental data, and an interesting case of alternative splicing was discovered. Expression of a surprising number of paralogs was detected. Expression of five isomerases of different classes suggests strong (un)folding activity in the thylakoid lumen. These isomerases possibly are connected to a network of peripheral and lumenal proteins involved in antioxidative response, including peroxiredoxins, m-type thioredoxins, and a lumenal ascorbate peroxidase. Characteristics of the experimentally identified lumenal proteins and their orthologs were used for a genome-wide prediction of the lumenal proteome. Lumenal proteins with a typical twin-arginine translocation motif were predicted with good accuracy and sensitivity and included additional isomerases and proteases. Thus, prime functions of the lumenal proteome include assistance in the folding and proteolysis of thylakoid proteins as well as protection against oxidative stress. Many of the predicted lumenal proteins must be present at concentrations at least 10,000-fold lower than proteins of the photosynthetic apparatus.

Place, publisher, year, edition, pages
2002. Vol. 14, no 1, 211-236 p.
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Bioinformatics and Systems Biology
URN: urn:nbn:se:kth:diva-50446DOI: 10.1105/tpc.010304ISI: 000173687000016PubMedID: 11826309OAI: diva2:461893
QC 20111207Available from: 2011-12-05 Created: 2011-12-05 Last updated: 2011-12-07Bibliographically approved

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Emanuelsson, OlofSöderberg, LindaRoepstorff, Petervon Heijne, Gunnar
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