PhD Program

2019

Journal Article

Wang, Y.; Garrido-Oter, R.; Wu, J.; Winkelmueller, T. M.; Agler, M.T.; Colby, T.; Nobori, T.; Kemen, E.; Tsuda, K.: Site-specific cleavage of bacterial MucD by secreted proteases mediates antibacterial resistance in Arabidopsis. Nature Communications 10, 2853 (2019)

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2016

Journal Article

Shindo, T.; Kaschani, F.; Yang, F.; Kovacs, J.; Tian, F.; Kourelis, J.; Hong, T. N.; Colby, T.; Shabab, M.; Chawla, R. et al.; Kumari, S.; Ilyas, M.; Hoerger, A. C.; Alfano, J. R.; Van der Hoorn, R. A. L.: Screen of Non-annotated Small Secreted Proteins of Pseudomonas syringae Reveals a Virulence Factor That Inhibits Tomato Immune Proteases. PLoS Pathogens 12 (9), e1005874 (2016)

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2015

Journal Article

Gonzalez-Rodriguez, V. E.; Lineiro, E.; Colby, T.; Harzen, A.; Garrido, C.; Manuel Cantoral, J.; Schmidt, J.; Javier Fernandez-Acero, F.: Proteomic profiling of Botrytis cinerea conidial germination. Archives of Microbiology 197 (2), pp. 117 - 133 (2015)

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DOI

2014

Journal Article

Breitenbach, H. H.; Wenig, M.; Wittek, F.; Jorda, L.; Maldonado-Alconada, A. M.; Sarioglu, H.; Colby, T.; Knappe, C.; Bichlmeier, M.; Pabst, E. et al.; Mackey, D.; Parker, J. E.; Vlot, A. C.: Contrasting Roles of the Apoplastic Aspartyl Protease APOPLASTIC, ENHANCED DISEASE SUSCEPTIBILITY1-DEPENDENT1 and LEGUME LECTIN-LIKE PROTEIN1 in Arabidopsis Systemic Acquired Resistance. Plant Physiology 165 (2), pp. 791 - 809 (2014)

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Journal Article

Chandrasekar, B.; Colby, T.; Emon, A. E. K.; Jiang, J.; Tram Hong, N.; Villamor, J. G.; Harzen, A.; Overkleeft, H. S.; Van der Hoorn, R. A. L.: Broad-range Glycosidase Activity Profiling. Molelcular & Cellular Proteomics 13 (10), pp. 2787 - 2800 (2014)

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Journal Article

Sueldo, D.; Ahmed, A.; Misas-Villamil, J.; Colby, T.; Tameling, W.; Joosten, M. H. A. J.; Van der Hoorn, R. A. L.: Dynamic hydrolase activities precede hypersensitive tissue collapse in tomato seedlings. New Phytologist 203 (3), pp. 913 - 925 (2014)

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2013

Journal Article

Delaunois, B.; Colby, T.; Belloy, N.; Conreux, A.; Harzen, A.; Baillieul, F.; Clement, C.; Schmidt, J.; Jeandet, P.; Cordelier, S.: Large-scale proteomic analysis of the grapevine leaf apoplastic fluid reveals mainly stress-related proteins and cell wall modifying enzymes. BMC PLANT BIOLOGY 13, 24 (2013)

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Journal Article

Fischer, M.; Schreiber, L. K.; Colby, T.; Kuckenberg, M.; Tacke, E.; Hofferbert, H.-R.; Schmidt, J.; Gebhardt, C.: Novel candidate genes influencing natural variation in potato tuber cold sweetening identified by comparative proteomics and association mapping. BMC Plant Biology 13, 113 (2013)

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Journal Article

Gu, C.; Shannon, D. A.; Colby, T.; Wang, Z.; Shabab, M.; Kumari, S.; Villamor, J. G.; McLaughlin , C. J.; Weerapana , E.; Kaiser, M. et al.; Cravatt, B. F.; Van der Hoorn, R. A. L.: Chemical Proteomics with Sulfonyl Fluoride Probes Reveals Selective Labeling of Functional Tyrosines in Glutathione Transferases. Cell 20 (4), pp. 541 - 548 (2013)

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DOI

Journal Article

Misas-Villamil, J.; Toenges, G.; Kolodziejek, I.; Sadaghiani, A. M.; Kaschani, F.; Colby, T.; Bogyo, M.; Van der Hoorn, R. A. L.: Activity profiling of vacuolar processing enzymes reveals a role for VPE during oomycete infection. The Plant Journal 73 (4), DOI: 10.1111/tpj.12062, pp. 689 - 700 (2013)

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Journal Article

Rabie El-Akhal, M.; Colby, T.; Cantoral, J. M.; Harzen, A.; Schmidt, J.; Javier Fernandez-Acero, F.: Proteomic analysis of conidia germination in Colletotrichum acutatum. Archives of Microbiology 195 (4), pp. 227 - 246 (2013)

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Journal Article

Roccaro, M.; Ahmadinejad, N.; Colby, T.; Somssich, I. E.: Identification of functional cis-regulatory elements by sequential enrichment from a randomized synthetic DNA library. BMC Plant Biology 13, 164 (2013)

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publisher-version

Journal Article

Rollins, J.; Habte, E.; Templer, S. E.; Colby, T.; Schmidt, J.; von Korff, M.: Leaf proteome alterations in the context of physiological and morphological responses to drought and heat stress in barley (Hordeum vulgare L.). Journal of Experimental Botany 64 (11), pp. 3201 - 3212 (2013)

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Full

ZIP

Journal Article

Villamor, J. G.; Kaschani, F.; Colby, T.; Oeljeklaus, J.; Zhao, D.; Kaiser, M.; Patricelli, M. P.; Van der Hoorn, R. A. L.: Profiling protein kinases and other ATP binding proteins in Arabidopsis using Acyl-ATP probes. Molecular and Cellular Proteomics (12), pp. 2481 - 2496 (2013)

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Journal Article

Zech, H.; Hensler, M.; Kossmehl, S.; Drueppel, K.; Woehlbrand, L.; Trautwein, K.; Hulsch, R.; Maschmann, U.; Colby, T.; Schmidt, J. et al.; Reinhardt, R.; Schmidt-Hohagen, K.; Schomburg, D.; Rabus, R.: Adaptation of Phaeobacter inhibens DSM 17395 to growth with complex nutrients. SI 13 (18-19), pp. 2851 - 2868 (2013)

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Journal Article

Zech, H.; Hensler, M.; Kossmehl, S.; Drueppel, K.; Woehlbrand, L.; Trautwein, K.; Colby, T.; Schmidt, J.; Reinhardt, R.; Schmidt-Hohagen, K. et al.; Schomburg, D.; Rabus, R.: Dynamics of amino acid utilization in Phaeobacter inhibens DSM 17395. SI 13 (18-19), pp. 2869 - 2885 (2013)

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2012

Journal Article

Kaschani, F.; Clerc, J.; Krahn, D.; Bier, D.; Hong, T. N.; Ottmann, C.; Niessen, S.; Colby, T.; Van der Hoorn, R. A. L.; Kaiser, M.: Identification of a Selective, Activity-Based Probe for Glyceraldehyde 3-Phosphate Dehydrogenases. Angewandte Chemie-International Edition in English 51 (21), pp. 5230 - 5233 (2012)

MPG.PuRe

DOI

Journal Article

March, T. J.; Richter, D.; Colby, T.; Harzen, A.; Schmidt, J.; Pillen, K.: Identification of proteins associated with malting quality in a subset of wild barley introgression lines. Proteomics 12 (18), pp. 2843 - 2851 (2012)

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Journal Article

Nickel, S.; Kaschani, F.; Colby, T.; Van der Hoorn, R. A. L.; Kaiser, M.: A para-nitrophenol phosphonate probe labels distinct serine hydrolases of Arabidopsis. Bioorganic & Medicinal Chemistry 20 (2), pp. 601 - 606 (2012)

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Journal Article

Petersen, J.; Eriksson, S.; Harryson, P.; Pierog, S.; Colby, T.; Bartels, D.; Roehrig, H.: The lysine-rich motif of intrinsically disordered stress protein CDeT11-24 from Craterostigma plantagineum is responsible for phosphatidic acid binding and protection of enzymes from damaging effects caused by desiccation. Journal of Experimental Botany 63 (13), pp. 4919 - 4929 (2012)

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Journal Article

Richau, K. H.; Kaschani, F.; Verdoes, M.; Pansuriya, T. C.; Niessen, S.; Stueber, K.; Colby, T.; Overkleeft, H. S.; Bogyo, M.; Van der Hoorn, R. A. L.: Subclassification and Biochemical Analysis of Plant Papain-Like Cysteine Proteases Displays Subfamily-Specific Characteristics. Plant Physiology 158 (4), pp. 1583 - 1599 (2012)

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DOI

Journal Article

Stolze, S. C.; Deu, E.; Kaschani, F.; Li, N.; Florea, B.I.; Richau, K. H.; Colby, T.; Van der Hoorn, R. A. L.; Overkleeft, H. S.; Bogyo, M. et al.; Kaiser, M.: The Antimalarial Natural Product Symplostatin 4 Is a Nanomolar Inhibitor of the Food Vacuole Falcipains. Chemistry & Biology 19 (12), pp. 1546 - 1555 (2012)

MPG.PuRe

DOI

Journal Article

Urbany, C.; Colby, T.; Stich, B.; Schmidt, L.; Schmidt, J.; Gebhardt, C.: Analysis of Natural Variation of the Potato Tuber Proteome Reveals Novel Candidate Genes for Tuber Bruising. Journal of Proteome Research 11 (2), pp. 703 - 716 (2012)

MPG.PuRe

DOI

Journal Article

Wahler, D.; Colby, T.; Kowalski, N. A.; Harzen, A.; Wotzka, S. Y.; Hillebrand, A.; Fischer, R.; Helsper, J.; Schmidt, J.; Schulze Gronover, C. et al.; Pruefer, D.: Proteomic analysis of latex from the rubber-producing plant Taraxacum brevicorniculatum. Proteomics 12 (6), pp. 901 - 905 (2012)

MPG.PuRe

DOI

2011

Journal Article

Van der Hoorn, R. A. L.; Colby, T.; Nickel, S.; Richau, K. H.; Schmidt, J.; Kaiser, M.: Mining the active proteome of Arabidopsis thaliana. Frontiers in Plant Science 2, 10.3389/fpls.2011.00089, p. 89 (2011)

MPG.PuRe

DOI

2010

Journal Article

Fernández-Acero, F. J.; Colby, T.; Harzen, A.; Carbú, M.; Wieneke, U.; Cantoral, J. M.; Schmidt, J.: 2-DE proteomic approach to the Botrytis cinerea secretome induced with different carbon sources and plant-based elicitors. Proteomics 10, 10.1002/pmic.200900408, pp. 2270 - 2280 (2010)

MPG.PuRe

Journal Article

Gu, C.; Kolodziejek, I.; Misas-Villamil, J.; Shindo, T.; Colby, T.; Verdoes, M.; Richau, K. H.; Schmidt, J.; Overkleeft, H. S.; Van der Hoorn, R. A. L.: Proteasome activity profiling: a simple, robust and versatile method revealing subunit-selective inhibitors and cytoplasmic, defense-induced proteasome activities. Plant Journal 62, 10.1111/j.1365-313X.2009.04122.x, pp. 160 - 170 (2010)

MPG.PuRe

2009

Journal Article

Budhiraja, R.; Hermkes, R.; Mueller, S.; Schmidt, J.; Colby, T.; Panigrahi, K.; Coupland, G.; Bachmair, A.: Substrates Related to Chromatin and to RNA-Dependent Processes Are Modified by Arabidopsis SUMO Isoforms That Differ in a Conserved Residue with Influence on Desumoylation. Plant Physiology 149 (3), pp. 1529 - 1540 (2009)

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publisher-version

Journal Article

Fernández-Acero, F. J.; Colby, T.; Harzen, A.; Cantoral, J. M.; Schmidt, J.: Proteomic Analysis of the Phytopathogenic Fungus Botrytis cinerea During Cellulose Degradation. Proteomics 9, pp. 2892 - 2902 (2009)

MPG.PuRe

Journal Article

Noir, S.; Colby, T.; Harzen, A.; Schmidt, J.; Panstruga, R.: A proteomic analysis of powdery mildew (Blumeria graminis f.sp. hordei) conidiospores. Molecular Plant Pathology 10, pp. 223 - 236 (2009)

MPG.PuRe

2008

Journal Article

Fernández-Acero, F. J.; Colby, T.; Harzen, A.; Wieneke, U.; Garrido, C.; Carbú, M.; Vallejo, I.; Schmidt, J.; Cantoral, J. M.: Analysis of Botrytis cineria secretome. Journal of Plant Pathology 90 (S2), p. 197 - 197 (2008)

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Journal Article

Röhrig, H.; Colby, T.; Schmidt, J.; Harzen, A.; Facchinelli, F.; Bartels, D.: Analysis of desiccation-induced candidate phosphoproteins from Caterostigma plantagineum isolated with a modified metal oxide affinity chromatography procedur. Proteomics 8, pp. 3548 - 3560 (2008)

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Journal Article

Shabab, M.; Shindo, T.; Gu, C.; Kaschani, F.; Pansuriya, T.; Chintha, R.; Harzen, A.; Colby, T.; Kamoun, S.; Van der Hoorn, R. A. L.: Fungal effector protein AVR2 targets diversifying defense-related Cys proteases of tomato. Plant Cell 20 (4), pp. 1169 - 1183 (2008)

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publisher-version

Journal Article

Wang, Z.; Gu, C.; Colby, T.; Shindo, T.; Balamurugan, R.; Waldmann, H.; Kaiser, M.; Van der Hoorn, R. L.: beta-Lactone probes identify a papain-like peptide ligase in Arabidopsis thaliana. Nature Chemical Biology 4, doi:10.1038/nchembio.104, pp. 557 - 563. (2008)

MPG.PuRe

2007

Journal Article

Böhmer, M.; Colby, T.; Böhmer, C.; Bräutigam, A.; Schmidt, J.; Bölker, M.: Proteomic analysis of dimorphic transition in the phytopathogenic fungus Ustilago maydis. Proteomics 7 (6), pp. 675 - 685 (2007)

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publisher-version

Journal Article

Noël, L. D.; Cagna, G.; Stuttmann, J.; Wirthmueller, L.; Betsuyaku, S.; Witte, C.-P.; Bhat, R.; Pochon, N.; Colby, T.; Parker, J. E.: Interaction between SGT1 and Cytosolic/Nuclear HSC70 Chaperones Regulates Arabidopsis Immune Responses. Plant Cell Online 19, pp. 4061 - 4076 (2007)

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publisher-version

Journal Article

Voloshchuk, N.; Knop, M.; Colby, T.; Kombrink, E.; Hennig, L.; Hofmann, D.; Sicker, D.; Gryganski, A.; Schulz, M.: How Doratomyces stemonitis copes with Benzoxazolin-2(3H)-one (BOA), its derivatives and detoxification products. Chemoecology 17, pp. 1 - 12 (2007)

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publisher-version

2006

Journal Article

Colby, T.; Matthai, A.; Boeckelmann, A.; Stuible, H.-P.: SUMO-Conjugating and SUMO-Deconjugating Enzymes from Arabidopsis. Plant Physiology 142 (1), pp. 318 - 332 (2006)

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Journal Article

Röhrig, H.; Schmidt, J.; Colby, T.; Bräutigam, A.; Hufnagel, P.; Bartels, D.: Desiccation of the resurrection plant Craterostigma plantagineum induces dynamic changes in protein phosphorylation. Plant Cell and Environment 29 (8), pp. 1606 - 1617 (2006)

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2005

Journal Article

Colby, T.; Hufnagel, P.; Lubeck, M.; Suckau, D.; Baessmann, C.; Schmidt, J.; Röhrig, H.: A strategy for phosphoproteomics that integrates various gel- and MS-based techniques. Molecular & Cellular Proteomics 4 (8, Suppl. 1), p. S276 - S276 (2005)

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publisher-version

Journal Article

Noir, S.; Brautigam, A.; Colby, T.; Schmidt, J.; Panstruga, R.: A reference map of the Arabidopsis thaliana mature pollen proteome. Biochemical and Biophysical Research Communications 337 (4), pp. 1257 - 1266 (2005)

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Journal Article

Schneider, K.; Kienow, L.; Schmelzer, E.; Colby, T.; Bartsch, M.; Miersch, O.; Wasternack, C.; Kombrink, E.; Stuible, H.-P.: A new type of peroxisomal acyl-coenzyme A synthetase from Arabidopsis thaliana has the catalytic capacity to activate biosynthetic precursors of jasmonic acid. Journal of Biological Chemistry 280 (14), pp. 13962 - 13972 (2005)

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Publications of T. Colby

Journal Article (42)

Book Chapter (1)