Systems Biology

luis-serrano
Design of Biological Systems

Group Structure

GROUP LEADER:
Luis Serrano (ICREA Research Professor)
STAFF SCIENTIST:
Christina Kiel, Maria Lluch
POSTDOCTORAL FELLOWS:
Eva Yus, Javier Delgado, Besray Unal (Interpod program with Yogi Jaeger), Jae-Seong Yang, Martin Schaeffer
STUDENTS:
Bernhard Paetzold, Kiana Toufighi (shared with Ben Lehner), Marie Jeanne Trussart, Veronica Llorens, Carolina Gallo
TECHNICIAN:
Sira Martinez, Tony Ferrar, Violeta Beltran, Hannah Benisty

Summary

Our group is interested in the quantitative understanding and rational engineering of living systems (ranging from gene networks to organisms). For this purpose we use a combination of tools that involve software for protein design and simulations of networks and experimental approaches. Our approach is based on first understanding a system and then engineering it to obtain the properties we want.  Our philosophy is also whenever possible identifying the possible practical applications for human health and biotechnology of our work.
Figure 1. Protein abundance variation at XOR network motifs.  Kiel et al.  (2013). Figure 1. Protein abundance variation at XOR network motifs. Kiel et al. (2013).


Research Projects

  •  Quantitative understanding and modelling of a whole organism: M. pneumoniae
  • Engineering of M. pneumoniae to treat human diseases.
  • Quantitative understanding of Signal Transduction in humans and its role in disease

Figure 2: Ab initio prediction of peptide binding site and bound structure for the PDZ domain Grunberg et al. (2013). Figure 2: Ab initio prediction of peptide binding site and bound structure for the PDZ domain Grunberg et al. (2013).


Selected Publications

  1. Grunberg R, Burnier JV, Ferrar T, Beltran-Sastre V, Stricher F, van der Sloot AM, Garcia-Olivas R, Mallabiabarrena A, Sanjuan X, Zimmermann T, et al.
    “Engineering of weak helper interactions for high-efficiency FRET probes.”
    Nature Methods, 10:1021-1027 (2013).
  2. Kiel C, Verschueren E, Yang JS and Serrano L.
    “Integration of Protein Abundance and Structure Data Reveals Competition in the ErbB Signaling Network.”
    Science Signaling, 6:ra109 (2013).
  3. Lluch-Senar M, Luong K, Llorens-Rico V, Delgado J, Fang G, Spittle K, Clark TA, Schadt E, Turner SW, Korlach J et al.
    “Comprehensive methylome characterization of Mycoplasma genitalium and Mycoplasma pneumoniae at single-base resolution.”
    PLoS Genetics, 9:e1003191 (2013).
  4. Verschueren E, Vanhee P, Rousseau F, Schymkowitz J and Serrano L.
    “Protein-peptide complex prediction through fragment interaction patterns.”
    Structure, 21:789-797 (2013).
  5. Wodke JA, Puchalka J, Lluch-Senar M, Marcos J, Yus E, Godinho M, Gutierrez-Gallego R, dos Santos VA, Serrano L, Klipp E, et al.
    “Dissecting the energy metabolism in Mycoplasma pneumoniae through genome-scale metabolic modeling.”
    Molecular Systems Biology, 9:653 (2013).