Dr Marco Morelli

Dr Marco Morelli

Contact details:
Room 314, Graham Kerr Building
Institute of Biodiversity, Animal Health & Comparative Medicine
College of Medicine, Veterinary & Life Sciences
University of Glasgow
Glasgow G12 8QQ, UK.

Tel: +44 (0) 141 330 6638
Fax: +44 (0) 141 330 2792

Academic History

Academic History

  • 10/2008 - present: Postdoctoral Fellow, University of Glasgow
  • 11/2007 - 05/2008: Postdoctoral Fellow, AMOLF (Amsterdam), The Netherlands
  • 05/2003 - 10/2007: PhD (Computational studies of fluctuations in genetic networks), AMOLF (Amsterdam)
  • 11/2002 - 04/2003: Project Student (Pricing financial derivatives with path integrals and neural networks), University of Pavia, Italy
  • 11/1997 - 06/2002: MSc (Theoretical Physics), University of Pavia, Italy

Research Interests

Research Interests

I am a computational physicist interested in modelling biological systems and performing interdisciplinary research. After a Masters Thesis on stochastic processeses and neural networks, I decided to move towards (molecular) biology, doing a PhD on the effects of fluctuations over the performances of key genetic networks in the bacterium E.Coli. To tackle this problem, I have developed original computational methods aimed to sample rare events in nonequilibrium systems and to efficiently and exactly propagate reaction-diffusion systems in time and space.

My main results highlight that the fluctuations in the binding between regulating proteins and their DNA binding sites is likely to increase the noise in protein production, giving rise to typical bursty productions. However, the long life of proteins is likely to filter out the high frequency components of this noise.

Further, I investigated the reasons of the extreme stability of the bacteriophage lambda genetic switch, using some preliminary work conducted on a model genetic switch. I discovered that the biochemical fluctuations in the system, together with the presence of DNA loop, confer stability and robustness to the network's stable states. I was also involved in assessing the effects of macromolecular crowding on simple bacterial genetic networks.

I am currently modelling the micro-evolution of single-stranded RNA viruses. In particular, I am working on Foot and Mouth Disease Virus (FMDV) with the Institute of Animal Health (IAH) in Pirbright (UK), and on Plum Pox Virus with the Institute National de la Recherche Agronomique (INRA), in Montpellier and Avignon (France).

My objective is to develop and link a series of models aimed to describe the behaviour of viruses at a single scale, from replication processes within a cell to large-scale propagation. With stochastic simulations, I am evaluating the evolutionary implications of different viral replication strategies in cells, and the impact of alternative selection scenarios.

Recently, I got involved in the world of next-generation sequencing, where I am developing novel methods to account for machine noise in Illumina reads, quantify the diversity of viral populations, and extract cellular parameters from host-level data.

Finally, I am interested in integrating spatio-temporal (epidemiological) and genetic data to develop a flexible methodological framework, aimed to identify the transmission events occurred during an outbreak, as well as to investigate more theoretical questions in population genetics. FMDV is a particularly well-suited problem for this aim, thanks to the large body of data collected during the 2001 outbreak.

Publications

Publications

  1. M.J. Morelli, S. Dallot, G. Labonne, D.T. Haydon, G. Thebaud: "Within-leaf homogeneity of a plant virus revealed by ultra-deep sequencing", in preparation
  2. M.J. Morelli, R.J. Allen. P.R. ten Wolde: "Effects of macromolecular crowding on genetic switches", submitted to Biophysical Journal
  3. M.J. Morelli, C.F. Wright, N.J. Knowles, G. Thebaud, P. Herzyk, D. J. Paton, D.T. Haydon, D.P. King: "Beyond the consensus: dissecting within-host viral population diversity of foot-and-mouth disease virus using next-generation genome sequencing", Journal of Virology, in press (2010)
  4. G. Thebaud, J. Chadoeuf, M.J. Morelli, J.W. McCauley, and D.T. Haydon: "The relationship between mutation frequency and replication strategy in positive-sense single-stranded RNA viruses", Proceedings of the Royal Society B-Biological Sciences 277, 1682, 809-817 (2010).
  5. M.J. Morelli, P.R. ten Wolde, R.J. Allen: "Modeling the bacteriophage lambda switch: DNA looping causes stability and robustness", Proceedings of the National Academy of Science USA, 20, 8101-8106 (2009).
  6. M.J. Morelli, P.R. ten Wolde: "Reaction Brownian dynamics and the effect of spatial fluctuations on the gain of a push-pull network", Journal of Chemical Physics, 129, 054112 (2008).
  7. M.J. Morelli, R.J. Allen, S. Tanase-Nicola, P.R. ten Wolde, "Eliminating fast reactions in stochastic simulations of biochemical networks: a bistable genetic switch", Journal of Chemical Physics, 128, 045105 (2008).
  8. M.J. Morelli, R.J. Allen, S. Tanase-Nicola, P.R. ten Wolde, "Reaction coordinates for the flipping of genetic switches", Biophysical Journal, 94, 3413 (2008).
  9. C. Valeriani, M.J. Morelli, R.J. Allen, P.R. ten Wolde, D. Frenkel: "Computing stationary distributions in equilibrium and nonequilibrium systems with Forward Flux Sampling", Journal of Chemical Physics, 127, 114109 (2007). Selected for the Virtual Journal of Biological Physics Research, 14, Oct 1st 2007
  10. J.S. van Zon, M.J Morelli, P.R. ten Wolde, "Diffusion of transcription factors enhances the noise in gene expression", Biophysical Journal, 91, 4350 (2006).
  11. M.J. Morelli, G. Montagna, O. Nicrosini, M. Treccani, M. Farina, P. Amato, "Pricing financial derivatives with neural networks", Physica A, 338, 160 (2004).
  12. G. Montagna, M.J. Morelli, O. Nicrosini, P. Amato, M. Farina: "Pricing financial derivatives by path integral and neural networks", Physica A, 324, 189 (2003).