Preparation of Stroma, Thylakoid Membrane, and Lumen Fractions from Arabidopsis thaliana Chloroplasts for Proteomic Analysis

Methods in Molecular Biology

Volumn 775, Issue , 2011, Pages 207-222

  Hall, Michael ^a   Mishra, Yogesh ^a   Schröder, Wolfgang P ^a  

^a UMEÅ UNIVERSITY   (Sweden)

Author keywords

Arabidopsis thaliana; Lumen isolation; Stroma isolation; Thylakoid isolation; Yeda press

Indexed keywords

ARABIDOPSIS THALIANA; CHLOROPLAST; CONTROLLED STUDY; DIFFERENTIAL EXPRESSION ANALYSIS; ENZYME ACTIVITY; IMMUNOASSAY; MASS SPECTROMETRY; NATIVE POLYACRYLAMIDE GEL ELECTROPHORESIS; NONHUMAN; PLANT LEAF; STROMA; THYLAKOID MEMBRANE; TWO DIMENSIONAL DIFFERENCE GEL ELECTROPHORESIS; ARABIDOPSIS; ARTICLE; CELL FRACTIONATION; CYTOLOGY; ISOLATION AND PURIFICATION; METABOLISM; METHODOLOGY; PROTEOMICS; THYLAKOID; TWO DIMENSIONAL GEL ELECTROPHORESIS;

CHLOROPLAST PROTEIN;

ARABIDOPSIS; CELL FRACTIONATION; CHLOROPLAST PROTEINS; ELECTROPHORESIS, GEL, TWO-DIMENSIONAL; PROTEOMICS; THYLAKOIDS;

ARABIDOPSIS THALIANA;

EID: 80054770794     PISSN: 10643745     EISSN: 19406029     Source Type: Book Series    
DOI: 10.1007/978-1-61779-237-3_11     Document Type: Chapter

References (26)

1. Richly, E., and Leister, D. (2004) An improved prediction of chloroplast proteins reveals diversities and commonalities in the chloroplast proteomes of Arabidopsis and rice. Gene 329, 11–16.
2. Wilson, K. A., McManus, M. T., Gordon, M. E., and Jordan, T. W. (2002) The proteomics of senescence in leaves of white clover, Trifolium repens (L). Proteomics 2, 1114–1122.
3. Heazlewood, J. A., Verboom, R. E., Tonti-Filippini, J., Small, A., and Millar, A. H. (2007) SUBA: the Arabidopsis Subcellular Database. Nucleic Acids Res. 35, 213–218.
4. Aronsson, H., and Jarvis, P. (2002) A simple method for isolating import-competent Arabidopsis chloroplasts. FEBS Lett. 529, 215–220.
5. Schulz, A., Knoetzel, J., Scheller, H. V., and Mant, A. (2004) Uptake of a fluorescent dye as a swift and simple indicator of organelle intact-ness: import-competent chloroplasts from soil-grown Arabidopsis. J. Histochem. Cytochem. 52, 701–704.
6. Kieselbach, T., Hagman, Å., Andersson, B., and Schröder, W. P. (1998) The thylakoid lumen of chloroplasts: isolation and characterization. J. Biol. Chem. 273, 6710–6716.
7. Peltier, J.B., Cai, Y., Sun, Q., Zabrouskov, V., Giacomelli, L., Rudella, A., Ytterberg, A. J., Rutschow, H., and van Wijk, K. J. (2006) The oligomeric stromal proteome of A. thaliana chloroplasts. Mol. Cell. Proteomics 5, 114–133.
8. Goulas, E., Schubert, M., Kieselbach, T., Kleczkowski, L. A., Gardeström, P., Schröder, W. P., and Hurry, V. (2006) The chloroplast lumen and stromal proteomes of Arabidopsis thaliana show differential sensitivity to short-and long-term exposure to low temperature. Plant J. 47, 720–734.
9. Wu, C., and Yates, J. R. (2003) The application of mass spectrometry to membrane proteomics. Nat. Biotech. 21, 262–267.
10. Ort, D. R., and Yocum, C. F. (1996) Oxygenic Photosynthesis: The Light Reactions. Kluwer Academic Publishers, Dordrecht, The Netherlands.
11. Rochaix, J. D., Goldschmidt-Clermont, M., and Merchant, S. (1998) The Molecular Biology of Chloroplasts and Mitochondria in Chlamydomonas. Advances in Photosynthesis and Respiration, Vol. 7. Kluwer Academic Publishers, Dordrecht, The Netherlands.
12. Wollman, F. A., Minai, L., and Nechushtai, R. (1999) The biogenesis and assembly of photosynthetic proteins in thylakoid membranes. Biochim. Biophys. Acta 1411, 21–85.
13. Hauser, H. (2000) Short-chain phospholipids as detergents. Biochim. Biophys. Acta 1508, 164–181.
14. Mishra, Y., Hall, M., Kieselbach, T., Jansson, S., and Schröder W. P. (2010) Dissection of the real developmental acclimation strategies of Arabidopsis thaliana by comparing indoor and outdoor plants: a comparative sub cellular proteomics study (manuscript in preparation).
15. Kieselbach, T., Bystedt, M., Hynds, P., Robinson C., and Schröder, W. P. (2000) A peroxidase homologue and a novel plastocya-nin located by proteomics to the Arabidopsis chloroplast thylakoid lumen. FEBS Lett. 480, 271–276.
16. Peltier, J. B., Friso, G., Kalume, D. E., Roepstorff, P., Nilsson, F., Adamska, I., and van Wijk, K. J. (2000). Proteomics of the chloroplast: systematic identification and targeting analysis of lumenal and peripheral thylakoid proteins. Plant Cell 12, 319–341.
17. Peltier, J. B., Emanuelsson, O., Kalume, D. E., Ytterberg, J., Friso, G., Rudella, A., Liberles, D. A., Soderberg, L., Roepstorff, P., von Heijne, G., and van Wijk, K. J. (2002) Central functions of the lumenal and peripheral thylakoid proteome of Arabidopsis determined by experimentation and genome-wide prediction. Plant Cell 14, 211–236.
18. Schubert, M., Petersson, U. A., Haas, B. J., Funk, C., Schröder, W. P., and Kieselbach, T. (2002) Proteome map of the chloroplast lumen of Arabidopsis thaliana. J. Biol. Chem. 277, 8354–8365.
19. Hall, M., Mata-Cabana, A., Åkerlund, H-E., Florencio, F. J., Schröder, W. P., Lindahl, M., and Kieselbach, T. (2010) Thioredoxin targets of the plant chloroplast lumen and their implications for plastid function. Proteomics 10, 987–1001.
20. Bally, J., Paget, E., Droux, M., Job, C., Job, D., and Dubald, M. (2008) Both the stroma and thylakoid lumen of tobacco chloroplasts are competent for the formation of disulphide bonds in recombinant proteins. Plant Biotechnol. J. 6, 46–61.
21. Edvardsson, A., Shapiguzov, A., Petersson, U. A., Schröder, W. P., and Vener, A. V. (2007) Immunophilin AtFKBP13 sustains all peptidyl-prolyl isomerase activity in the thylakoid lumen from Arabidopsis thaliana deficient in AtCYP20-2. Biochemistry 46, 9432–9442.
22. Edvardsson, A., Eshaghi, S., Vener, A. V., and Andersson, B. (2003) The major peptidyl-prolyl isomerase activity in thylakoid lumen of plant chloroplasts belongs to a novel cyclophilin TLP20. FEBS Lett. 542, 137–141.
23. Ingelsson, B., Shapiguzov, A., Kieselbach, T., and Vener, A. V. (2009) Peptidyl-prolyl isom-erise activity in chloroplast thylakoid lumen is a dispensable function of immunophilins in Arabidopsis thaliana. Plant Cell Physiol. 50, 1801–1814.
24. Romano, P. G., Edvardsson, A., Ruban, A. V., Andersson, B., Vener, A. V, Gray J. E., and Horton P. (2004) Arabidopsis AtCYP20-2 is a light-regulated cyclophilin-type peptidyl-prolylcis-trans isomerase associated with the photosynthetic membranes. Plant Physiol. 134, 1244–1247.
25. Shapiguzov, A., Edvardsson, A., and Vener, A. V. (2006) Profound redox sensitivity of peptidyl-prolyl isomerase activity in Arabidopsis thylakoid lumen. FEBS Lett. 580, 3671–3676.
26. Porra, R. J., Thompson, W. A., and Kriedemann, P. E. (1989) Determination of accurate extinction coefficients and simultaneous equations for assaying chlorophylls a and b extracted with four different solvents: verification of the concentration of chlorophyll standards by atomic absorption spectroscopy. Biochim. Biophys. Acta 975, 384–394.