Minna M Koskela, Annika Brünje, Aiste Ivanauskaite, Laura S Lopez, Dominik Schneider, Rachael A DeTar, Hans-Henning Kunz, Iris Finkemeier, Paula Mulo (2020) Comparative analysis of thylakoid protein complexes in state transition mutants nsi and stn7: focus on PSI and LHCII.
Photosynth Res 145:(1) 15-30[MSMS]

Bin Li, Daisuke Takahashi, Yukio Kawamura, Matsuo Uemura (2020) Plasma membrane proteome analyses of Arabidopsis thaliana suspension-cultured cells during cold or ABA treatment: Relationship with freezing tolerance and growth phase.
J Proteomics 211:(None) 103528[MSMS]

Thomas Nietzel, Jörg Mostertz, Cristina Ruberti, Guillaume Née, Philippe Fuchs, Stephan Wagner, Anna Moseler, Stefanie J Müller-Schüssele, Abdelilah Benamar, Gernot Poschet, Michael Büttner, Ian Max Møller, Christopher H Lillig, David Macherel, Markus Wirtz, Rüdiger Hell, Iris Finkemeier, Andreas J Meyer, Falko Hochgräfe, Markus Schwarzländer (2020) Redox-mediated kick-start of mitochondrial energy metabolism drives resource-efficient seed germination.
Proc Natl Acad Sci U S A 117:(1) 741-751[MSMS]

Oliver Trentmann, Timo Mühlhaus, David Zimmer, Frederik Sommer, Michael Schroda, Ilka Haferkamp, Isabel Keller, Benjamin Pommerrenig, Horst Ekkehard Neuhaus (2020) Identification of Chloroplast Envelope Proteins with Critical Importance for Cold Acclimation.
Plant Physiol 182:(3) 1239-1255[MSMS]

Philippe Fuchs, Nils Rugen, Chris Carrie, Marlene Elsässer, Iris Finkemeier, Jonas Giese, Tatjana M Hildebrandt, Kristina Kühn, Veronica G Maurino, Cristina Ruberti, Mareike Schallenberg-Rüdinger, Janina Steinbeck, Hans-Peter Braun, Holger Eubel, Etienne H Meyer, Stefanie J Müller-Schüssele, Markus Schwarzländer (2020) Single organelle function and organization as estimated from Arabidopsis mitochondrial proteomics.
Plant J 101:(2) 420-441[MSMS]

Markus Niehaus, Henryk Straube, Patrick Künzler, Nils Rugen, Jan Hegermann, Patrick Giavalisco, Holger Eubel, Claus-Peter Witte, Marco Herde (2020) Rapid Affinity Purification of Tagged Plant Mitochondria (Mito-AP) for Metabolome and Proteome Analyses.
Plant Physiol 182:(3) 1194-1210[MSMS]

Franziska Kuhnert, Anja Stefanski, Nina Overbeck, Leonie Drews, Andreas S Reichert, Kai Stühler, Andreas P M Weber (2020) Rapid Single-Step Affinity Purification of HA-Tagged Plant Mitochondria.
Plant Physiol 182:(2) 692-706[MSMS]

Rubén Fernández-Santos, Yovanny Izquierdo, Ana López, Luis Muñiz, Marta Martínez, Tomás Cascón, Mats Hamberg, Carmen Castresana (2020) Protein Profiles of Lipid Droplets during the Hypersensitive Defense Response of Arabidopsis against Pseudomonas Infection.
Plant Cell Physiol 61:(6) 1144-1157[MSMS, GFP]

Harold Duruflé, Philippe Ranocha, Thierry Balliau, Christophe Dunand, Elisabeth Jamet (2019) Transcriptomic and cell wall proteomic datasets of rosettes and floral stems from five
Data Brief 27:(None) 104581[MSMS]

Peter Schäfer, Stefan Helm, Daniel Köhler, Birgit Agne, Sacha Baginsky (2019) Consequences of impaired 1-MDa TIC complex assembly for the abundance and composition of chloroplast high-molecular mass protein complexes.
PLoS One 14:(3) e0213364[MSMS]

Imen Bouchnak, Sabine Brugière, Lucas Moyet, Sophie Le Gall, Daniel Salvi, Marcel Kuntz, Marianne Tardif, Norbert Rolland (2019) Unraveling Hidden Components of the Chloroplast Envelope Proteome: Opportunities and Limits of Better MS Sensitivity.
Mol Cell Proteomics 18:(7) 1285-1306[MSMS, GFP]

Barbara De Smet, Patrick Willems, Alvaro D Fernandez-Fernandez, Saleh Alseekh, Alisdair R Fernie, Joris Messens, Frank Van Breusegem (2019) In vivo detection of protein cysteine sulfenylation in plastids.
Plant J 97:(4) 765-778[MSMS]

Andrea Trotta, Azfar Ali Bajwa, Ilaria Mancini, Virpi Paakkarinen, Mathias Pribil, Eva-Mari Aro (2019) The Role of Phosphorylation Dynamics of CURVATURE THYLAKOID 1B in Plant Thylakoid Membranes.
Plant Physiol 181:(4) 1615-1631[MSMS]

Nils Rugen, Henryk Straube, Linda E Franken, Hans-Peter Braun, Holger Eubel (2019) Complexome Profiling Reveals Association of PPR Proteins with Ribosomes in the Mitochondria of Plants.
Mol Cell Proteomics 18:(7) 1345-1362[MSMS]

Thembisile G Khoza, Ian A Dubery, Lizelle A Piater (2019) Identification of Candidate Ergosterol-Responsive Proteins Associated with the Plasma Membrane of Arabidopsis thaliana .
Int J Mol Sci 20:(6) None[MSMS]

Yushi Miki, Daisuke Takahashi, Yukio Kawamura, Matsuo Uemura (2019) Temporal proteomics of Arabidopsis plasma membrane during cold- and de-acclimation.
J Proteomics 197:(None) 71-81[MSMS]

Zachary McBride, Donglai Chen, Youngwoo Lee, Uma K Aryal, Jun Xie, Daniel B Szymanski (2019) A Label-free Mass Spectrometry Method to Predict Endogenous Protein Complex Composition.
Mol Cell Proteomics 18:(8) 1588-1606[MSMS]

Chieko Goto, Shoko Hashizume, Yoichiro Fukao, Ikuko Hara-Nishimura, Kentaro Tamura (2019) Comprehensive nuclear proteome of Arabidopsis obtained by sequential extraction.
Nucleus 10:(1) 81-92[MSMS]

Daisuke Takahashi, Michal Gorka, Alexander Erban, Alexander Graf, Joachim Kopka, Ellen Zuther, Dirk K Hincha (2019) Both cold and sub-zero acclimation induce cell wall modification and changes in the extracellular proteome in Arabidopsis thaliana.
Sci Rep 9:(1) 2289[MSMS]

Jesús Beltrán, Yashitola Wamboldt, Robersy Sanchez, Evan W LaBrant, Hardik Kundariya, Kamaldeep S Virdi, Christian Elowsky, Sally A Mackenzie (2018) Specialized Plastids Trigger Tissue-Specific Signaling for Systemic Stress Response in Plants.
Plant Physiol 178:(2) 672-683[MSMS]

Minna M Koskela, Annika Brünje, Aiste Ivanauskaite, Magda Grabsztunowicz, Ines Lassowskat, Ulla Neumann, Trinh V Dinh, Julia Sindlinger, Dirk Schwarzer, Markus Wirtz, Esa Tyystjärvi, Iris Finkemeier, Paula Mulo (2018) Chloroplast Acetyltransferase NSI Is Required for State Transitions in
Plant Cell 30:(8) 1695-1709[MSMS, GFP]

Peitong Wang, Xi Chen, Xuan Xu, Chenni Lu, Wei Zhang, Fang-Jie Zhao (2018) ARSENATE INDUCED CHLOROSIS 1/ TRANSLOCON AT THE OUTER ENVOLOPE MEMBRANE OF CHLOROPLASTS 132 Protects Chloroplasts from Arsenic Toxicity.
Plant Physiol 178:(4) 1568-1583[MSMS, GFP]

Islam Mostafa, Mi-Jeong Yoo, Ning Zhu, Sisi Geng, Craig Dufresne, Maged Abou-Hashem, Maher El-Domiaty, Sixue Chen (2017) Membrane Proteomics of Arabidopsis Glucosinolate Mutants cyp79B2/B3 and myb28/29.
Front Plant Sci 8:(None) 534[MSMS]

Lysiane Brocard, Françoise Immel, Denis Coulon, Nicolas Esnay, Karine Tuphile, Stéphanie Pascal, Stéphane Claverol, Laëtitia Fouillen, Jean-Jacques Bessoule, Claire Bréhélin (2017) Proteomic Analysis of Lipid Droplets from Arabidopsis Aging Leaves Brings New Insight into Their Biogenesis and Functions.
Front Plant Sci 8:(None) 894[MSMS]

Cornelius S Vilakazi, Ian A Dubery, Lizelle A Piater (2017) Identification of lipopolysaccharide-interacting plasma membrane-type proteins in Arabidopsis thaliana.
Plant Physiol Biochem 111:(None) 155-165[MSMS]

Max E Kraner, Carmen Müller, Uwe Sonnewald (2017) Comparative proteomic profiling of the choline transporter-like1 (CHER1) mutant provides insights into plasmodesmata composition of fully developed Arabidopsis thaliana leaves.
Plant J 92:(4) 696-709[MSMS, GFP]

Harold Duruflé, Vincent Hervé, Philippe Ranocha, Thierry Balliau, Michel Zivy, Josiane Chourré, Hélène San Clemente, Vincent Burlat, Cécile Albenne, Sébastien Déjean, Elisabeth Jamet, Christophe Dunand (2017) Cell wall modifications of two Arabidopsis thaliana ecotypes, Col and Sha, in response to sub-optimal growth conditions: An integrative study.
Plant Sci 263:(None) 183-193[MSMS]

Charlotte Montacié, Nathalie Durut, Alison Opsomer, Denise Palm, Pascale Comella, Claire Picart, Marie-Christine Carpentier, Frederic Pontvianne, Christine Carapito, Enrico Schleiff, Julio Sáez-Vásquez (2017) Nucleolar Proteome Analysis and Proteasomal Activity Assays Reveal a Link between Nucleolus and 26S Proteasome in
Front Plant Sci 8:(None) 1815[MSMS, GFP]

Yan Wang, Xiaoli Peng, Zhuojun Yang, Weiwei Zhao, Wentao Xu, Junran Hao, Weihong Wu, Xiao Li Shen, Yunbo Luo, Kunlun Huang (2017) iTRAQ Mitoproteome Analysis Reveals Mechanisms of Programmed Cell Death in Arabidopsis thaliana Induced by Ochratoxin A.
Toxins (Basel) 9:(5) None[MSMS]

Allen Yi-Lun Tsai, Tadashi Kunieda, Jason Rogalski, Leonard J Foster, Brian E Ellis, George W Haughn (2017) Identification and Characterization of Arabidopsis Seed Coat Mucilage Proteins.
Plant Physiol. 173:(2) 1059-1074[MSMS]

Harold Duruflé, Hélène San Clemente, Thierry Balliau, Michel Zivy, Christophe Dunand, Elisabeth Jamet (2017) Cell wall proteome analysis of Arabidopsis thaliana mature stems.
Proteomics 17:(8) None[MSMS]

Jennifer Senkler, Michael Senkler, Holger Eubel, Tatjana Hildebrandt, Christian Lengwenus, Peter Schertl, Markus Schwarzländer, Stephan Wagner, Ilka Wittig, Hans-Peter Braun (2017) The mitochondrial complexome of Arabidopsis thaliana.
Plant J. 89:(6) 1079-1092[MSMS]

Adélaïde Jacq, Clémentine Pernot, Yves Martinez, Frédéric Domergue, Bruno Payré, Elisabeth Jamet, Vincent Burlat, Valérie B Pacquit (2017) The Arabidopsis Lipid Transfer Protein 2 (AtLTP2) Is Involved in Cuticle-Cell Wall Interface Integrity and in Etiolated Hypocotyl Permeability.
Front Plant Sci 8:(None) 263[MSMS, GFP]

Elke Ströher, Julia Grassl, Chris Carrie, Ricarda Fenske, James Whelan, A Harvey Millar (2016) Glutaredoxin S15 Is Involved in Fe-S Cluster Transfer in Mitochondria Influencing Lipoic Acid-Dependent Enzymes, Plant Growth, and Arsenic Tolerance in Arabidopsis.
Plant Physiol. 170:(3) 1284-99[MSMS, GFP]

Jing Wang, Qingbo Yu, Haibo Xiong, Jun Wang, Sixue Chen, Zhongnan Yang, Shaojun Dai (2016) Proteomic Insight into the Response of Arabidopsis Chloroplasts to Darkness.
PLoS One 11:(5) e0154235[MSMS]

Huan Nguyen-Kim, Hélène San Clemente, Thierry Balliau, Michel Zivy, Christophe Dunand, Cécile Albenne, Elisabeth Jamet (2016) Arabidopsis thaliana root cell wall proteomics: Increasing the proteome coverage using a combinatorial peptide ligand library and description of unexpected Hyp in peroxidase amino acid sequences.
Proteomics 16:(3) 491-503[MSMS]

Roberto de Michele, Heather E McFarlane, Harriet T Parsons, Miranda J Meents, Jeemeng Lao, Susana M González Fernández-Niño, Christopher J Petzold, Wolf B Frommer, A Lacey Samuels, Joshua L Heazlewood (2016) Free-Flow Electrophoresis of Plasma Membrane Vesicles Enriched by Two-Phase Partitioning Enhances the Quality of the Proteome from Arabidopsis Seedlings.
J Proteome Res 15:(3) 900-13[MSMS]

Nazmul H Bhuiyan, Giulia Friso, Elden Rowland, Kristina Majsec, Klaas J van Wijk (2016) The Plastoglobule-Localized Metallopeptidase PGM48 Is a Positive Regulator of Senescence in Arabidopsis thaliana.
Plant Cell 28:(12) 3020-3037[MSMS]

Joanna Melonek, Svenja Oetke, Karin Krupinska (2016) Multifunctionality of plastid nucleoids as revealed by proteome analyses.
Biochim. Biophys. Acta 1864:(8) 1016-38[MSMS]

Steffanie Fromm, Jennifer Senkler, Holger Eubel, Christoph Peterhänsel, Hans-Peter Braun (2016) Life without complex I: proteome analyses of an Arabidopsis mutant lacking the mitochondrial NADH dehydrogenase complex.
J. Exp. Bot. 67:(10) 3079-93[MSMS]

Zainab Fakih, Md Bulbul Ahmed, Claire Letanneur, Hugo Germain (2016) An unbiased nuclear proteomics approach reveals novel nuclear protein components that participates in MAMP-triggered immunity.
Plant Signal Behav 11:(6) e1183087[MSMS]

Emanuela Pedrazzini, Andrea Caprera, Ilaria Fojadelli, Alessandra Stella, Alessandra Rocchetti, Barbara Bassin, Enrico Martinoia, Alessandro Vitale (2016) The Arabidopsis tonoplast is almost devoid of glycoproteins with complex N-glycans, unlike the rat lysosomal membrane.
J. Exp. Bot. 67:(6) 1769-81[MSMS]

Viviana Correa-Galvis, Gereon Poschmann, Michael Melzer, Kai Stühler, Peter Jahns (2016) PsbS interactions involved in the activation of energy dissipation in Arabidopsis.
Nat Plants 2:(None) 15225[MSMS]

William Heard, Jan Sklenář, Daniel F A Tomé, Silke Robatzek, Alexandra M E Jones (2015) Identification of Regulatory and Cargo Proteins of Endosomal and Secretory Pathways in Arabidopsis thaliana by Proteomic Dissection.
Mol Cell Proteomics 14:(7) 1796-813[MSMS]

Xu Wang, Xiaolong Ma, Hui Wang, Bingjie Li, Greg Clark, Yi Guo, Stan Roux, Daye Sun, Wenqiang Tang (2015) Proteomic study of microsomal proteins reveals a key role for Arabidopsis annexin 1 in mediating heat stress-induced increase in intracellular calcium levels.
Mol Cell Proteomics 14:(3) 686-94[MSMS]

Shaobai Huang, Clark J Nelson, Lei Li, Nicolas L Taylor, Elke Ströher, Jakob Peteriet, A Harvey Millar (2015) INTERMEDIATE CLEAVAGE PEPTIDASE55 Modifies Enzyme Amino Termini and Alters Protein Stability in Arabidopsis Mitochondria.
Plant Physiol 168:(2) 415-27[MSMS]

Grzegorz Konert, Andrea Trotta, Petri Kouvonen, Moona Rahikainen, Guido Durian, Olga Blokhina, Kurt Fagerstedt, Dorota Muth, Garry L Corthals, Saijaliisa Kangasjärvi (2015) Protein phosphatase 2A (PP2A) regulatory subunit B'γ interacts with cytoplasmic ACONITASE 3 and modulates the abundance of AOX1A and AOX1D in Arabidopsis thaliana.
New Phytol 205:(3) 1250-1263[MSMS]

Sajad Majeed Zargar, Rie Kurata, Shoko Inaba, Akira Oikawa, Risa Fukui, Yoshiyuki Ogata, Ganesh Kumar Agrawal, Randeep Rakwal, Yoichiro Fukao (2015) Quantitative proteomics of Arabidopsis shoot microsomal proteins reveals a cross-talk between excess zinc and iron deficiency.
Proteomics 15:(7) 1196-201[MSMS]

Estefanía Uberegui, Michael Hall, Óscar Lorenzo, Wolfgang P Schröder, Mónica Balsera (2015) An Arabidopsis soluble chloroplast proteomic analysis reveals the participation of the Executer pathway in response to increased light conditions.
J Exp Bot 66:(7) 2067-77[MSMS]

Agnieszka Szuba, Anna Kasprowicz-Maluśki, Przemysław Wojtaszek (2015) Nitration of plant apoplastic proteins from cell suspension cultures.
J Proteomics 120:(None) 158-68[MSMS]

Maureen Hummel, Thomas Dobrenel, Jan J H G Cordewener, Marlène Davanture, Christian Meyer, Sjef J C M Smeekens, Julia Bailey-Serres, Twan A H P America, Johannes Hanson (2015) Proteomic LC-MS analysis of Arabidopsis cytosolic ribosomes: Identification of ribosomal protein paralogs and re-annotation of the ribosomal protein genes.
J Proteomics 128:(None) 436-49[MSMS]

Lan Yin, Alexander V Vener, Cornelia Spetea (2015) The membrane proteome of stroma thylakoids from Arabidopsis thaliana studied by successive in-solution and in-gel digestion.
Physiol Plant 154:(3) 433-46[MSMS]

Anna Rita Trentin, Micaela Pivato, Syed M M Mehdi, Leonard Ebinezer Barnabas, Sabrina Giaretta, Marta Fabrega-Prats, Dinesh Prasad, Giorgio Arrigoni, Antonio Masi (2015) Proteome readjustments in the apoplastic space of Arabidopsis thaliana ggt1 mutant leaves exposed to UV-B radiation.
Front Plant Sci 6:(None) 128[MSMS]

Witold G Szymanski, Henrik Zauber, Alexander Erban, Michal Gorka, Xu Na Wu, Waltraud X Schulze (2015) Cytoskeletal Components Define Protein Location to Membrane Microdomains.
Mol Cell Proteomics 14:(9) 2493-509[MSMS]

Nighat Sultana, Hannah V Florance, Alex Johns, Nicholas Smirnoff (2015) Ascorbate deficiency influences the leaf cell wall glycoproteome in Arabidopsis thaliana.
Plant Cell Environ. 38:(2) 375-84[MSMS]

Ann-Christine König, Markus Hartl, Paul J Boersema, Matthias Mann, Iris Finkemeier (2014) The mitochondrial lysine acetylome of Arabidopsis.
Mitochondrion 19 Pt B:(None) 252-60[MSMS]

Rachel B Rodrigues, Gregorz Sabat, Benjamin B Minkoff, Heather L Burch, Thao T Nguyen, Michael R Sussman (2014) Expression of a translationally fused TAP-tagged plasma membrane proton pump in Arabidopsis thaliana.
Biochemistry 53:(3) 566-78[MSMS, GFP]

Zhiping Deng, Juan A Oses-Prieto, Ulrich Kutschera, Tong-Seung Tseng, Lingzhao Hao, Alma L Burlingame, Zhi-Yong Wang, Winslow R Briggs (2014) Blue light-induced proteomic changes in etiolated Arabidopsis seedlings.
J. Proteome Res. 13:(5) 2524-33[MSMS]

Xiao-Ning Zhang, Cecilia Mo, Wesley M Garrett, Bret Cooper (2014) Phosphothreonine 218 is required for the function of SR45.1 in regulating flower petal development in Arabidopsis.
Plant Signal Behav 9:(None) None[PPI, MSMS]

Stefan Helm, Dirk Dobritzsch, Anja Rödiger, Birgit Agne, Sacha Baginsky (2014) Protein identification and quantification by data-independent acquisition and multi-parallel collision-induced dissociation mass spectrometry (MS(E)) in the chloroplast stroma proteome.
J Proteomics 98:(None) 79-89[MSMS]

Nino Nikolovski, Pavel V Shliaha, Laurent Gatto, Paul Dupree, Kathryn S Lilley (2014) Label-free protein quantification for plant Golgi protein localization and abundance.
Plant Physiol 166:(2) 1033-43[MSMS]

Arnoud J Groen, Gloria Sancho-Andrés, Lisa M Breckels, Laurent Gatto, Fernando Aniento, Kathryn S Lilley (2014) Identification of trans-golgi network proteins in Arabidopsis thaliana root tissue.
J Proteome Res 13:(2) 763-76[MSMS]

Fabien Sénéchal, Lucile Graff, Ogier Surcouf, Paulo Marcelo, Catherine Rayon, Sophie Bouton, Alain Mareck, Gregory Mouille, Annick Stintzi, Herman Höfte, Patrice Lerouge, Andreas Schaller, Jérôme Pelloux (2014) Arabidopsis PECTIN METHYLESTERASE17 is co-expressed with and processed by SBT3.5, a subtilisin-like serine protease.
Ann Bot 114:(6) 1161-75[MSMS]

Claude Alban, Marianne Tardif, Morgane Mininno, Sabine Brugière, Annabelle Gilgen, Sheng Ma, Meryl Mazzoleni, Océane Gigarel, Jacqueline Martin-Laffon, Myriam Ferro, Stéphane Ravanel (2014) Uncovering the protein lysine and arginine methylation network in Arabidopsis chloroplasts.
PLoS One 9:(4) e95512[MSMS]

Martino Tomizioli, Cosmin Lazar, Sabine Brugière, Thomas Burger, Daniel Salvi, Laurent Gatto, Lucas Moyet, Lisa M Breckels, Anne-Marie Hesse, Kathryn S Lilley, Daphné Seigneurin-Berny, Giovanni Finazzi, Norbert Rolland, Myriam Ferro (2014) Deciphering thylakoid sub-compartments using a mass spectrometry-based approach.
Mol Cell Proteomics 13:(8) 2147-67[MSMS]

Christof Behrens, Christian Blume, Michael Senkler, Holger Eubel, Christoph Peterhänsel, Hans-Peter Braun (2013) The 'protein complex proteome' of chloroplasts in Arabidopsis thaliana.
J Proteomics 91:(None) 73-83[MSMS]

Keisuke Yoshida, Ko Noguchi, Ken Motohashi, Toru Hisabori (2013) Systematic exploration of thioredoxin target proteins in plant mitochondria.
Plant Cell Physiol. 54:(6) 875-92[MSMS]

Wenjuan Wu, Ying Zhu, Zhaoxue Ma, Yi Sun, Quan Quan, Peng Li, Pengzhan Hu, Tieliu Shi, Clive Lo, Ivan K Chu, Jirong Huang (2013) Proteomic evidence for genetic epistasis: ClpR4 mutations switch leaf variegation to virescence in Arabidopsis.
Plant J 76:(6) 943-56[MSMS]

Elisa Dell'Aglio, Cécile Giustini, Daniel Salvi, Sabine Brugière, Faustine Delpierre, Lucas Moyet, Mathieu Baudet, Daphné Seigneurin-Berny, Michel Matringe, Myriam Ferro, Norbert Rolland, Gilles Curien (2013) Complementary biochemical approaches applied to the identification of plastidial calmodulin-binding proteins.
Mol Biosyst 9:(6) 1234-48[MSMS]

Daniela Gargano, Jodi Maple-Grødem, Veronika Reisinger, Lutz Andreas Eichacker, Simon Geir Møller (2013) Analysis of the chloroplast proteome in arc mutants and identification of novel protein components associated with FtsZ2.
Plant Mol Biol 81:(3) 235-44[MSMS]

Clark J Nelson, Lei Li, Richard P Jacoby, A Harvey Millar (2013) Degradation rate of mitochondrial proteins in Arabidopsis thaliana cells.
J Proteome Res 12:(7) 3449-59[MSMS]

Stefan Simm, Dimitrios G Papasotiriou, Mohamed Ibrahim, Matthias S Leisegang, Bernd Müller, Tobias Schorge, Michael Karas, Oliver Mirus, Maik S Sommer, Enrico Schleiff (2013) Defining the core proteome of the chloroplast envelope membranes.
Front Plant Sci 4:(None) 11[MSMS]

Peter K Lundquist, Anton Poliakov, Lisa Giacomelli, Giulia Friso, Mason Appel, Ryan P McQuinn, Stuart B Krasnoff, Elden Rowland, Lalit Ponnala, Qi Sun, Klaas J van Wijk (2013) Loss of plastoglobule kinases ABC1K1 and ABC1K3 causes conditional degreening, modified prenyl-lipids, and recruitment of the jasmonic acid pathway.
Plant Cell 25:(5) 1818-39[MSMS]

Henrik Zauber, Witold Szymanski, Waltraud X Schulze (2013) Unraveling sterol-dependent membrane phenotypes by analysis of protein abundance-ratio distributions in different membrane fractions under biochemical and endogenous sterol depletion.
Mol Cell Proteomics 12:(12) 3732-43[MSMS]

Yuki Sakamoto, Shingo Takagi (2013) LITTLE NUCLEI 1 and 4 Regulate Nuclear Morphology in Arabidopsis thaliana.
Plant Cell Physiol. 54:(4) 622-33[MSMS, GFP]

Fionn McLoughlin, Steven A Arisz, Henk L Dekker, Gertjan Kramer, Chris G de Koster, Michel A Haring, Teun Munnik, Christa Testerink (2013) Identification of novel candidate phosphatidic acid-binding proteins involved in the salt-stress response of Arabidopsis thaliana roots.
Biochem. J. 450:(3) 573-81[MSMS]

Katja Bernfur, Olaf Larsson, Christer Larsson, Niklas Gustavsson (2013) Relative abundance of integral plasma membrane proteins in Arabidopsis leaf and root tissue determined by metabolic labeling and mass spectrometry.
PLoS ONE 8:(8) e71206[MSMS]

Katrin Peters, Katharina Belt, Hans-Peter Braun (2013) 3D Gel Map of Arabidopsis Complex I.
Front Plant Sci 4:(None) 153[MSMS]

Joaquín Iglesias, Marina Trigueros, Mónica Rojas-Triana, Marisol Fernández, Juan Pablo Albar, Regla Bustos, Javier Paz-Ares, Vicente Rubio (2013) Proteomics identifies ubiquitin-proteasome targets and new roles for chromatin-remodeling in the Arabidopsis response to phosphate starvation.
J Proteomics 94:(None) 1-22[MSMS, GFP]

Takahiro Hamada, Nahoko Nagasaki-Takeuchi, Takehide Kato, Masayuki Fujiwara, Seiji Sonobe, Yoichiro Fukao, Takashi Hashimoto (2013) Purification and characterization of novel microtubule-associated proteins from Arabidopsis cell suspension cultures.
Plant Physiol. 163:(4) 1804-16[MSMS, GFP]

Atsushi Takabayashi, Ryosuke Kadoya, Masayoshi Kuwano, Katsunori Kurihara, Hisashi Ito, Ryouichi Tanaka, Ayumi Tanaka (2013) Protein co-migration database (PCoM -DB) for Arabidopsis thylakoids and Synechocystis cells.
Springerplus 2:(1) 148[MSMS]

Sheng Quan, Pingfang Yang, Gaëlle Cassin-Ross, Navneet Kaur, Robert Switzenberg, Kyaw Aung, Jiying Li, Jianping Hu (2013) Proteome analysis of peroxisomes from etiolated Arabidopsis seedlings identifies a peroxisomal protease involved in β-oxidation and development.
Plant Physiol. 163:(4) 1518-38[MSMS, GFP]

Katsuhisa Yoshida, Miwa Ohnishi, Yoichiro Fukao, Yozo Okazaki, Masayuki Fujiwara, Chihong Song, Yoichi Nakanishi, Kazuki Saito, Teruo Shimmen, Toshinobu Suzaki, Fumio Hayashi, Hidehiro Fukaki, Masayoshi Maeshima, Tetsuro Mimura (2013) Studies on vacuolar membrane microdomains isolated from Arabidopsis suspension-cultured cells: local distribution of vacuolar membrane proteins.
Plant Cell Physiol. 54:(10) 1571-84[MSMS]

James Mitch Elmore, Jun Liu, Barrett Smith, Brett Phinney, Gitta Coaker (2012) Quantitative proteomics reveals dynamic changes in the plasma membrane during Arabidopsis immune signaling.
Mol. Cell Proteomics 11:(4) M111.014555[MSMS]

Bin Li, Daisuke Takahashi, Yukio Kawamura, Matsuo Uemura (2012) Comparison of plasma membrane proteomic changes of arabidopsis suspension-cultured cells (T87 Line) after cold and ABA treatment in association with freezing tolerance development.
Plant Cell Physiol. 53:(3) 543-54[MSMS]

Peter K Lundquist, Anton Poliakov, Nazmul H Bhuiyan, Boris Zybailov, Qi Sun, Klaas J van Wijk (2012) The functional network of the Arabidopsis plastoglobule proteome based on quantitative proteomics and genome-wide coexpression analysis.
Plant Physiol. 158:(3) 1172-92[MSMS]

Harriet T Parsons, Katy Christiansen, Bernhard Knierim, Andrew Carroll, Jun Ito, Tanveer S Batth, Andreia M Smith-Moritz, Stephanie Morrison, Peter McInerney, Masood Z Hadi, Manfred Auer, Aindrila Mukhopadhyay, Christopher J Petzold, Henrik V Scheller, Dominique Loqué, Joshua L Heazlewood (2012) Isolation and proteomic characterization of the Arabidopsis Golgi defines functional and novel components involved in plant cell wall biosynthesis.
Plant Physiol. 159:(1) 12-26[MSMS, GFP]

Georgia Drakakaki, Wilhelmina van de Ven, Songqin Pan, Yansong Miao, Junqi Wang, Nana F Keinath, Brent Weatherly, Liwen Jiang, Karin Schumacher, Glenn Hicks, Natasha Raikhel (2012) Isolation and proteomic analysis of the SYP61 compartment reveal its role in exocytic trafficking in Arabidopsis.
Cell Res. 22:(2) 413-24[MSMS, GFP]

Björn Ingelsson, Alexander V Vener (2012) Phosphoproteomics of Arabidopsis chloroplasts reveals involvement of the STN7 kinase in phosphorylation of nucleoid protein pTAC16.
FEBS Lett. 586:(9) 1265-71[PPI, MSMS]

Maureen Hummel, Jan H G Cordewener, Joost C M de Groot, Sjef Smeekens, Antoine H P America, Johannes Hanson (2012) Dynamic protein composition of Arabidopsis thaliana cytosolic ribosomes in response to sucrose feeding as revealed by label free MSE proteomics.
Proteomics 12:(7) 1024-38[MSMS]

Nino Nikolovski, Denis Rubtsov, Marcelo P Segura, Godfrey P Miles, Tim J Stevens, Tom P J Dunkley, Sean Munro, Kathryn S Lilley, Paul Dupree (2012) Putative glycosyltransferases and other plant golgi apparatus proteins are revealed by LOPIT proteomics.
Plant Physiol. 160:(2) 1037-51[MSMS]

Dimitri Heintz, Sebastien Gallien, Vincent Compagnon, Anne Berna, Masashi Suzuki, Shigeo Yoshida, Toshiya Muranaka, Alain Van Dorsselaer, Christine Schaeffer, Thomas J Bach, Hubert Schaller (2012) Phosphoproteome exploration reveals a reformatting of cellular processes in response to low sterol biosynthetic capacity in Arabidopsis.
J Proteome Res 11:(2) 1228-39[MSMS]

Claude Nespoulous, Valérie Rofidal, Nicolas Sommerer, Sonia Hem, Michel Rossignol (2012) Phosphoproteomic analysis reveals major default phosphorylation sites outside long intrinsically disordered regions of Arabidopsis plasma membrane proteins.
Proteome Sci 10:(1) 62[MSMS]

Saskia Floerl, Andrzej Majcherczyk, Mareike Possienke, Kirstin Feussner, Hella Tappe, Christiane Gatz, Ivo Feussner, Ursula Kües, Andrea Polle (2012) Verticillium longisporum infection affects the leaf apoplastic proteome, metabolome, and cell wall properties in Arabidopsis thaliana.
PLoS One 7:(2) e31435[MSMS]

María Ángeles Bermúdez, Jeroni Galmés, Inmaculada Moreno, Philip M Mullineaux, Cecilia Gotor, Luis C Romero (2012) Photosynthetic adaptation to length of day is dependent on S-sulfocysteine synthase activity in the thylakoid lumen.
Plant Physiol 160:(1) 274-88[MSMS]

Chun Pong Lee, Holger Eubel, Cory Solheim, A Harvey Millar (2012) Mitochondrial proteome heterogeneity between tissues from the vegetative and reproductive stages of Arabidopsis thaliana development.
J Proteome Res 11:(6) 3326-43[MSMS]

Yew-Foon Tan, A Harvey Millar, Nicolas L Taylor (2012) Components of mitochondrial oxidative phosphorylation vary in abundance following exposure to cold and chemical stresses.
J Proteome Res 11:(7) 3860-79[MSMS]

Vera Göhre, Alexandra M E Jones, Jan Sklenář, Silke Robatzek, Andreas P M Weber (2012) Molecular crosstalk between PAMP-triggered immunity and photosynthesis.
Mol Plant Microbe Interact 25:(8) 1083-92[MSMS]

Cory Solheim, Lei Li, Polydefkis Hatzopoulos, A Harvey Millar (2012) Loss of Lon1 in Arabidopsis changes the mitochondrial proteome leading to altered metabolite profiles and growth retardation without an accumulation of oxidative damage.
Plant Physiol 160:(3) 1187-203[MSMS]

Waltraud X Schulze, Thomas Schneider, Sabrina Starck, Enrico Martinoia, Oliver Trentmann (2012) Cold acclimation induces changes in Arabidopsis tonoplast protein abundance and activity and alters phosphorylation of tonoplast monosaccharide transporters.
Plant J 69:(3) 529-41[MSMS]

Lourdes Fernandez-Calvino, Christine Faulkner, John Walshaw, Gerhard Saalbach, Emmanuelle Bayer, Yoselin Benitez-Alfonso, Andrew Maule (2011) Arabidopsis plasmodesmal proteome.
PLoS One 6:(4) e18880[MSMS, GFP]

Iris Finkemeier, Miriam Laxa, Laurent Miguet, Andrew J M Howden, Lee J Sweetlove (2011) Proteins of diverse function and subcellular location are lysine acetylated in Arabidopsis.
Plant Physiol 155:(4) 1779-90[MSMS]

Owen Duncan, Nicolas L Taylor, Chris Carrie, Holger Eubel, Szymon Kubiszewski-Jakubiak, Botao Zhang, Reena Narsai, A Harvey Millar, James Whelan (2011) Multiple lines of evidence localize signaling, morphology, and lipid biosynthesis machinery to the mitochondrial outer membrane of Arabidopsis.
Plant Physiol. 157:(3) 1093-113[MSMS, GFP]

Jun Ito, Tanveer S Batth, Christopher J Petzold, Alyssa M Redding-Johanson, Aindrila Mukhopadhyay, Robert Verboom, Etienne H Meyer, A Harvey Millar, Joshua L Heazlewood (2011) Analysis of the Arabidopsis cytosolic proteome highlights subcellular partitioning of central plant metabolism.
J. Proteome Res. 10:(4) 1571-82[MSMS]

Yu Zhang, Aurélie Giboulot, Michel Zivy, Benoît Valot, Elisabeth Jamet, Cécile Albenne (2011) Combining various strategies to increase the coverage of the plant cell wall glycoproteome.
Phytochemistry 72:(10) 1109-23[MSMS]

Chun Pong Lee, Holger Eubel, Nicholas O'Toole, A Harvey Millar (2011) Combining proteomics of root and shoot mitochondria and transcript analysis to define constitutive and variable components in plant mitochondria.
Phytochemistry 72:(10) 1092-108[MSMS]

Jennifer Klodmann, Michael Senkler, Christina Rode, Hans-Peter Braun (2011) Defining the protein complex proteome of plant mitochondria.
Plant Physiol. 157:(2) 587-98[MSMS]

Irene Granlund, Thomas Kieselbach, Rikard Alm, Wolfgang P Schröder, Cecilia Emanuelsson (2011) Clustering of MS spectra for improved protein identification rate and screening for protein variants and modifications by MALDI-MS/MS.
J Proteomics 74:(8) 1190-200[MSMS]

Jean-Marc Monneuse, Madeleine Sugano, Thierry Becue, Véronique Santoni, Sonia Hem, Michel Rossignol (2011) Towards the profiling of the Arabidopsis thaliana plasma membrane transportome by targeted proteomics.
Proteomics 11:(9) 1789-97[MSMS]

Ricky P W Kong, S O Siu, Simon S M Lee, Clive Lo, Ivan K Chu (2011) Development of online high-/low-pH reversed-phase-reversed-phase two-dimensional liquid chromatography for shotgun proteomics: a reversed-phase-strong cation exchange-reversed-phase approach.
J Chromatogr A 1218:(23) 3681-8[MSMS]

Zhe Jenny Zhang, Scott C Peck (2011) Simplified enrichment of plasma membrane proteins for proteomic analyses in Arabidopsis thaliana.
Proteomics 11:(9) 1780-8[MSMS]

Nicolas L Taylor, Joshua L Heazlewood, A Harvey Millar (2011) The Arabidopsis thaliana 2-D gel mitochondrial proteome: Refining the value of reference maps for assessing protein abundance, contaminants and post-translational modifications.
Proteomics 11:(9) 1720-33[MSMS]

Paul Dominic B Olinares, Lalit Ponnala, Klaas J van Wijk (2010) Megadalton complexes in the chloroplast stroma of arabidopsis thaliana characterized by size exclusion chromatography, mass spectrometry, and hierarchical clustering.
Mol. Cell Proteomics 9:(7) 1594-615[MSMS]

Rui-Juan Ni, Zhuo Shen, Chuan-Ping Yang, Ya-Dan Wu, Ying-Dong Bi, Bai-Chen Wang (2010) Identification of low abundance polyA-binding proteins in Arabidopsis chloroplast using polyA-affinity column.
Mol. Biol. Rep. 37:(2) 637-41[MSMS]

Yanmei Chen, Wolfgang Hoehenwarter, Wolfram Weckwerth (2010) Comparative analysis of phytohormone-responsive phosphoproteins in Arabidopsis thaliana using TiO2-phosphopeptide enrichment and mass accuracy precursor alignment.
Plant J. 63:(1) 1-17[MSMS]

Myriam Ferro, Sabine Brugière, Daniel Salvi, Daphné Seigneurin-Berny, Magali Court, Lucas Moyet, Claire Ramus, Stéphane Miras, Mourad Mellal, Sophie Le Gall, Sylvie Kieffer-Jaquinod, Christophe Bruley, Jérôme Garin, Jacques Joyard, Christophe Masselon, Norbert Rolland (2010) AT_CHLORO, a comprehensive chloroplast proteome database with subplastidial localization and curated information on envelope proteins.
Mol. Cell Proteomics 9:(6) 1063-84[MSMS]

Michael Hall, Alejandro Mata-Cabana, Hans-Erik Akerlund, Francisco J Florencio, Wolfgang P Schröder, Marika Lindahl, Thomas Kieselbach (2010) Thioredoxin targets of the plant chloroplast lumen and their implications for plastid function.
Proteomics 10:(5) 987-1001[MSMS]

Jennifer Klodmann, Stephanie Sunderhaus, Manfred Nimtz, Lothar Jänsch, Hans-Peter Braun (2010) Internal architecture of mitochondrial complex I from Arabidopsis thaliana.
Plant Cell 22:(3) 797-810[MSMS]

Nana F Keinath, Sylwia Kierszniowska, Justine Lorek, Gildas Bourdais, Sharon A Kessler, Hiroko Shimosato-Asano, Ueli Grossniklaus, Waltraud X Schulze, Silke Robatzek, Ralph Panstruga (2010) PAMP (pathogen-associated molecular pattern)-induced changes in plasma membrane compartmentalization reveal novel components of plant immunity.
J. Biol. Chem. 285:(50) 39140-9[MSMS]

Sigrun Reumann, Sheng Quan, Kyaw Aung, Pingfang Yang, Kalpana Manandhar-Shrestha, Danielle Holbrook, Nicole Linka, Robert Switzenberg, Curtis G Wilkerson, Andreas P M Weber, Laura J Olsen, Jianping Hu (2009) In-depth proteome analysis of Arabidopsis leaf peroxisomes combined with in vivo subcellular targeting verification indicates novel metabolic and regulatory functions of peroxisomes.
Plant Physiol. 150:(1) 125-43[MSMS, GFP]

Srijeet K Mitra, Benjamin T Walters, Steven D Clouse, Michael B Goshe (2009) An efficient organic solvent based extraction method for the proteomic analysis of Arabidopsis plasma membranes.
J. Proteome Res. 8:(6) 2752-67[MSMS]

Yiping Qi, Fumiaki Katagiri (2009) Purification of low-abundance Arabidopsis plasma-membrane protein complexes and identification of candidate components.
Plant J. 57:(5) 932-44[PPI, MSMS]

Fang-yi Cheng, Kevin Blackburn, Yu-min Lin, Micheal B Goshe, John D Williamson (2009) Absolute protein quantification by LC/MS(E) for global analysis of salicylic acid-induced plant protein secretion responses.
J. Proteome Res. 8:(1) 82-93[MSMS]

Jun Ito, Nicolas L Taylor, Ian Castleden, Wolfram Weckwerth, A Harvey Millar, Joshua L Heazlewood (2009) A survey of the Arabidopsis thaliana mitochondrial phosphoproteome.
Proteomics 9:(17) 4229-40[MSMS]

Pengxiang Fan, Xuchu Wang, Tingyun Kuang, Yinxin Li (2009) An efficient method for the extraction of chloroplast proteins compatible for 2-DE and MS analysis.
Electrophoresis 30:(17) 3024-33[MSMS]

Cécile Albenne, Hervé Canut, Georges Boudart, Yu Zhang, Hélène San Clemente, Rafael Pont-Lezica, Elisabeth Jamet (2009) Plant cell wall proteomics: mass spectrometry data, a trove for research on protein structure/function relationships.
Mol Plant 2:(5) 977-89[MSMS]

Chun Pong Lee, Holger Eubel, Nicholas O'Toole, A Harvey Millar (2008) Heterogeneity of the mitochondrial proteome for photosynthetic and non-photosynthetic Arabidopsis metabolism.
Mol. Cell Proteomics 7:(7) 1297-316[MSMS]

Boris Zybailov, Heidi Rutschow, Giulia Friso, Andrea Rudella, Olof Emanuelsson, Qi Sun, Klaas J van Wijk (2008) Sorting signals, N-terminal modifications and abundance of the chloroplast proteome
PLoS ONE 3:(4) e1994[MSMS]

Elke Ströher, Karl-Josef Dietz (2008) The dynamic thiol-disulphide redox proteome of the Arabidopsis thaliana chloroplast as revealed by differential electrophoretic mobility.
Physiol Plant 133:(3) 566-83[MSMS]

Heidi Rutschow, A Jimmy Ytterberg, Giulia Friso, Robert Nilsson, Klaas J van Wijk (2008) Quantitative proteomics of a chloroplast SRP54 sorting mutant and its genetic interactions with CLPC1 in Arabidopsis.
Plant Physiol. 148:(1) 156-75[TAIR, MSMS]

Sally-Anne Whiteman, Liliya Serazetdinova, Alexandra M E Jones, Dale Sanders, John Rathjen, Scott C Peck, Frans J M Maathuis (2008) Identification of novel proteins and phosphorylation sites in a tonoplast enriched membrane fraction of Arabidopsis thaliana.
Proteomics 8:(17) 3536-47[MSMS]

Holger Eubel, Etienne H Meyer, Nicolas L Taylor, John D Bussell, Nicholas O'Toole, Joshua L Heazlewood, Ian Castleden, Ian D Small, Steven M Smith, A Harvey Millar (2008) Novel proteins, putative membrane transporters, and an integrated metabolic network are revealed by quantitative proteomic analysis of Arabidopsis cell culture peroxisomes.
Plant Physiol. 148:(4) 1809-29[MSMS, GFP]

Adam J Carroll, Joshua L Heazlewood, Jun Ito, A Harvey Millar (2008) Analysis of the Arabidopsis cytosolic ribosome proteome provides detailed insights into its components and their post-translational modification.
Mol. Cell Proteomics 7:(2) 347-69[MSMS]

Etienne H Meyer, Nicolas L Taylor, A Harvey Millar (2008) Resolving and identifying protein components of plant mitochondrial respiratory complexes using three dimensions of gel electrophoresis.
J. Proteome Res. 7:(2) 786-94[PPI, MSMS]

Sergio de la Fuente van Bentem, Dorothea Anrather, Ilse Dohnal, Elisabeth Roitinger, Edina Csaszar, Jos Joore, Joshua Buijnink, Alessandro Carreri, Celine Forzani, Zdravko J Lorkovic, Andrea Barta, David Lecourieux, Andreas Verhounig, Claudia Jonak, Heribert Hirt (2008) Site-specific phosphorylation profiling of Arabidopsis proteins by mass spectrometry and peptide chip analysis.
J. Proteome Res. 7:(6) 2458-70[MSMS]

Michel Jaquinod, Florent Villiers, Sylvie Kieffer-Jaquinod, Véronique Hugouvieux, Christophe Bruley, Jérôme Garin, Jacques Bourguignon (2007) A proteomics dissection of Arabidopsis thaliana vacuoles isolated from cell culture
Mol Cell Proteomics 6:(3) 394-412[MSMS, GFP]

Joris J Benschop, Shabaz Mohammed, Martina O'Flaherty, Albert J R Heck, Monique Slijper, Frank L H Menke (2007) Quantitative phosphoproteomics of early elicitor signaling in Arabidopsis
Mol Cell Proteomics 6:(7) 1198-214[MSMS]

Etienne H Meyer, Joshua L Heazlewood, A Harvey Millar (2007) Mitochondrial acyl carrier proteins in Arabidopsis thaliana are predominantly soluble matrix proteins and none can be confirmed as subunits of respiratory Complex I
Plant Mol Biol 64:(3) 319-27[MSMS]

Anne Marmagne, Myriam Ferro, Thierry Meinnel, Christophe Bruley, Lauriane Kuhn, Jérome Garin, Hélène Barbier-Brygoo, Geneviève Ephritikhine (2007) A high content in lipid-modified peripheral proteins and integral receptor kinases features in the arabidopsis plasma membrane proteome
Mol Cell Proteomics 6:(11) 1980-96[MSMS]

Sonia Hem, Valérie Rofidal, Nicolas Sommerer, Michel Rossignol (2007) Novel subsets of the Arabidopsis plasmalemma phosphoproteome identify phosphorylation sites in secondary active transporters
Biochem Biophys Res Commun 363:(2) 375-80[MSMS]

Sigrun Reumann, Lavanya Babujee, Changle Ma, Stephanie Wienkoop, Tanja Siemsen, Gerardo E Antonicelli, Nicolas Rasche, Franziska Lüder, Wolfram Weckwerth, Olaf Jahn (2007) Proteome analysis of Arabidopsis leaf peroxisomes reveals novel targeting peptides, metabolic pathways, and defense mechanisms
Plant Cell 19:(10) 3170-93[MSMS, GFP]

Jean-Benoit Peltier, Yang Cai, Qi Sun, Vladimir Zabrouskov, Lisa Giacomelli, Andrea Rudella, A Jimmy Ytterberg, Heidi Rutschow, Klaas J van Wijk (2006) The oligomeric stromal proteome of Arabidopsis thaliana chloroplasts
Mol Cell Proteomics 5:(1) 114-33[MSMS]

Emmanuelle M Bayer, Andrew R Bottrill, John Walshaw, Marielle Vigouroux, Mike J Naldrett, Carole L Thomas, Andrew J Maule (2006) Arabidopsis cell wall proteome defined using multidimensional protein identification technology
Proteomics 6:(1) 301-11[MSMS]

Elisabeth Jamet, Hervé Canut, Georges Boudart, Rafael F Pont-Lezica (2006) Cell wall proteins: a new insight through proteomics
Trends Plant Sci 11:(1) 33-9[MSMS]

Pierre-Alexandre Vidi, Marion Kanwischer, Sacha Baginsky, Jotham R Austin, Gabor Csucs, Peter Dörmann, Felix Kessler, Claire Bréhélin (2006) Tocopherol cyclase (VTE1) localization and vitamin E accumulation in chloroplast plastoglobule lipoprotein particles
J Biol Chem 281:(16) 11225-34[MSMS, GFP]

A Jimmy Ytterberg, Jean-Benoit Peltier, Klaas J van Wijk (2006) Protein profiling of plastoglobules in chloroplasts and chromoplasts. A surprising site for differential accumulation of metabolic enzymes
Plant Physiol 140:(3) 984-97[MSMS]

Rumyana Karlova, Sjef Boeren, Eugenia Russinova, José Aker, Jacques Vervoort, Sacco de Vries (2006) The Arabidopsis SOMATIC EMBRYOGENESIS RECEPTOR-LIKE KINASE1 protein complex includes BRASSINOSTEROID-INSENSITIVE1
Plant Cell 18:(3) 626-38[PPI, MSMS, GFP]

Felix Elortza, Shabaz Mohammed, Jakob Bunkenborg, Leonard J Foster, Thomas S Nühse, Urs Brodbeck, Scott C Peck, Ole N Jensen (2006) Modification-specific proteomics of plasma membrane proteins: identification and characterization of glycosylphosphatidylinositol-anchored proteins released upon phospholipase D treatment
J Proteome Res 5:(4) 935-43[MSMS]

Tom P J Dunkley, Svenja Hester, Ian P Shadforth, John Runions, Thilo Weimar, Sally L Hanton, Julian L Griffin, Conrad Bessant, Federica Brandizzi, Chris Hawes, Rod B Watson, Paul Dupree, Kathryn S Lilley (2006) Mapping the Arabidopsis organelle proteome
Proc Natl Acad Sci U S A 103:(17) 6518-23[MSMS]

Clark J Nelson, Adrian D Hegeman, Amy C Harms, Michael R Sussman (2006) A quantitative analysis of Arabidopsis plasma membrane using trypsin-catalyzed (18)O labeling
Mol Cell Proteomics 5:(8) 1382-95[MSMS]

Lisa Giacomelli, Andrea Rudella, Klaas Jan van Wijk (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:(2) 685-701[MSMS]

Leila Feiz, Muhammad Irshad, Rafael F Pont-Lezica, Hervé Canut, Elisabeth Jamet (2006) Evaluation of cell wall preparations for proteomics: a new procedure for purifying cell walls from Arabidopsis hypocotyls.
Plant Methods 2:(None) 10[MSMS]

Estelle Goulas, Maria Schubert, Thomas Kieselbach, Leszek A Kleczkowski, Per Gardeström, Wolfgang Schröder, Vaughan Hurry (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:(5) 720-34[MSMS]

Jun Ito, Joshua L Heazlewood, A Harvey Millar (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:(12) 3459-69[MSMS]

Alison F Pendle, Gillian P Clark, Reinier Boon, Dominika Lewandowska, Yun Wah Lam, Jens Andersen, Matthias Mann, Angus I Lamond, John W S Brown, Peter J Shaw (2005) Proteomic analysis of the Arabidopsis nucleolus suggests novel nucleolar functions
Mol Biol Cell 16:(1) 260-9[MSMS, GFP]

Georges Boudart, Elisabeth Jamet, Michel Rossignol, Claude Lafitte, Gisèle Borderies, Alain Jauneau, Marie-Thérèse Esquerré-Tugayé, Rafael Pont-Lezica (2005) Cell wall proteins in apoplastic fluids of Arabidopsis thaliana rosettes: identification by mass spectrometry and bioinformatics
Proteomics 5:(1) 212-21[MSMS]

Stéphane Charmont, Elisabeth Jamet, Rafael Pont-Lezica, Hervé Canut (2005) Proteomic analysis of secreted proteins from Arabidopsis thaliana seedlings: improved recovery following removal of phenolic compounds
Phytochemistry 66:(4) 453-61[MSMS]

Patrick Giavalisco, Daniel Wilson, Thomas Kreitler, Hans Lehrach, Joachim Klose, Johan Gobom, Paola Fucini (2005) High heterogeneity within the ribosomal proteins of the Arabidopsis thaliana 80S ribosome
Plant Mol Biol 57:(4) 577-91[MSMS]

Ing-Feng Chang, Kathleen Szick-Miranda, Songqin Pan, Julia Bailey-Serres (2005) Proteomic characterization of evolutionarily conserved and variable proteins of Arabidopsis cytosolic ribosomes.
Plant Physiol. 137:(3) 848-62[MSMS]

Joshua L Heazlewood, Julian S Tonti-Filippini, Alexander M Gout, David A Day, James Whelan, A Harvey Millar (2004) Experimental analysis of the Arabidopsis mitochondrial proteome highlights signaling and regulatory components, provides assessment of targeting prediction programs, and indicates plant-specific mitochondrial proteins
Plant Cell 16:(1) 241-56[MSMS]

Giulia Friso, Lisa Giacomelli, A Jimmy Ytterberg, Jean-Benoit Peltier, Andrea Rudella, Qi Sun, Klaas J van Wijk (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:(2) 478-99[MSMS]

Ryan Lister, Orinda Chew, May-Nee Lee, Joshua L Heazlewood, Rachel Clifton, Karen L Parker, A Harvey Millar, James Whelan (2004) A transcriptomic and proteomic characterization of the Arabidopsis mitochondrial protein import apparatus and its response to mitochondrial dysfunction
Plant Physiol 134:(2) 777-89[MSMS]

Orinda Chew, Ryan Lister, Soumya Qbadou, Joshua L Heazlewood, Jurgen Soll, Enrico Schleiff, A Harvey Millar, James Whelan (2004) A plant outer mitochondrial membrane protein with high amino acid sequence identity to a chloroplast protein import receptor.
FEBS Lett 557:(1-3) 109-14[MSMS, GFP]

Wojciech Szponarski, Nicolas Sommerer, Jean-Christophe Boyer, Michel Rossignol, Rémy Gibrat (2004) Large-scale characterization of integral proteins from Arabidopsis vacuolar membrane by two-dimensional liquid chromatography
Proteomics 4:(2) 397-406[MSMS]

Nicolas L Taylor, Joshua L Heazlewood, David A Day, A Harvey Millar (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:(2) 838-48[MSMS]

Torsten Kleffmann, Doris Russenberger, Anne von Zychlinski, Wayne Christopher, Kimmen Sjölander, Wilhelm Gruissem, Sacha Baginsky (2004) The Arabidopsis thaliana chloroplast proteome reveals pathway abundance and novel protein functions
Curr Biol 14:(5) 354-62[MSMS]

Anne Marmagne, Marie-Aude Rouet, Myriam Ferro, Norbert Rolland, Carine Alcon, Jacques Joyard, Jérome Garin, Hélène Barbier-Brygoo, Geneviève Ephritikhine (2004) Identification of new intrinsic proteins in Arabidopsis plasma membrane proteome
Mol Cell Proteomics 3:(7) 675-91[MSMS, GFP]

A R Slabas, B Ndimba, W J Simon, S Chivasa (2004) Proteomic analysis of the Arabidopsis cell wall reveals unexpected proteins with new cellular locations.
Biochem. Soc. Trans. 32:(Pt3) 524-8[MSMS]

Taise Shimaoka, Miwa Ohnishi, Takashi Sazuka, Naoto Mitsuhashi, Ikuko Hara-Nishimura, Ken-Ichiro Shimazaki, Masayoshi Maeshima, Akiho Yokota, Ken-Ichi Tomizawa, Tetsuro Mimura (2004) Isolation of intact vacuoles and proteomic analysis of tonoplast from suspension-cultured cells of Arabidopsis thaliana.
Plant Cell Physiol 45:(6) 672-83[MSMS]

Sabine Brugière, Solène Kowalski, Myriam Ferro, Daphné Seigneurin-Berny, Stéphane Miras, Daniel Salvi, Stéphane Ravanel, Pierre d'Hérin, Jérôme Garin, Jacques Bourguignon, Jacques Joyard, Norbert Rolland (2004) The hydrophobic proteome of mitochondrial membranes from Arabidopsis cell suspensions
Phytochemistry 65:(12) 1693-707[MSMS]

Thomas S Nühse, Allan Stensballe, Ole N Jensen, Scott C Peck (2004) Phosphoproteomics of the Arabidopsis plasma membrane and a new phosphorylation site database
Plant Cell 16:(9) 2394-405[MSMS]

Jean-Benoit Peltier, A Jimmy Ytterberg, Qi Sun, Klaas J van Wijk (2004) New functions of the thylakoid membrane proteome of Arabidopsis thaliana revealed by a simple, fast, and versatile fractionation strategy
J Biol Chem 279:(47) 49367-83[MSMS]

Clay Carter, Songqin Pan, Jan Zouhar, Emily L Avila, Thomas Girke, Natasha V Raikhel (2004) The vegetative vacuole proteome of Arabidopsis thaliana reveals predicted and unexpected proteins
Plant Cell 16:(12) 3285-303[MSMS]

Erik Alexandersson, Gerhard Saalbach, Christer Larsson, Per Kjellbom (2004) Arabidopsis plasma membrane proteomics identifies components of transport, signal transduction and membrane trafficking
Plant Cell Physiol 45:(11) 1543-56[MSMS]

A Harvey Millar, Holger Eubel, Lothar Jänsch, Volker Kruft, Joshua L Heazlewood, Hans-Peter Braun (2004) Mitochondrial cytochrome c oxidase and succinate dehydrogenase complexes contain plant specific subunits
Plant Mol Biol 56:(1) 77-90[MSMS]

T P J Dunkley, R Watson, J L Griffin, P Dupree, K S Lilley (2004) Localization of organelle proteins by isotope tagging (LOPIT).
Mol. Cell Proteomics 3:(11) 1128-34[MSMS]

Sosuke Iwai, Atsushi Ishiji, Issei Mabuchi, Kazuo Sutoh (2004) A novel actin-bundling kinesin-related protein from Dictyostelium discoideum.
J. Biol. Chem. 279:(6) 4696-704[MSMS]

Juan J Sironi, Toru Ouchi (2004) STAT1-induced apoptosis is mediated by caspases 2, 3, and 7.
J. Biol. Chem. 279:(6) 4066-74[MSMS]

Véronique Neaud, Jennifer Gillibert Duplantier, Claire Mazzocco, Walter Kisiel, Jean Rosenbaum (2004) Thrombin up-regulates tissue factor pathway inhibitor-2 synthesis through a cyclooxygenase-2-dependent, epidermal growth factor receptor-independent mechanism.
J. Biol. Chem. 279:(7) 5200-6[MSMS]

Ivan Orlandi, Maurizio Bettiga, Lilia Alberghina, Marina Vai (2004) Transcriptional profiling of ubp10 null mutant reveals altered subtelomeric gene expression and insurgence of oxidative stress response.
J. Biol. Chem. 279:(8) 6414-25[MSMS]

Eugenia Costamagna, Bibian García, Pilar Santisteban (2004) The functional interaction between the paired domain transcription factor Pax8 and Smad3 is involved in transforming growth factor-beta repression of the sodium/iodide symporter gene.
J. Biol. Chem. 279:(5) 3439-46[MSMS]

Simon J Atkinson, Melanie A Hosford, Bruce A Molitoris (2004) Mechanism of actin polymerization in cellular ATP depletion.
J. Biol. Chem. 279:(7) 5194-9[MSMS]

Toshiyuki Murai, Yoshihiro Miyazaki, Hitomi Nishinakamura, Kazuki N Sugahara, Takayuki Miyauchi, Yasushi Sako, Toshio Yanagida, Masayuki Miyasaka (2004) Engagement of CD44 promotes Rac activation and CD44 cleavage during tumor cell migration.
J. Biol. Chem. 279:(6) 4541-50[MSMS]

Vi Pham, John D Wade, Brooke W Purdue, Patrick M Sexton (2004) Spatial proximity between a photolabile residue in position 19 of salmon calcitonin and the amino terminus of the human calcitonin receptor.
J. Biol. Chem. 279:(8) 6720-9[MSMS]

Fausto Andreola, Graham P Hayhurst, Gang Luo, Stephen S Ferguson, Frank J Gonzalez, Joyce A Goldstein, Luigi M De Luca (2004) Mouse liver CYP2C39 is a novel retinoic acid 4-hydroxylase. Its down-regulation offers a molecular basis for liver retinoid accumulation and fibrosis in aryl hydrocarbon receptor-null mice.
J. Biol. Chem. 279:(5) 3434-8[MSMS]

Soochong Kim, Jianguo Jin, Satya P Kunapuli (2004) Akt activation in platelets depends on Gi signaling pathways.
J. Biol. Chem. 279:(6) 4186-95[MSMS]

Om P Srivastava, Marion C Kirk, Kiran Srivastava (2004) Characterization of covalent multimers of crystallins in aging human lenses.
J. Biol. Chem. 279:(12) 10901-9[MSMS]

Catarina Sacristán, María Isabel Tussié-Luna, Sheila M Logan, Ananda L Roy (2004) Mechanism of Bruton's tyrosine kinase-mediated recruitment and regulation of TFII-I.
J. Biol. Chem. 279:(8) 7147-58[MSMS]

Peizhen Yang, Hongyong Fu, Joseph Walker, Charles M Papa, Jan Smalle, Yu-Ming Ju, Richard D Vierstra (2004) Purification of the Arabidopsis 26 S proteasome: biochemical and molecular analyses revealed the presence of multiple isoforms.
J. Biol. Chem. 279:(8) 6401-13[PPI, MSMS]

Douglas E Albrecht, Stanley C Froehner (2004) DAMAGE, a novel alpha-dystrobrevin-associated MAGE protein in dystrophin complexes.
J. Biol. Chem. 279:(8) 7014-23[MSMS]

Jodel Giraud, Rebecca Leshan, Yong-Hee Lee, Morris F White (2004) Nutrient-dependent and insulin-stimulated phosphorylation of insulin receptor substrate-1 on serine 302 correlates with increased insulin signaling.
J. Biol. Chem. 279:(5) 3447-54[MSMS]

Sunghoon Kim, Claire Domon-Dell, Junghee Kang, Dai H Chung, Jean-Noel Freund, B Mark Evers (2004) Down-regulation of the tumor suppressor PTEN by the tumor necrosis factor-alpha/nuclear factor-kappaB (NF-kappaB)-inducing kinase/NF-kappaB pathway is linked to a default IkappaB-alpha autoregulatory loop.
J. Biol. Chem. 279:(6) 4285-91[MSMS]

Andrea A Ludwig, Tina Romeis, Jonathan D G Jones (2004) CDPK-mediated signalling pathways: specificity and cross-talk.
J. Exp. Bot. 55:(395) 181-8[MSMS]

Rainer Saedler, Ian T Baldwin (2004) Virus-induced gene silencing of jasmonate-induced direct defences, nicotine and trypsin proteinase-inhibitors in Nicotiana attenuata.
J. Exp. Bot. 55:(395) 151-7[MSMS]

A Harvey Millar, Joshua L Heazlewood (2003) Genomic and proteomic analysis of mitochondrial carrier proteins in Arabidopsis
Plant Physiol 131:(2) 443-53[MSMS]

V L Herald, J L Heazlewood, D A Day, A H Millar (2003) Proteomic identification of divalent metal cation binding proteins in plant mitochondria.
FEBS Lett 537:(1-3) 96-100[MSMS]

Véronique Santoni, Joëlle Vinh, Delphine Pflieger, Nicolas Sommerer, Christophe Maurel (2003) A proteomic study reveals novel insights into the diversity of aquaporin forms expressed in the plasma membrane of plant roots
Biochem J 373:(Pt 1) 289-96[MSMS]

J L Heazlewood, J Whelan, A H Millar (2003) The products of the mitochondrial orf25 and orfB genes are FO components in the plant F1FO ATP synthase.
FEBS Lett 540:(1-3) 201-5[PPI, MSMS]

Myriam Ferro, Daniel Salvi, Sabine Brugière, Stéphane Miras, Solène Kowalski, Mathilde Louwagie, Jérôme Garin, Jacques Joyard, Norbert Rolland (2003) Proteomics of the chloroplast envelope membranes from Arabidopsis thaliana
Mol Cell Proteomics 2:(5) 325-45[MSMS]

Georg H H Borner, Kathryn S Lilley, Timothy J Stevens, Paul Dupree (2003) Identification of glycosylphosphatidylinositol-anchored proteins in Arabidopsis. A proteomic and genomic analysis
Plant Physiol 132:(2) 568-77[MSMS]

Joshua L Heazlewood, Katharine A Howell, A Harvey Millar (2003) Mitochondrial complex I from Arabidopsis and rice: orthologs of mammalian and fungal components coupled with plant-specific subunits.
Biochim Biophys Acta 1604:(3) 159-69[PPI, MSMS]

John E Froehlich, Curtis G Wilkerson, W Keith Ray, Rosemary S McAndrew, Katherine W Osteryoung, Douglas A Gage, Brett S Phinney (2003) Proteomic study of the Arabidopsis thaliana chloroplastic envelope membrane utilizing alternatives to traditional two-dimensional electrophoresis.
J Proteome Res 2:(4) 413-25[MSMS]

Orinda Chew, James Whelan, A Harvey Millar (2003) Molecular definition of the ascorbate-glutathione cycle in Arabidopsis mitochondria reveals dual targeting of antioxidant defenses in plants
J Biol Chem 278:(47) 46869-77[MSMS, GFP]

Holger Eubel, Lothar Jänsch, Hans-Peter Braun (2003) New insights into the respiratory chain of plant mitochondria. Supercomplexes and a unique composition of complex II.
Plant Physiol 133:(1) 274-86[PPI, MSMS]

Tomasz T Calikowski, Tea Meulia, Iris Meier (2003) A proteomic study of the arabidopsis nuclear matrix
J Cell Biochem 90:(2) 361-78[MSMS]

Thomas S Nühse, Allan Stensballe, Ole N Jensen, Scott C Peck (2003) Large-scale analysis of in vivo phosphorylated membrane proteins by immobilized metal ion affinity chromatography and mass spectrometry
Mol Cell Proteomics 2:(11) 1234-43[MSMS]

Felix Elortza, Thomas S Nühse, Leonard J Foster, Allan Stensballe, Scott C Peck, Ole N Jensen (2003) Proteomic analysis of glycosylphosphatidylinositol-anchored membrane proteins
Mol Cell Proteomics 2:(12) 1261-70[MSMS]

Yoichiro Fukao, Makoto Hayashi, Ikuko Hara-Nishimura, Mikio Nishimura (2003) Novel glyoxysomal protein kinase, GPK1, identified by proteomic analysis of glyoxysomes in etiolated cotyledons of Arabidopsis thaliana.
Plant Cell Physiol 44:(10) 1002-12[MSMS]

Gisèle Borderies, Elisabeth Jamet, Claude Lafitte, Michel Rossignol, Alain Jauneau, Georges Boudart, Bernard Monsarrat, Marie-Thérèse Esquerré-Tugayé, Alain Boudet, Rafael Pont-Lezica (2003) Proteomics of loosely bound cell wall proteins of Arabidopsis thaliana cell suspension cultures: a critical analysis
Electrophoresis 24:(19-20) 3421-32[MSMS]

Min Seok Bae, Eun Ju Cho, Eun-Young Choi, Ohkmae K Park (2003) Analysis of the Arabidopsis nuclear proteome and its response to cold stress.
Plant J 36:(5) 652-63[MSMS]

Wolf Werhahn, Lothar Jänsch, Hans-Peter Braun (2003) Identification of novel subunits of the TOM complex from Arabidopsis thaliana
Plant Physiology and Biochemistry 41:(5) 407-416[MSMS]

Maria Schubert, Ulrika A Petersson, Brian J Haas, Christiane Funk, Wolfgang P Schröder, Thomas Kieselbach (2002) Proteome map of the chloroplast lumen of Arabidopsis thaliana
J Biol Chem 277:(10) 8354-65[MSMS]

Jean-Benoît Peltier, Olof Emanuelsson, Dário E Kalume, Jimmy Ytterberg, Giulia Friso, Andrea Rudella, David A Liberles, Linda Söderberg, Peter Roepstorff, Gunnar von Heijne, Klaas J van Wijk (2002) Central functions of the lumenal and peripheral thylakoid proteome of Arabidopsis determined by experimentation and genome-wide prediction.
Plant Cell 14:(1) 211-36[MSMS]

Wolf Werhahn, Hans-Peter Braun (2002) Biochemical dissection of the mitochondrial proteome from Arabidopsis thaliana by three-dimensional gel electrophoresis
Electrophoresis 23:(4) 640-6[PPI, MSMS]

Youichiro Fukao, Makoto Hayashi, Mikio Nishimura (2002) Proteomic analysis of leaf peroxisomal proteins in greening cotyledons of Arabidopsis thaliana.
Plant Cell Physiol 43:(7) 689-96[MSMS]

L J Sweetlove, J L Heazlewood, V Herald, R Holtzapffel, D A Day, C J Leaver, A H Millar (2002) The impact of oxidative stress on Arabidopsis mitochondria.
Plant J 32:(6) 891-904[MSMS]

W Werhahn, A Niemeyer, L Jänsch, V Kruft, U K Schmitz, H Braun (2001) Purification and characterization of the preprotein translocase of the outer mitochondrial membrane from Arabidopsis. Identification of multiple forms of TOM20.
Plant Physiol 125:(2) 943-54[MSMS]

J B Peltier, J Ytterberg, D A Liberles, P Roepstorff, K J van Wijk (2001) Identification of a 350-kDa ClpP protease complex with 10 different Clp isoforms in chloroplasts of Arabidopsis thaliana
J Biol Chem 276:(19) 16318-27[MSMS]

V Kruft, H Eubel, L Jänsch, W Werhahn, H P Braun (2001) Proteomic approach to identify novel mitochondrial proteins in Arabidopsis.
Plant Physiol 127:(4) 1694-710[MSMS]

A H Millar, L J Sweetlove, P Giegé, C J Leaver (2001) Analysis of the Arabidopsis mitochondrial proteome.
Plant Physiol 127:(4) 1711-27[MSMS]