IDEAS home Printed from https://ideas.repec.org/a/nat/natcom/v1y2010i1d10.1038_ncomms1150.html
   My bibliography  Save this article

Integrated multilaboratory systems biology reveals differences in protein metabolism between two reference yeast strains

Author

Listed:
  • André B. Canelas

    (Kluyver Centre for Genomics of Industrial Fermentation, Delft University of Technology, Julianalaan 67, Delft 2628 BC, The Netherlands.)

  • Nicola Harrison

    (University of Cambridge, Sanger Building, 80 Tennis Court Road, Cambridge CB2 1GA, UK.)

  • Alessandro Fazio

    (Center for Biological Sequence Analysis, Technical University of Denmark)

  • Jie Zhang

    (Chalmers University of Technology)

  • Juha-Pekka Pitkänen

    (VTT Technical Research Centre of Finland, PO Box 1000, Espoo FI-02044 VTT, Finland.)

  • Joost van den Brink

    (Kluyver Centre for Genomics of Industrial Fermentation, Delft University of Technology, Julianalaan 67, Delft 2628 BC, The Netherlands.)

  • Barbara M. Bakker

    (Vrije Universiteit Amsterdam, De Boelelaan 1085, Amsterdam 1081 HV, The Netherlands.)

  • Lara Bogner

    (Institut für Bioverfahrenstechnik, University of Stuttgart, Allmandring 31, Stuttgart D-70569, Germany.)

  • Jildau Bouwman

    (Vrije Universiteit Amsterdam, De Boelelaan 1085, Amsterdam 1081 HV, The Netherlands.)

  • Juan I. Castrillo

    (University of Cambridge, Sanger Building, 80 Tennis Court Road, Cambridge CB2 1GA, UK.)

  • Ayca Cankorur

    (Bogazici University, Bebek, Istanbul 34342, Turkey.)

  • Pramote Chumnanpuen

    (Chalmers University of Technology)

  • Pascale Daran-Lapujade

    (Kluyver Centre for Genomics of Industrial Fermentation, Delft University of Technology, Julianalaan 67, Delft 2628 BC, The Netherlands.)

  • Duygu Dikicioglu

    (Bogazici University, Bebek, Istanbul 34342, Turkey.)

  • Karen van Eunen

    (Vrije Universiteit Amsterdam, De Boelelaan 1085, Amsterdam 1081 HV, The Netherlands.)

  • Jennifer C. Ewald

    (Institute for Molecular Systems Biology, ETH Zürich)

  • Joseph J. Heijnen

    (Kluyver Centre for Genomics of Industrial Fermentation, Delft University of Technology, Julianalaan 67, Delft 2628 BC, The Netherlands.)

  • Betul Kirdar

    (Bogazici University, Bebek, Istanbul 34342, Turkey.)

  • Ismo Mattila

    (VTT Technical Research Centre of Finland, PO Box 1000, Espoo FI-02044 VTT, Finland.)

  • Femke I. C. Mensonides

    (Vrije Universiteit Amsterdam, De Boelelaan 1085, Amsterdam 1081 HV, The Netherlands.)

  • Anja Niebel

    (Institut für Bioverfahrenstechnik, University of Stuttgart, Allmandring 31, Stuttgart D-70569, Germany.)

  • Merja Penttilä

    (VTT Technical Research Centre of Finland, PO Box 1000, Espoo FI-02044 VTT, Finland.)

  • Jack T. Pronk

    (Kluyver Centre for Genomics of Industrial Fermentation, Delft University of Technology, Julianalaan 67, Delft 2628 BC, The Netherlands.)

  • Matthias Reuss

    (Institut für Bioverfahrenstechnik, University of Stuttgart, Allmandring 31, Stuttgart D-70569, Germany.)

  • Laura Salusjärvi

    (VTT Technical Research Centre of Finland, PO Box 1000, Espoo FI-02044 VTT, Finland.)

  • Uwe Sauer

    (Institute for Molecular Systems Biology, ETH Zürich)

  • David Sherman

    (Laboratoire Bordelais de Recherche en Informatique, UMR CNRS 5800, France.)

  • Martin Siemann-Herzberg

    (Institut für Bioverfahrenstechnik, University of Stuttgart, Allmandring 31, Stuttgart D-70569, Germany.)

  • Hans Westerhoff

    (Vrije Universiteit Amsterdam, De Boelelaan 1085, Amsterdam 1081 HV, The Netherlands.)

  • Johannes de Winde

    (Kluyver Centre for Genomics of Industrial Fermentation, Delft University of Technology, Julianalaan 67, Delft 2628 BC, The Netherlands.)

  • Dina Petranovic

    (Chalmers University of Technology)

  • Stephen G. Oliver

    (University of Cambridge, Sanger Building, 80 Tennis Court Road, Cambridge CB2 1GA, UK.)

  • Christopher T. Workman

    (Center for Biological Sequence Analysis, Technical University of Denmark)

  • Nicola Zamboni

    (Institute for Molecular Systems Biology, ETH Zürich)

  • Jens Nielsen

    (Chalmers University of Technology)

Abstract

The field of systems biology is often held back by difficulties in obtaining comprehensive, high-quality, quantitative data sets. In this paper, we undertook an interlaboratory effort to generate such a data set for a very large number of cellular components in the yeast Saccharomyces cerevisiae, a widely used model organism that is also used in the production of fuels, chemicals, food ingredients and pharmaceuticals. With the current focus on biofuels and sustainability, there is much interest in harnessing this species as a general cell factory. In this study, we characterized two yeast strains, under two standard growth conditions. We ensured the high quality of the experimental data by evaluating a wide range of sampling and analytical techniques. Here we show significant differences in the maximum specific growth rate and biomass yield between the two strains. On the basis of the integrated analysis of the high-throughput data, we hypothesize that differences in phenotype are due to differences in protein metabolism.

Suggested Citation

  • André B. Canelas & Nicola Harrison & Alessandro Fazio & Jie Zhang & Juha-Pekka Pitkänen & Joost van den Brink & Barbara M. Bakker & Lara Bogner & Jildau Bouwman & Juan I. Castrillo & Ayca Cankorur & P, 2010. "Integrated multilaboratory systems biology reveals differences in protein metabolism between two reference yeast strains," Nature Communications, Nature, vol. 1(1), pages 1-8, December.
    • Handle: RePEc:nat:natcom:v:1:y:2010:i:1:d:10.1038_ncomms1150
    DOI: 10.1038/ncomms1150
    as

    Download full text from publisher

    File URL: https://www.nature.com/articles/ncomms1150
    File Function: Abstract
    Download Restriction: no
    File URL: https://libkey.io/10.1038/ncomms1150?utm_source=ideas
    LibKey link: if access is restricted and if your library uses this service, LibKey will redirect you to where you can use your library subscription to access this item
    ---><---

    Citations

    Citations are extracted by the CitEc Project, subscribe to its RSS feed for this item.
    as


    Cited by:

    1. Ning Qin & Lingyun Li & Xiaozhen Wan & Xu Ji & Yu Chen & Chaokun Li & Ping Liu & Yijie Zhang & Weijie Yang & Junfeng Jiang & Jianye Xia & Shuobo Shi & Tianwei Tan & Jens Nielsen & Yun Chen & Zihe Liu, 2024. "Increased CO2 fixation enables high carbon-yield production of 3-hydroxypropionic acid in yeast," Nature Communications, Nature, vol. 15(1), pages 1-15, December.
    2. Anna Zimmermann & Julian E. Prieto-Vivas & Charlotte Cautereels & Anton Gorkovskiy & Jan Steensels & Yves Peer & Kevin J. Verstrepen, 2023. "A Cas3-base editing tool for targetable in vivo mutagenesis," Nature Communications, Nature, vol. 14(1), pages 1-16, December.

    More about this item

    Statistics

    Access and download statistics

    Corrections

    All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:nat:natcom:v:1:y:2010:i:1:d:10.1038_ncomms1150. See general information about how to correct material in RePEc.

    If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.

    We have no bibliographic references for this item. You can help adding them by using this form .

    If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.

    For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: Sonal Shukla or Springer Nature Abstracting and Indexing (email available below). General contact details of provider: http://www.nature.com .

    Please note that corrections may take a couple of weeks to filter through the various RePEc services.

    IDEAS is a RePEc service. RePEc uses bibliographic data supplied by the respective publishers.