O Fiehn

Summary

Affiliation: Max Planck Institute of Molecular Plant Physiology
Country: Germany

Publications

  1. ncbi Metabolomics--the link between genotypes and phenotypes
    Oliver Fiehn
    Max Planck Institute of Molecular Plant Physiology, Potsdam, Germany
    Plant Mol Biol 48:155-71. 2002
  2. ncbi Identification of uncommon plant metabolites based on calculation of elemental compositions using gas chromatography and quadrupole mass spectrometry
    O Fiehn
    Max Planck Institute of Molecular Plant Physiology, Potsdam, Germany
    Anal Chem 72:3573-80. 2000
  3. ncbi Metabolic networks of Cucurbita maxima phloem
    Oliver Fiehn
    Max Planck Institute of Molecular Plant Physiology, D 14424, Potsdam Golm, Germany
    Phytochemistry 62:875-86. 2003
  4. ncbi Integrated studies on plant biology using multiparallel techniques
    O Fiehn
    Max Planck Institut fur Molekulare Pflanzenphysiologie, Am Muhlenberg 1, 14476 Golm, Germany
    Curr Opin Biotechnol 12:82-6. 2001
  5. ncbi Metabolite profiling for plant functional genomics
    O Fiehn
    Max Planck Institute of Molecular Plant Physiology, 14424 Potsdam, Germany
    Nat Biotechnol 18:1157-61. 2000
  6. ncbi Deciphering metabolic networks
    Oliver Fiehn
    Max Planck Institute of Molecular Plant Physiology, 14424 Potsdam Golm, Germany
    Eur J Biochem 270:579-88. 2003
  7. pmc Metabolic profiling allows comprehensive phenotyping of genetically or environmentally modified plant systems
    U Roessner
    , , 14476 Golm, Germany
    Plant Cell 13:11-29. 2001
  8. pmc Metabolite profiling of Chlamydomonas reinhardtii under nutrient deprivation
    Christian Bölling
    Max Planck Institute of Molecular Plant Physiology, 14424 Potsdam, Germany
    Plant Physiol 139:1995-2005. 2005
  9. pmc Systems rebalancing of metabolism in response to sulfur deprivation, as revealed by metabolome analysis of Arabidopsis plants
    Victoria J Nikiforova
    Max Planck Institute of Molecular Plant Physiology, Golm 14476, Germany
    Plant Physiol 138:304-18. 2005
  10. ncbi Process for the integrated extraction, identification and quantification of metabolites, proteins and RNA to reveal their co-regulation in biochemical networks
    Wolfram Weckwerth
    Max Planck Institut fur Molekulare Pflanzenphysiologie, Golm, Germany
    Proteomics 4:78-83. 2004

Detail Information

Publications48

  1. ncbi Metabolomics--the link between genotypes and phenotypes
    Oliver Fiehn
    Max Planck Institute of Molecular Plant Physiology, Potsdam, Germany
    Plant Mol Biol 48:155-71. 2002
    ..Current approaches are examined, and potential applications are summarized with a special emphasis on data mining and mathematical modelling of metabolism...
  2. ncbi Identification of uncommon plant metabolites based on calculation of elemental compositions using gas chromatography and quadrupole mass spectrometry
    O Fiehn
    Max Planck Institute of Molecular Plant Physiology, Potsdam, Germany
    Anal Chem 72:3573-80. 2000
    ..More than 15 uncommon plant metabolites were identified, some of which are novel in Arabidopsis, such as tartronate semialdehyde, citramalic acid, allothreonine, or glycolic amide...
  3. ncbi Metabolic networks of Cucurbita maxima phloem
    Oliver Fiehn
    Max Planck Institute of Molecular Plant Physiology, D 14424, Potsdam Golm, Germany
    Phytochemistry 62:875-86. 2003
    ..Using metabolic co-regulation analysis, similarities and differences between the exudate profiles were more accurately characterized through network computation, specifically with respect to nitrogen metabolism...
  4. ncbi Integrated studies on plant biology using multiparallel techniques
    O Fiehn
    Max Planck Institut fur Molekulare Pflanzenphysiologie, Am Muhlenberg 1, 14476 Golm, Germany
    Curr Opin Biotechnol 12:82-6. 2001
    ..Profiling strategies are putting this change into effect through the generation of large amounts of data, requiring that current bioinformatic approaches adapt and grow in order to make the most of these data...
  5. ncbi Metabolite profiling for plant functional genomics
    O Fiehn
    Max Planck Institute of Molecular Plant Physiology, 14424 Potsdam, Germany
    Nat Biotechnol 18:1157-61. 2000
    ..These results demonstrate the use of metabolite profiling as a tool to significantly extend and enhance the power of existing functional genomics approaches...
  6. ncbi Deciphering metabolic networks
    Oliver Fiehn
    Max Planck Institute of Molecular Plant Physiology, 14424 Potsdam Golm, Germany
    Eur J Biochem 270:579-88. 2003
    ..Methods to study such networks are reviewed with respect to data acquisition, network statistics, and biochemical interpretation...
  7. pmc Metabolic profiling allows comprehensive phenotyping of genetically or environmentally modified plant systems
    U Roessner
    , , 14476 Golm, Germany
    Plant Cell 13:11-29. 2001
    ..In summary, these data demonstrate the use of metabolic profiling in conjunction with data-mining tools as a technique for the comprehensive characterization of a plant genotype...
  8. pmc Metabolite profiling of Chlamydomonas reinhardtii under nutrient deprivation
    Christian Bölling
    Max Planck Institute of Molecular Plant Physiology, 14424 Potsdam, Germany
    Plant Physiol 139:1995-2005. 2005
    ....
  9. pmc Systems rebalancing of metabolism in response to sulfur deprivation, as revealed by metabolome analysis of Arabidopsis plants
    Victoria J Nikiforova
    Max Planck Institute of Molecular Plant Physiology, Golm 14476, Germany
    Plant Physiol 138:304-18. 2005
    ..These responses may be assembled into a global scheme of metabolic regulation induced by sulfur nutritional stress, which optimizes resources for seed production...
  10. ncbi Process for the integrated extraction, identification and quantification of metabolites, proteins and RNA to reveal their co-regulation in biochemical networks
    Wolfram Weckwerth
    Max Planck Institut fur Molekulare Pflanzenphysiologie, Golm, Germany
    Proteomics 4:78-83. 2004
    ....
  11. pmc Identification of metabolic and biomass QTL in Arabidopsis thaliana in a parallel analysis of RIL and IL populations
    Jan Lisec
    Max Planck Institute of Molecular Plant Physiology, Am Muehlenberg 1, 14476 Potsdam Golm, Germany
    Plant J 53:960-72. 2008
    ..5. This dataset thus provides a comprehensive basis for the detection of functionally relevant variation in known genes with metabolic function and for identification of genes with hitherto unknown roles in the control of metabolism...
  12. ncbi Analysis of highly polar compounds of plant origin: combination of hydrophilic interaction chromatography and electrospray ion trap mass spectrometry
    Vladimir V Tolstikov
    Department of Lothar Willmitzer, Max Planck Institute of Molecular Plant Physiology, Potsdam, 14424, Germany
    Anal Biochem 301:298-307. 2002
    ..The detection limit for stachyose was 0.5 ng per injection (Amide 80). The concentration of stachyose in investigated phloem samples was in the range of 1-7 mM depending on the plant...
  13. ncbi Can we discover novel pathways using metabolomic analysis?
    Wolfram Weckwerth
    Max Planck Institute of Molecular Plant Physiology, Department Willmitzer, 14424 Potsdam, Germany
    Curr Opin Biotechnol 13:156-60. 2002
    ..The development of metabolomic methods and tools is progressing rapidly, but an understanding of the resulting data is limited owing to a fundamental lack of biochemical and physiological knowledge about network organization in plants...
  14. ncbi Visualizing plant metabolomic correlation networks using clique-metabolite matrices
    F Kose
    Max Planck Institute of Molecular Plant Physiology, Department of Lothar Willmitzer, Postfach, 14424 Potsdam, Germany
    Bioinformatics 17:1198-208. 2001
    ..However, graph complexity rapidly increases with the number of edges and vertices. To gain structural information from metabolite correlation networks, improvements in clarity are needed...
  15. ncbi Comparative quantification and identification of phosphoproteins using stable isotope labeling and liquid chromatography/mass spectrometry
    W Weckwerth
    Max Planck Institute of Molecular Plant Physiology, 14424 Potsdam, Germany
    Rapid Commun Mass Spectrom 14:1677-81. 2000
    ..986). Additionally, the method allowed protein identification and determination of the phosphorylation sites via MS/MS fragmentation...
  16. ncbi 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
    Stefanie Wienkoop
    Max Planck Institut fur Molekulare Pflanzenphysiologie, 14424 Potsdam, Germany
    Rapid Commun Mass Spectrom 18:643-50. 2004
    ..The proposed strategy is useful to detect proteins otherwise not seen in conventional multidimensional chromatography/mass spectrometry approaches...
  17. pmc Differential metabolic networks unravel the effects of silent plant phenotypes
    Wolfram Weckwerth
    Department of Molecular Physiology, Max Planck Institute of Molecular Plant Physiology, 14424 Potsdam, Germany
    Proc Natl Acad Sci U S A 101:7809-14. 2004
    ..Metabolic alterations could be assigned to carbohydrate and amino acid metabolism even if no difference in average metabolite levels was found...
  18. ncbi Metabolite fingerprinting: detecting biological features by independent component analysis
    M Scholz
    Max Planck Institute of Molecular Plant Physiology, 14424 Potsdam, Germany
    Bioinformatics 20:2447-54. 2004
    ..Due to its independence condition, ICA is more suitable for our questions than PCA. However, ICA has not been developed for a small number of high-dimensional samples, therefore a strategy is needed to overcome this limitation...
  19. ncbi Monolithic silica-based capillary reversed-phase liquid chromatography/electrospray mass spectrometry for plant metabolomics
    Vladimir V Tolstikov
    Department Lothar Willmitzer, Max Planck Institute of Molecular Plant Physiology, 14424 Potsdam, Germany
    Anal Chem 75:6737-40. 2003
    ....
  20. pmc Robust detection and verification of linear relationships to generate metabolic networks using estimates of technical errors
    Frank Kose
    Universitaet Potsdam, Potsdam, Germany
    BMC Bioinformatics 8:162. 2007
    ..The entirety of all pair wise linear metabolic relationships then yields insights into the network of cellular regulation...
  21. ncbi Statistical methods for comparing comprehensive two-dimensional gas chromatography-time-of-flight mass spectrometry results: metabolomic analysis of mouse tissue extracts
    Robert A Shellie
    Max Planck Institute of Molecular Plant Physiology, Potsdam Golm, Germany
    J Chromatogr A 1086:83-90. 2005
    ....
  22. ncbi Metabolite profiling in Arabidopsis
    Oliver Fiehn
    Max Planck Institute of Molecular Plant Physiology, Goln, Germany
    Methods Mol Biol 323:439-47. 2006
    ..It gives experimental details on the basic steps: harvest, homogenization, extraction, fractionation, concentration, derivatization, data acquisition, raw data processing and result data tranformation...
  23. ncbi Metabolomics Standards Workshop and the development of international standards for reporting metabolomics experimental results
    Arthur L Castle
    Metabolomics and Informatics, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health NIH 6707 Democracy Blvd, Room 791, MSC 5460, Bethesda, Maryland 20892 5460, USA
    Brief Bioinform 7:159-65. 2006
    ..This report highlights specific aspects of what was presented and discussed at the 1st and 2nd August 2005 Metabolomics Standards Workshop...
  24. ncbi Application of liquid chromatography-mass spectrometry analysis in metabolomics: reversed-phase monolithic capillary chromatography and hydrophilic chromatography coupled to electrospray ionization-mass spectrometry
    Vladimir V Tolstikov
    Genome Center, University of California Davis, USA
    Methods Mol Biol 358:141-55. 2007
    ..We have demonstrated that reversed-phase monolithic capillary chromatography and hydrophilic chromatography can be successfully applied for sufficient plant crude extracts separations and metabolomics studies...
  25. pmc The metabolic signature related to high plant growth rate in Arabidopsis thaliana
    Rhonda C Meyer
    Department of Genetics, Institute of Biochemistry and Biology, University of Potsdam, Karl Liebknecht Strasse 24 25, 14476 Potsdam, Germany
    Proc Natl Acad Sci U S A 104:4759-64. 2007
    ....
  26. ncbi Profiling at mRNA, protein, and metabolite levels reveals alterations in renal amino acid handling and glutathione metabolism in kidney tissue of Pept2-/- mice
    Isabelle M Frey
    Molecular Nutrition Unit, Technical University of Munich, Freising, Germany
    Physiol Genomics 28:301-10. 2007
    ....
  27. doi Quality control for plant metabolomics: reporting MSI-compliant studies
    Oliver Fiehn
    Davis Genome Center, University of California, Davis, CA 95616, USA
    Plant J 53:691-704. 2008
    ..Standardized data processing methods are proposed for consistent data storage and dissemination via databases...
  28. pmc Plant metabolomics: the missing link in functional genomics strategies
    Robert Hall
    Plant Research International, BU Cell Cybernetics, P O Box 16, 6700 AA Wageningen, The Netherlands
    Plant Cell 14:1437-40. 2002
  29. ncbi Application of metabolomics to plant genotype discrimination using statistics and machine learning
    Janet Taylor
    Department of Computer Science, University of Wales, Aberystwyth, Penglais, UK
    Bioinformatics 18:S241-8. 2002
    ....
  30. ncbi Potential of metabolomics as a functional genomics tool
    Raoul J Bino
    Plant Physiology Department, Wageningen University, Arboretumlaan 4, 6703 BD Wageningen, The Netherlands
    Trends Plant Sci 9:418-25. 2004
  31. pmc A prominent role for the CBF cold response pathway in configuring the low-temperature metabolome of Arabidopsis
    Daniel Cook
    Michigan State University Department of Energy Plant Research Laboratory, Michigan State University, East Lansing, MI 48824, USA
    Proc Natl Acad Sci U S A 101:15243-8. 2004
    ..Taken together, the results indicate that the metabolome of Arabidopsis is extensively reconfigured in response to low temperature, and that the CBF cold response pathway has a prominent role in this process...
  32. ncbi The metabolomics standards initiative
    Susanna Assunta Sansone
    Nat Biotechnol 25:846-8. 2007
  33. ncbi Highly efficient monolithic silica capillary columns modified with poly(acrylic acid) for hydrophilic interaction chromatography
    Kanta Horie
    Department of Biomolecular Engineering, Kyoto Institute of Technology, Matsugasaki, Kyoto, Japan
    J Chromatogr A 1164:198-205. 2007
    ....
  34. pmc Metabolite profiling of human colon carcinoma--deregulation of TCA cycle and amino acid turnover
    Carsten Denkert
    Institute of Pathology, Charite University Hospital, 10117 Berlin, Germany
    Mol Cancer 7:72. 2008
    ..However, in contrast to genomics and proteomics, comprehensive metabolomic investigations of alterations in malignant tumors have rarely been conducted...
  35. pmc Promoting coherent minimum reporting guidelines for biological and biomedical investigations: the MIBBI project
    Chris F Taylor
    European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK
    Nat Biotechnol 26:889-96. 2008
  36. ncbi A comprehensive urinary metabolomic approach for identifying kidney cancerr
    Tobias Kind
    Genome Center, University of California, Davis, CA 95616, USA
    Anal Biochem 363:185-95. 2007
    ..Such investigation will likely lead to clinically applicable assays for earlier diagnosis of RCC, as well as other malignancies, and thereby improved patient prognosis...
  37. pmc Pathway analysis of kidney cancer using proteomics and metabolic profiling
    Bertrand Perroud
    Genome Center, University of California, Davis, CA, USA
    Mol Cancer 5:64. 2006
    ....
  38. ncbi Applications of metabolomics in agriculture
    Richard A Dixon
    Plant Biology Division, Samuel Roberts Noble Foundation, 2510 Sam Noble Parkway, Ardmore, OK 73401, USA
    J Agric Food Chem 54:8984-94. 2006
    ..Selected presentations from an American Chemical Society symposium held in March 2005 have been assembled to highlight the emerging application of metabolomics in agriculture...
  39. ncbi Comparison of rapid liquid chromatography-electrospray ionization-tandem mass spectrometry methods for determination of glycoalkaloids in transgenic field-grown potatoes
    Britta Zywicki
    Max Planck Institute of Molecular Plant Physiology, 14424 Potsdam Golm, Germany
    Anal Biochem 336:178-86. 2005
    ..We suggest complementing current unbiased metabolomic strategies by validating quantitative analytical methods for important target analytes such as the toxic glycoalkaloids in potato plants...
  40. pmc Hierarchical metabolomics demonstrates substantial compositional similarity between genetically modified and conventional potato crops
    Gareth S Catchpole
    Max Planck Institute for Molecular Plant Physiology, D 14424 Golm, Germany
    Proc Natl Acad Sci U S A 102:14458-62. 2005
    ..We show that, apart from targeted changes, these GM potatoes in this study appear substantially equivalent to traditional cultivars...
  41. ncbi The metabolic profiles of transgenic cucumber lines vary with different chromosomal locations of the transgene
    Norikazu Tagashira
    Faculty of Human Life Science, Hiroshima Jogakuin University, Japan
    Cell Mol Biol Lett 10:697-710. 2005
    ..The observed effects of transgene introduction are discussed in this paper...
  42. pmc Metabolomic database annotations via query of elemental compositions: mass accuracy is insufficient even at less than 1 ppm
    Tobias Kind
    University of California Davis, Genome Center, Davis, CA 95616, USA
    BMC Bioinformatics 7:234. 2006
    ..This report demonstrates the necessity of isotope abundance information by mathematical confirmation of the concept...
  43. pmc Natural genetic variation of freezing tolerance in Arabidopsis
    Matthew A Hannah
    Max Planck Institut fur Molekulare Pflanzenphysiologie, D 14424 Potsdam, Germany
    Plant Physiol 142:98-112. 2006
    ....
  44. ncbi Establishing reporting standards for metabolomic and metabonomic studies: a call for participation
    Oliver Fiehn
    UC Davis Genome Center, Davis, California 95616, USA
    OMICS 10:158-63. 2006
    ..These include biological study designs, chemical analysis, and data processing, as well as the ontologies that are necessary in this framework...
  45. ncbi Metabolite profiling in blood plasma
    Oliver Fiehn
    Genome Center, University of California Davis, USA
    Methods Mol Biol 358:3-17. 2007
    ..A major difference to profiling plant tissues is that no fractionation step is utilized, enabling the analysis of primary metabolites like sugars and amino acids concomitant with lipids such as sterols and free fatty acids...
  46. ncbi Mass spectrometry-based metabolic profiling reveals different metabolite patterns in invasive ovarian carcinomas and ovarian borderline tumors
    Carsten Denkert
    Institute of Pathology and Department of Gynecology and Obstetrics, Charite University Hospital, Berlin, Germany
    Cancer Res 66:10795-804. 2006
    ..We conclude that metabolomics is a promising high-throughput, automated approach in addition to functional genomics and proteomics for analyses of molecular changes in malignant tumors...
  47. ncbi A proposed framework for the description of plant metabolomics experiments and their results
    Helen Jenkins
    Department of Computer Science, University of Wales, Penglais, Aberystwyth, Ceredigion, Wales, UK
    Nat Biotechnol 22:1601-6. 2004
    ..armet.org/). We seek to advance discussion and community adoption of a standard for metabolomics, which would promote principled collection, storage and transmission of experiment data...