Proteomics Publications from van Wijk Lab:

PMID18633119 PROTEINS: Rutschow H; Ytterberg AJ; Friso G; Nilsson R; van Wijk KJ (2008) Quantitative proteomics of a chloroplast SRP54 sorting mutant and its genetic interactions with CLPC1 in Arabidopsis thaliana. Plant Physiol :

PMID18431481 PROTEINS: Zybailov B; Rutschow H; Friso G; Rudella A; Emanuelsson O; Sun Q; van Wijk KJ (2008) Sorting signals, N-terminal modifications and abundance of the chloroplast proteome. PLoS ONE 3:e1994

PMID16648217 PROTEINS: Giacomelli L; Rudella A; van Wijk KJ (2006) High light response of the thylakoid proteome in arabidopsis wild type and the ascorbate-deficient mutant vtc2-2. A comparative proteomics study. Plant Physiol 141:685-701

PMID16461379 PROTEINS: Ytterberg AJ; Peltier JB; van Wijk KJ (2006) Protein profiling of plastoglobules in chloroplasts and chromoplasts. A surprising site for differential accumulation of metabolic enzymes. Plant Physiol 140:984-97

PMID16207701 PROTEINS: Peltier JB; Cai Y; Sun Q; Zabrouskov V; Giacomelli L; Rudella A; Ytterberg AJ; Rutschow H; van Wijk KJ (2006) The oligomeric stromal proteome of Arabidopsis thaliana chloroplasts. Mol Cell Proteomics 5:114-33

PMID15322131 PROTEINS: Peltier JB; Ytterberg AJ; Sun Q; van Wijk KJ (2004) New functions of the thylakoid membrane proteome of Arabidopsis thaliana revealed by a simple, fast, and versatile fractionation strategy. J Biol Chem 279:49367-83

PMID14729914 PROTEINS: Friso G; Giacomelli L; Ytterberg AJ; Peltier JB; Rudella A; Sun Q; Wijk KJ (2004) In-depth analysis of the thylakoid membrane proteome of Arabidopsis thaliana chloroplasts: new proteins, new functions, and a plastid proteome database. Plant Cell 16:478-99

PMID14593120 PROTEINS: Peltier JB; Ripoll DR; Friso G; Rudella A; Cai Y; Ytterberg J; Giacomelli L; Pillardy J; van Wijk KJ (2004) Clp protease complexes from photosynthetic and non-photosynthetic plastids and mitochondria of plants, their predicted three-dimensional structures, and functional implications. J Biol Chem 279:4768-81

PMID11826309 PROTEINS: Peltier JB; Emanuelsson O; Kalume DE; Ytterberg J; Friso G; Rudella A; Liberles DA; Soderberg L; Roepstorff P; von Heijne G; van Wijk KJ (2002) Central functions of the lumenal and peripheral thylakoid proteome of Arabidopsis determined by experimentation and genome-wide prediction. Plant Cell 14:211-36

Othere Proteomics Publications:

PMID18385124 PROTEINS: Lee CP; Eubel H; O'Toole N; Millar AH (2008) Heterogeneity of the mitochondrial proteome for photosynthetic and non-photosynthetic Arabidopsis metabolism. Mol Cell Proteomics 7:1297-316

PMID18599647 PROTEINS: Rajjou L; Lovigny Y; Groot SP; Belghazi M; Job C; Job D (2008) Proteome-wide characterization of seed aging in Arabidopsis. A comparison between artificial and natural aging protocols. Plant Physiol :

PMID18538804 PROTEINS: Bindschedler LV; Palmblad M; Cramer R (2008) Hydroponic isotope labelling of entire plants (HILEP) for quantitative plant proteomics; an oxidative stress case study. Phytochemistry 69:1962-72

PMID18463617 PROTEINS: Sugiyama N; Nakagami H; Mochida K; Daudi A; Tomita M; Shirasu K; Ishihama Y (2008) Large-scale phosphorylation mapping reveals the extent of tyrosine phosphorylation in Arabidopsis. Mol Syst Biol 4:193

PMID18385124 PROTEINS: Lee CP; Eubel H; O'Toole N; Millar AH (2008) Heterogeneity of the mitochondrial proteome for photosynthetic and non-photosynthetic Arabidopsis metabolism. Mol Cell Proteomics 7:1297-316

PMID17951448 PROTEINS: Reumann S; Babujee L; Ma C; Wienkoop S; Siemsen T; Antonicelli GE; Rasche N; Luder F; Weckwerth W; Jahn O (2007) Proteome analysis of Arabidopsis leaf peroxisomes reveals novel targeting peptides, metabolic pathways, and defense mechanisms. Plant Cell 19:3170-93

PMID17934214 PROTEINS: Carroll AJ; Heazlewood JL; Ito J; Millar AH (2008) Analysis of the Arabidopsis cytosolic ribosome proteome provides detailed insights into its components and their post-translational modification. Mol Cell Proteomics 7:347-69

PMID17916636 PROTEINS: Jiang Y; Yang B; Harris NS; Deyholos MK (2007) Comparative proteomic analysis of NaCl stress-responsive proteins in Arabidopsis roots. J Exp Bot 58:3591-607

PMID17848588 PROTEINS: Deng Z; Zhang X; Tang W; Oses-Prieto JA; Suzuki N; Gendron JM; Chen H; Guan S; Chalkley RJ; Peterman TK; Burlingame AL; Wang ZY (2007) A proteomics study of brassinosteroid response in Arabidopsis. Mol Cell Proteomics 6:2058-71

PMID17828791 PROTEINS: Espagne C; Martinez A; Valot B; Meinnel T; Giglione C (2007) Alternative and effective proteomic analysis in Arabidopsis. Proteomics 7:3788-99

PMID17660356 PROTEINS: Schmidt UG; Endler A; Schelbert S; Brunner A; Schnell M; Neuhaus HE; Marty-Mazars D; Marty F; Baginsky S; Martinoia E (2007) Novel tonoplast transporters identified using a proteomic approach with vacuoles isolated from cauliflower buds. Plant Physiol 145:216-29

PMID17644812 PROTEINS: Marmagne A; Ferro M; Meinnel T; Bruley C; Kuhn L; Garin J; Barbier-Brygoo H; Ephritikhine G (2007) A high content in lipid-modified peripheral proteins and integral receptor kinases features in the arabidopsis plasma membrane proteome. Mol Cell Proteomics 6:1980-96

PMID17526915 PROTEINS: Minic Z; Jamet E; Negroni L; Arsene der Garabedian P; Zivy M; Jouanin L (2007) A sub-proteome of Arabidopsis thaliana mature stems trapped on Concanavalin A is enriched in cell wall glycoside hydrolases. J Exp Bot 58:2503-12

PMID17432890 PROTEINS: Mitra SK; Gantt JA; Ruby JF; Clouse SD; Goshe MB (2007) Membrane proteomic analysis of Arabidopsis thaliana using alternative solubilization techniques. J Proteome Res 6:1933-50

PMID17407188 PROTEINS: Chitteti BR; Peng Z (2007) Proteome and phosphoproteome dynamic change during cell dedifferentiation in Arabidopsis. Proteomics 7:1473-500

PMID17317660 PROTEINS: Benschop JJ; Mohammed S; O'Flaherty M; Heck AJ; Slijper M; Menke FL (2007) Quantitative phosphoproteomics of early elicitor signaling in Arabidopsis. Mol Cell Proteomics 6:1198-214

PMID17293592 PROTEINS: Huttlin EL; Hegeman AD; Harms AC; Sussman MR (2007) Comparison of full versus partial metabolic labeling for quantitative proteomics analysis in Arabidopsis thaliana. Mol Cell Proteomics 6:860-81

PMID17272265 PROTEINS: Maor R; Jones A; Nuhse TS; Studholme DJ; Peck SC; Shirasu K (2007) Multidimensional protein identification technology (MudPIT) analysis of ubiquitinated proteins in plants. Mol Cell Proteomics 6:601-10

PMID17151019 PROTEINS: Jaquinod M; Villiers F; Kieffer-Jaquinod S; Hugouvieux V; Bruley C; Garin J; Bourguignon J (2007) A proteomics dissection of Arabidopsis thaliana vacuoles isolated from cell culture. Mol Cell Proteomics 6:394-412

PMID17137349 PROTEINS: Ito J; Heazlewood JL; Millar AH (2006) Analysis of the soluble ATP-binding proteome of plant mitochondria identifies new proteins and nucleotide triphosphate interactions within the matrix. J Proteome Res 5:3459-69

PMID17075075 PROTEINS: Roth U; von Roepenack-Lahaye E; Clemens S (2006) Proteome changes in Arabidopsis thaliana roots upon exposure to Cd2+. J Exp Bot 57:4003-13

PMID17028151 PROTEINS: Jones AM; Thomas V; Bennett MH; Mansfield J; Grant M (2006) Modifications to the Arabidopsis defense proteome occur prior to significant transcriptional change in response to inoculation with Pseudomonas syringae. Plant Physiol 142:1603-20

PMID17028149 PROTEINS: Chibani K; Ali-Rachedi S; Job C; Job D; Jullien M; Grappin P (2006) Proteomic analysis of seed dormancy in Arabidopsis. Plant Physiol 142:1493-510

PMID16923014 PROTEINS: Goulas E; Schubert M; Kieselbach T; Kleczkowski LA; Gardestrom P; Schroder W; 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 47:720-34

PMID16807317 PROTEINS: de la Fuente van Bentem S; Anrather D; Roitinger E; Djamei A; Hufnagl T; Barta A; Csaszar E; Dohnal I; Lecourieux D; Hirt H (2006) Phosphoproteomics reveals extensive in vivo phosphorylation of Arabidopsis proteins involved in RNA metabolism. Nucleic Acids Res 34:3267-78

PMID16679420 PROTEINS: Rajjou L; Belghazi M; Huguet R; Robin C; Moreau A; Job C; Job D (2006) Proteomic investigation of the effect of salicylic acid on Arabidopsis seed germination and establishment of early defense mechanisms. Plant Physiol 141:910-23

PMID16619310 PROTEINS: Fuller B; Stevens SM Jr; Sehnke PC; Ferl RJ (2006) Proteomic analysis of the 14-3-3 family in Arabidopsis. Proteomics 6:3050-9

PMID16618929 PROTEINS: Dunkley TP; Hester S; Shadforth IP; Runions J; Weimar T; Hanton SL; Griffin JL; Bessant C; Brandizzi F; Hawes C; Watson RB; Dupree P; Lilley KS (2006) Mapping the Arabidopsis organelle proteome. Proc Natl Acad Sci U S A 103:6518-23

PMID16602701 PROTEINS: Elortza F; Mohammed S; Bunkenborg J; Foster LJ; Nuhse TS; Brodbeck U; Peck SC; Jensen ON (2006) Modification-specific proteomics of plasma membrane proteins: identification and characterization of glycosylphosphatidylinositol-anchored proteins released upon phospholipase D treatment. J Proteome Res 5:935-43

PMID16526091 PROTEINS: Kung CC; Huang WN; Huang YC; Yeh KC (2006) Proteomic survey of copper-binding proteins in Arabidopsis roots by immobilized metal affinity chromatography and mass spectrometry. Proteomics 6:2746-58

PMID16502469 PROTEINS: Sarry JE; Kuhn L; Ducruix C; Lafaye A; Junot C; Hugouvieux V; Jourdain A; Bastien O; Fievet JB; Vailhen D; Amekraz B; Moulin C; Ezan E; Garin J; Bourguignon J (2006) The early responses of Arabidopsis thaliana cells to cadmium exposure explored by protein and metabolite profiling analyses. Proteomics 6:2180-98

PMID16414959 PROTEINS: Vidi PA; Kanwischer M; Baginsky S; Austin JR; Csucs G; Dormann P; Kessler F; Brehelin C (2006) Tocopherol cyclase (VTE1) localization and vitamin E accumulation in chloroplast plastoglobule lipoprotein particles. J Biol Chem 281:11225-34

PMID16400686 PROTEINS: Giavalisco P; Kapitza K; Kolasa A; Buhtz A; Kehr J (2006) Towards the proteome of Brassica napus phloem sap. Proteomics 6:896-909

PMID16358359 PROTEINS: Sarry JE; Kuhn L; Le Lay P; Garin J; Bourguignon J (2006) Dynamics of Arabidopsis thaliana soluble proteome in response to different nutrient culture conditions. Electrophoresis 27:495-507

PMID16326926 PROTEINS: Pfalz J; Liere K; Kandlbinder A; Dietz KJ; Oelmuller R (2006) pTAC2, -6, and -12 are components of the transcriptionally active plastid chromosome that are required for plastid gene expression. Plant Cell 18:176-97

PMID16287169 PROTEINS: Bayer EM; Bottrill AR; Walshaw J; Vigouroux M; Naldrett MJ; Thomas CL; Maule AJ (2006) Arabidopsis cell wall proteome defined using multidimensional protein identification technology. Proteomics 6:301-11

PMID16247729 PROTEINS: Holmes-Davis R; Tanaka CK; Vensel WH; Hurkman WJ; McCormick S (2005) Proteome mapping of mature pollen of Arabidopsis thaliana. Proteomics 5:4864-84

PMID16242667 PROTEINS: Noir S; Brautigam A; Colby T; Schmidt J; Panstruga R (2005) A reference map of the Arabidopsis thaliana mature pollen proteome. Biochem Biophys Res Commun 337:1257-66

PMID16055689 PROTEINS: Dixon DP; Skipsey M; Grundy NM; Edwards R (2005) Stress-induced protein S-glutathionylation in Arabidopsis. Plant Physiol 138:2233-44

PMID15908592 PROTEINS: Job C; Rajjou L; Lovigny Y; Belghazi M; Job D (2005) Patterns of protein oxidation in Arabidopsis seeds and during germination. Plant Physiol 138:790-802

PMID15821981 PROTEINS: Giavalisco P; Wilson D; Kreitler T; Lehrach H; Klose J; Gobom J; Fucini P (2005) High heterogeneity within the ribosomal proteins of the Arabidopsis thaliana 80S ribosome. Plant Mol Biol 57:577-91

PMID15815986 PROTEINS: Giavalisco P; Nordhoff E; Kreitler T; Kloppel KD; Lehrach H; Klose J; Gobom J (2005) Proteome analysis of Arabidopsis thaliana by two-dimensional gel electrophoresis and matrix-assisted laser desorption/ionisation-time of flight mass spectrometry. Proteomics 5:1902-13

PMID15734919 PROTEINS: Chang IF; Szick-Miranda K; Pan S; Bailey-Serres J (2005) Proteomic characterization of evolutionarily conserved and variable proteins of Arabidopsis cytosolic ribosomes. Plant Physiol 137:848-62

PMID15734904 PROTEINS: Lindermayr C; Saalbach G; Durner J (2005) Proteomic identification of S-nitrosylated proteins in Arabidopsis. Plant Physiol 137:921-30

PMID15593128 PROTEINS: Boudart G; Jamet E; Rossignol M; Lafitte C; Borderies G; Jauneau A; Esquerre-Tugaye MT; Pont-Lezica R (2005) Cell wall proteins in apoplastic fluids of Arabidopsis thaliana rosettes: identification by mass spectrometry and bioinformatics. Proteomics 5:212-21

PMID15539469 PROTEINS: Carter C; Pan S; Zouhar J; Avila EL; Girke T; Raikhel NV (2004) The vegetative vacuole proteome of Arabidopsis thaliana reveals predicted and unexpected proteins. Plant Cell 16:3285-303

PMID15496452 PROTEINS: Pendle AF; Clark GP; Boon R; Lewandowska D; Lam YW; Andersen J; Mann M; Lamond AI; Brown JW; Shaw PJ (2005) Proteomic analysis of the Arabidopsis nucleolus suggests novel nucleolar functions. Mol Biol Cell 16:260-9

PMID15308754 PROTEINS: Nuhse TS; Stensballe A; Jensen ON; Peck SC (2004) Phosphoproteomics of the Arabidopsis plasma membrane and a new phosphorylation site database. Plant Cell 16:2394-405

PMID15276459 PROTEINS: Wienkoop S; Zoeller D; Ebert B; Simon-Rosin U; Fisahn J; Glinski M; Weckwerth W (2004) Cell-specific protein profiling in Arabidopsis thaliana trichomes: identification of trichome-located proteins involved in sulfur metabolism and detoxification. Phytochemistry 65:1641-9

PMID15276431 PROTEINS: Brugiere S; Kowalski S; Ferro M; Seigneurin-Berny D; Miras S; Salvi D; Ravanel S; d'Herin P; Garin J; Bourguignon J; Joyard J; Rolland N (2004) The hydrophobic proteome of mitochondrial membranes from Arabidopsis cell suspensions. Phytochemistry 65:1693-707

PMID15215502 PROTEINS: Shimaoka T; Ohnishi M; Sazuka T; Mitsuhashi N; Hara-Nishimura I; Shimazaki K; Maeshima M; Yokota A; Tomizawa K; Mimura T (2004) Isolation of intact vacuoles and proteomic analysis of tonoplast from suspension-cultured cells of Arabidopsis thaliana. Plant Cell Physiol 45:672-83

PMID15159623 PROTEINS: Sappl PG; Onate-Sanchez L; Singh KB; Millar AH (2004) Proteomic analysis of glutathione S -transferases of Arabidopsis thaliana reveals differential salicylic acid-induced expression of the plant-specific phi and tau classes. Plant Mol Biol 54:205-19

PMID15060130 PROTEINS: Marmagne A; Rouet MA; Ferro M; Rolland N; Alcon C; Joyard J; Garin J; Barbier-Brygoo H; Ephritikhine G (2004) Identification of new intrinsic proteins in Arabidopsis plasma membrane proteome. Mol Cell Proteomics 3:675-91

PMID15052571 PROTEINS: Wienkoop S; Glinski M; Tanaka N; Tolstikov V; Fiehn O; Weckwerth W (2004) Linking protein fractionation with multidimensional monolithic reversed-phase peptide chromatography/mass spectrometry enhances protein identification from complex mixtures even in the presence of abundant proteins. Rapid Commun Mass Spectrom 18:643-50

PMID15047896 PROTEINS: Rajjou L; Gallardo K; Debeaujon I; Vandekerckhove J; Job C; Job D (2004) The effect of alpha-amanitin on the Arabidopsis seed proteome highlights the distinct roles of stored and neosynthesized mRNAs during germination. Plant Physiol 134:1598-613

PMID15028209 PROTEINS: Kleffmann T; Russenberger D; von Zychlinski A; Christopher W; Sjolander K; Gruissem W; Baginsky S (2004) The Arabidopsis thaliana chloroplast proteome reveals pathway abundance and novel protein functions. Curr Biol 14:354-62

PMID14764908 PROTEINS: Taylor NL; Heazlewood JL; Day DA; Millar AH (2004) Lipoic acid-dependent oxidative catabolism of alpha-keto acids in mitochondria provides evidence for branched-chain amino acid catabolism in Arabidopsis. Plant Physiol 134:838-48

PMID14760709 PROTEINS: Szponarski W; Sommerer N; Boyer JC; Rossignol M; Gibrat R (2004) Large-scale characterization of integral proteins from Arabidopsis vacuolar membrane by two-dimensional liquid chromatography. Proteomics 4:397-406

PMID14617066 PROTEINS: Bae MS; Cho EJ; Choi EY; Park OK (2003) Analysis of the Arabidopsis nuclear proteome and its response to cold stress. Plant J 36:652-63

PMID14595688 PROTEINS: Borderies G; Jamet E; Lafitte C; Rossignol M; Jauneau A; Boudart G; Monsarrat B; Esquerre-Tugaye MT; Boudet A; Pont-Lezica R (2003) Proteomics of loosely bound cell wall proteins of Arabidopsis thaliana cell suspension cultures: a critical analysis. Electrophoresis 24:3421-32

PMID14517339 PROTEINS: Elortza F; Nuhse TS; Foster LJ; Stensballe A; Peck SC; Jensen ON (2003) Proteomic analysis of glycosylphosphatidylinositol-anchored membrane proteins. Mol Cell Proteomics 2:1261-70

PMID14506206 PROTEINS: Nuhse TS; Stensballe A; Jensen ON; Peck SC (2003) Large-scale analysis of in vivo phosphorylated membrane proteins by immobilized metal ion affinity chromatography and mass spectrometry. Mol Cell Proteomics 2:1234-43

PMID12953116 PROTEINS: Giege P; Heazlewood JL; Roessner-Tunali U; Millar AH; Fernie AR; Leaver CJ; Sweetlove LJ (2003) Enzymes of glycolysis are functionally associated with the mitochondrion in Arabidopsis cells. Plant Cell 15:2140-51

PMID12938931 PROTEINS: Froehlich JE; Wilkerson CG; Ray WK; McAndrew RS; Osteryoung KW; Gage DA; Phinney BS (2003) Proteomic study of the Arabidopsis thaliana chloroplastic envelope membrane utilizing alternatives to traditional two-dimensional electrophoresis. J Proteome Res 2:413-25

PMID12837548 PROTEINS: Heazlewood JL; Howell KA; Millar AH (2003) Mitochondrial complex I from Arabidopsis and rice: orthologs of mammalian and fungal components coupled with plant-specific subunits. Biochim Biophys Acta 1604:159-69

PMID12805588 PROTEINS: Borner GH; Lilley KS; Stevens TJ; Dupree P (2003) Identification of glycosylphosphatidylinositol-anchored proteins in Arabidopsis. A proteomic and genomic analysis. Plant Physiol 132:568-77

PMID12766230 PROTEINS: Ferro M; Salvi D; Brugiere S; Miras S; Kowalski S; Louwagie M; Garin J; Joyard J; Rolland N (2003) Proteomics of the chloroplast envelope membranes from Arabidopsis thaliana. Mol Cell Proteomics 2:325-45

PMID12606038 PROTEINS: Herald VL; Heazlewood JL; Day DA; Millar AH (2003) Proteomic identification of divalent metal cation binding proteins in plant mitochondria. FEBS Lett 537:96-100

PMID12586869 PROTEINS: Millar AH; Heazlewood JL (2003) Genomic and proteomic analysis of mitochondrial carrier proteins in Arabidopsis. Plant Physiol 131:443-53

PMID12154131 PROTEINS: Fukao Y; Hayashi M; Nishimura M (2002) Proteomic analysis of leaf peroxisomal proteins in greening cotyledons of Arabidopsis thaliana. Plant Cell Physiol 43:689-96

PMID12068122 PROTEINS: Gallardo K; Job C; Groot SP; Puype M; Demol H; Vandekerckhove J; Job D (2002) Proteomics of Arabidopsis seed germination. A comparative study of wild-type and gibberellin-deficient seeds. Plant Physiol 129:823-37

PMID11719511 PROTEINS: Schubert M; Petersson UA; Haas BJ; Funk C; Schroder WP; Kieselbach T (2002) Proteome map of the chloroplast lumen of Arabidopsis thaliana. J Biol Chem 277:8354-65

PMID11402211 PROTEINS: Gallardo K; Job C; Groot SP; Puype M; Demol H; Vandekerckhove J; Job D (2001) Proteomic analysis of arabidopsis seed germination and priming. Plant Physiol 126:835-48