Dr. Robert Winkler

Position:  Investigador Cinvestav 3B, SNI II

Telephone: +52 (462) 623 9635


Laboratory of biochemical and instrumental analysis




Author Profiles

Google ScholarORCID, ResearcherIDResearchGate, Scopus


  • S Martínez-Jarquín, R Winkler. (2017). Low-temperature plasma (LTP) jets for mass spectrometry (MS): Ion processes, instrumental set-ups, and application examples. TrAC Trends in Analytical Chemistry 89, 133-145.
  • Martha Rendón-Anaya, Josaphat M Montero-Vargas, Soledad Saburido-Álvarez, Anna Vlasova, Salvador Capella-Gutierrez, José Juan Ordaz-Ortiz, O Mario Aguilar, Rosana P Vianello-Brondani, Marta Santalla, Luis Delaye, Toni Gabaldón, Paul Gepts, Robert Winkler, Roderic Guigó, Alfonso Delgado-Salinas, Alfredo Herrera-Estrella. (2017). Genomic history of the origin and domestication of common bean unveils its closest sister species. Genome Biology 18 (1), 60.
  •  Sandra Martínez-Jarquín,  Abigail Moreno-Pedraza,  Daniel Cázarez-García,  Robert Winkler (2017). Automated chemical fingerprinting of Mexican spirits derived from Agave (tequila and mezcal) using direct-injection electrospray ionisation (DIESI) and low-temperature plasma (LTP) mass spectrometry. Analytical Methods (RSC). in press.
  • A Tiessen, EA Cubedo-Ruiz, R Winkler. (2017). Improved Representation of Biological Information by Using Correlation as Distance Function for Heatmap Cluster Analysis. American Journal of Plant Sciences 8 (03), 502.
  • Albert Krewinkel, Robert Winkler. (2017). Formatting Open Science: agilely creating multiple document formats for academic manuscripts with Pandoc Scholar, PeerJ Computer Science, , 3:e112 .
  • Gamboa-Becerra, R., Montero-Vargas, J. M., Martínez-Jarquín, S., Gálvez-Ponce, E., Moreno-Pedraza, A., and Winkler, R. (2017). Rapid Classification of Coffee Products by Data Mining Models from Direct Electrospray and Plasma-Based Mass Spectrometry Analyses. Food Anal. Methods, 10, 1359–1368.
  • López-Castillo, L. M., Jiménez-Sandoval, P., Baruch-Torres, N., Trasviña-Arenas, C. H., Díaz-Quezada, C., Lara-González, S., Winkler R. and Luis G. Brieba (2016). Structural Basis for Redox Regulation of Cytoplasmic and Chloroplastic Triosephosphate Isomerases from Arabidopsis thaliana. Front. Plant Sci. 7.
  • Martínez-Jarquín, S., Moreno-Pedraza, A., Guillén-Alonso, H., and Winkler, R. (2016). Template for 3D Printing a Low-Temperature Plasma Probe. Anal. Chem. 88, 6976–6980.
  • Mejía-Giraldo, J. C., Winkler, R., Gallardo, C., Sánchez-Zapata, A. M., and Puertas-Mejía, M. A. (2016). Photoprotective Potential of Baccharis antioquensis (Asteraceae) as Natural Sunscreen. Photochem Photobiol 92, 742–752.
  • Winkler R.: Popper and the Omics. Frontiers in Plant Science, 7, 2016.
  • Winkler R.: An evolving computational platform for biological mass spectrometry: workflows, statistics and data mining with MASSyPup64. PeerJ, 3, 2015.
  • Gamboa-Becerra R., Ramírez-Chávez E., Molina-Torres J. and Winkler R.: MSI.R scripts reveal volatile and semi-volatile features in low-temperature plasma mass spectrometry imaging (LTP-MSI) of chilli (Capsicum annuum). Analytical and Bioanalytical Chemistry, 407(19), 5673–5684, 2015.
  • López-Castillo L.M., López-Arciniega J.A., Guerrero-Rangel A., Valdés-Rodríguez S., Brieba L.G., García-Lara S. and Winkler R.: Identification of B6T173 (ZmPrx35) as the prevailing peroxidase in highly insect-resistant maize (Zea mays, p84c3) kernels by activity-directed purification. Frontiers in Plant Science, 6, 2015.
  • Barraza A., Cabrera-Ponce J.L., Gamboa-Becerra R., Luna-Martínez F., Winkler R. and Álvarez Venegas R.: The Phaseolus vulgaris PvTRX1h gene regulates plant hormone biosynthesis in embryogenic callus from common bean. Frontiers in Plant Science, 6, 2015.
  • Sotelo-Silveira M., Chauvin A.L., Marsch-Martínez N., Winkler R. and De Folter S.: Metabolic fingerprinting of Arabidopsis thaliana accessions. Frontiers in Plant Science, 6(365), 2015.

  • Robert Winkler: SpiderMass: Semantic database creation and tripartite metabolite identification strategy. Journal of Mass Spectrometry 03/2015; 50(3).
  • Abigail Moreno-Pedraza, Laura Valdes-Santiago, Laura Josefina Hernández-Valadez, Alicia Rodríguez-Sixtos Higuera, Robert Winkler, Dora Linda Guzmán-de Peña: Reduction of aflatoxin B1 during tortilla production and identification of degradation by-products by direct-injection electrospray mass spectrometry (DIESI-MS). Salud publica de Mexico 02/2015; 57(1). online article
  • Martín García-Flores, Sheila Juárez-Colunga, Adrián García-Casarrubias, Samuel Trachsel, Robert Winkler, Axel Tiessen: Metabolic Profiling of Plant Extracts Using Direct-Injection Electrospray Ionization Mass Spectrometry Allows for High-Throughput Phenotypic Characterization According to Genetic and Environmental Effects. Journal of Agricultural and Food Chemistry 01/2015; 63(3).
  • Victor Treviño, Irma-Luz Yañez-Garza, Carlos E. Rodriguez-López, Rafael Urrea-López, Maria-Lourdes Garza-Rodriguez, Hugo-Alberto Barrera-Saldaña, José G. Tamez-Peña, Robert Winkler, Rocío-Isabel Díaz de-la-Garza: GridMass: a fast two-dimensional feature detection method for LC/MS. Journal of Mass Spectrometry 01/2015; 50(1).  
  • Valdés J, Nozaki T, Sato E, Chiba Y, Nakada-Tsukui K, Villegas-Sepúlveda N, Winkler R, Azuara-Liceaga E, Mendoza-Figueroa MS, Watanabe N, Santos HJ, Saito-Nakano Y and Galindo-Rosales JM: Proteomic analysis of Entamoeba histolytica in vivo assembled pre-mRNA splicing complexes. J Proteomics, 5;111:30-45, 2014. 
  • Ortiz-Martinez M, Winkler R and García-Lara S: Preventive and therapeutic potential of peptides from cereals against cancer. J Proteomics, 111:165-183, 2014. 
  • Winkler, R.: MASSyPup—an ‘Out of the Box’solution for the analysis of mass spectrometry data. Journal of Mass Spectrometry 49(1), 37-42, 2014, 
  • Maldonado-Torres M., López-Hernández J.F., Jiménez-Sandoval P. and Winkler R.: ‘Plug and Play’Assembly of a Low-Temperature Plasma Ionization Mass Spectrometry Imaging (LTP-MSI) System. Journal of Proteomics, 102:60-65, 2014, 

  • Bretschneider T., Heim J.B., Heine D., Winkler R., Busch B., Kusebauch B., Stehle T., Zocher G., Hertweck C.: Vinylogous chain branching catalysed by a dedicated polyketide synthase module. Nature, 502 (7469), 124-128, 2013, 
  • Montero-Vargas J.M., González-González L.H., Galvez-Ponce E., Ramírez-Chávez E., Molina-Torres J., Chagolla A., Montagnon C. and Winkler R.: Metabolic phenotyping for the classification of coffee trees and the exploration of selection markers. Mol Biosyst,  9, 693-699, 2013, 
  • Martínez-Jarquín S. and Winkler R.: Design of a low-temperature plasma (LTP) probe with adjustable output temperature and variable beam diameter for the direct detection of organic molecules. Rapid Commun Mass Spectrom, 27, 629–634, 2013 ,

  • Yasui M.T., Mata-Gómez M.A. and Winkler R.: Lysine-directed staining of proteins for MS-based analyses. ELECTROPHORESIS, 34, 401–404, 2013 , LinkClick.aspx
  • Tefsen B., Lagendijk E.L., Park J., Akeroyd M., Schachtschabel D., Winkler R., van Die I. and Ram A.F.J.: Fungal alpha-arabinofuranosidases of glycosyl hydrolase families 51 and 54 show a dual arabinofuranosyl- and galactofuranosyl-hydrolyzing activity. Biol Chem, 393(8), 767–775, 2012,
  • García-Flores M., Juárez-Colunga S., Montero-Vargas S.M., López-Arciniega J.A.I., Chagolla A., Tiessen A. and  Winkler R.: Evaluating the physiological state of maize (Zea mays L.) plants by direct-injection electrospray mass spectrometry (DIESI-MS). Molecular BioSystems, 8(6):1658-60, 2012, 
  • Wartenberg D., Vödisch M., Kniemeyer O., Albrecht-Eckardt D., Scherlach K., Winkler R., Weide M. and Brakhage A.A.: Proteome analysis of the farnesol-induced stress response in Aspergillus nidulans - the role of a putative dehydrin. Journal of Proteomics, 75(13), 4038–4049, 2012,  
  • Valdes-Santiago L., Cervantes-Chavez J.A., Winkler R., León-Ramírez C.G. and Ruiz-Herrera J.: Phenotypic comparison of samdc and spe mutants reveals complex relationships of polyamine metabolism in Ustilago maydis. Microbiology, 158(Pt. 3): 674-684, 2012,
  • Mata-Gómez M.A. , Yasui M.T. , Guerrero-Rangel A. , Valdés-Rodríguez S. , Winkler R .: Accelerated Identification of Proteins by Mass Spectrometry by Employing Covalent Pre-Gel Staining with Uniblue A. PLoS ONE, 7(2): e31438, 2012,

  • Rawat R., Sandoval F.J., Wei Z., Winkler R. and Roje S.: An FMN hydrolase of the Haloacid dehalogenase superfamily is active in plant chloroplasts. Journal of Biological Chemistry, 286(49): 42091-42098, 2011,

  • Kiehntopf M., Schmerler D., Brunkhorst F.M., Winkler R., Ludewig K., Osterloh D., Bloos F., Reinhart K. and Deufel T.: Mass spectometry-based protein patterns in the diagnosis of sepsis/systemic inflammatory response syndrome. SHOCK, 36(6): 560-569, 2011, 
  • Fries A., Bretschneider T., Winkler R. and Hertweck C.: A ribonucleotide reductase-like electron transfer system in the nitroaryl-forming N-Oxygenase AurF. ChemBioChem, 12(12):1832-1835, 2011, LinkClick.aspx
  • Vödisch M., Scherlach K., Winkler R., Hertweck C., Braun H.P., Roth M., Haas H., Werner E.R., Brakhage A.A. and Kniemeyer O.: Analysis of the Aspergillus fumigatus proteome reveals metabolic changes and the activation of the pseurotin A biosynthesis gene cluster in response to hypoxia. Journal of proteome research, 10(5), 2508–2524, 2011,
  • González-González M., Mayolo-Deloisa K., Rito-Palomares M. and Winkler R. Colorimetric protein quantification in aqueous two-phase systems. Process Biochem, 46(1), 413-417, 2011,
  • Burmester A., Shelest E., Glöckner G., Heddergott C., Schindler S., Staib P., Heidel A., Felder M., Petzold A., Szafranski K., Winkler R., Li W., Kniemeyer O., Schroeckh V., Hertweck C., Hube B., White T.C., Platzer M., Guthke R., Heitman J., Wöstemeyer J., Zipfel P.F., Monod M. and Brakhage A.A.: Comparative and functional genomics provide insights into the pathogenicity of dermatophytic fungi. Genome Biol, 12(1), 1–16, 2011,
  • Winkler R. and García-Lara S.: Activity-directed identi?cation of maize kernel  peroxidases associated with postharvest insect resistance. Molecular BioSystems, 6(10), 1810-1812, 2010,
  • Fries A., Winkler R. and Hertweck C.: Structural and biochemical basis for the firm chemo- and regioselectivity of the nitro-forming N-oxygenase AurF. Chem Commun, 46(41), 7760-7762, 2010,
  • Winkler R.: ESIprot: A universal tool for charge state determination and molecular weight calculation of proteins from electrospray ionization mass spectrometry data. Rapid Commun Mass Spectrom, 24(3),  285-294, 2010,
  • Vödisch M., Scherlach K., Winkler R., Hertweck C., Horn U., Brakhage A.A. and Kniemeyer O.: Meeting Abstract: Characterisation of the hypoxic response of the human-pathogenic fungus Aspergillus fumigatus by 2D-gel electrophoresis. INFECTION, 37(Suppl. 3), 2009
  • Melle C., Ernst G., Winkler R., Schimmel B., Klussmann J.P., Wittekindt C., Guntinas-Lichius O. and von Eggeling F.: Proteomic analysis of human papillomavirus-related oral squamous cell carcinoma: Identification of thioredoxin and epidermal-fatty acid binding protein as upregulated protein markers in microdissected tumor tissue. Proteomics, 9(8), 2193­-2201, 2009,
  • Meiller T.F., Hube B., Schild L., Shirtliff M.E., Scheper M.A., Winkler R., Ton A. and Jabra-Rizk M.A.: A novel immune evasion strategy of Candida albicans: Proteolytic cleavage of a salivary antimicrobial peptide. PLoS ONE, 4(4), 1­-9, 2009,
  • Lackner G., Möbius N., Scherlach K., Partida-Martinez L.P., Winkler R., Schmitt I. and Hertweck C.: Global distribution and evolution of a toxinogenic burkholderia-rhizopus symbiosis. Appl Environ Microbiol, 25(9), 2982­-2986, 2009,
  • Vödisch M., Albrecht D., Leßing F., Schmidt A.D., Winkler R., Guthke R., Brakhage A.A. and Kniemeyer O.: Two-dimensional proteome reference maps for the human pathogenic filamentous fungus Aspergillus fumigatus. Proteomics, 9(5), 1407­-1415, 2009,
  • Schmaler-Ripcke J., Sugareva V., Gebhardt P., Winkler R., Kniemeyer O., Heinekamp T. and Brakhage A.A.: The tyrosine degradation pathway in Aspergillus fumigatus leads to pyomelanin, a second type of melanin. Appl Environ Microbiol, 75(2), 493­-503, 2009,
  • Wartenberg D., Kniemeyer O., Shelest E., Heinekamp T., Teutschbein J., Winkler R. and Brakhage A.A.: Meeting abstract: Secretome analysis of the human pathogen Aspergillus fumigatus. Mycoses, 51(5), 435­-436, 2008
  • Vödisch M., Kniemeyer O., Albrecht D., Lessing F., Winkler R. and Brakhage A.A.: Meeting abstract: Two-dimensional reference map of the mycelial proteome and mitochondrial sub-proteome of Aspergillus fumigatus. Mycoses, 51(5), 422, 2008
  • Heddergott C., Kniemeyer O., Winkler R., Wöstemeyer J. and Brakhage A.A.: Meeting abstract: in-vitro analysis of proteins secreted by Arthroderma benhamiae. Mycoses, 51(5), 408­-409, 2008
  • Winkler R.: Biosynthese von Nitroverbindungen. Biospektrum, 14(4), 434, 2008,
  • Schmitt I., Partida-Martinez L.P.P., Winkler R., Voigt K., Einax E., Dölz F., Telle S., Wöstemeyer J. and Hertweck C.: Evolution of host resistance in a toxin-producing bacterial-fungal alliance. ISME J, 2(6), 632­-641, 2008,
  • Winkler R., Zocher G., Richter I., Friedrich T., Schulz G.E. and Hertweck C.: "Hot paper": A binuclear manganese cluster that catalyzes radical-mediated N -oxygenation. Angew Chem Int Ed Engl, 46(45), 8605-­8608, 2007,
  • Zocher G., Winkler R., Hertweck C. and Schulz G.E.: Structure and action of the N -oxygenase AurF from Streptomyces thioluteus. J Mol Biol, 373(1), 65­-74, 2007,
  • Teichmann K., Winkler R., Hampel K., Trümpler A., Böhmer F.D. and Imhof D.: Monitoring phosphatase reactions of multiple phosphorylated substrates by reversed-phase HPLC. J Chromatogr B Analyt Technol Biomed Life Sci, 853(1-2), 204­-213, 2007,
  • Winkler R. and Hertweck C.: Biosynthesis of nitro compounds. Chembiochem, 8(9), 973­-977, 2007,
  • Winkler R., Richter M.E.A., Knüpfer U., Merten D. and Hertweck C.: "Hot paper": Regio- and chemoselective enzymatic N-oxygenation in vivo, in vitro, and in flow. Angew Chem Int Ed Engl, 45(47), 8016­-8018, 2006,
  • Reiber K., Reeves E.P., Neville C.M., Winkler R., Gebhardt P., Kavanagh K. and Doyle S.: The expression of selected non-ribosomal peptide synthetases in Aspergillus fumigatus is controlled by the availability of free iron. FEMS Microbiol Lett, 248(1), 83­-91, 2005,
  • Winkler R. and Hertweck C.: Sequential enzymatic oxidation of aminoarenes to nitroarenes via hydroxylamines. Angew Chem Int Ed Engl, 44(26), 4083­-4087, 2005,