Project A4

Metabolic fitness landscapes for evolutionary predictions

Martin Lercher, U Düsseldorf | web | email

Tin Yau Pang, U Düsseldorf | web | email

We predict how evolutionary changes in metabolic functions affect bacterial growth. This project develops an advanced modeling framework for metabolic systems in prokaryotes, which explicitly includes metabolite concentrations and reaction kinetics. We study adaptation to new metabolic environments, as well as generic metabolic costs of adaptation.

Predictability in Evolution

Collaborative Research Center 1310

Publications

Each of 3,323 metabolic innovations in the evolution of E. coli arose through the horizontal transfer of a single DNA segment

Pang T. J., Lercher M. J., PNAS, 18. December 2018, https://doi.org/10.1073/pnas.1718997115

Machine learning applied to enzyme turnover numbers reveals protein structural correlates and improves metabolic models

Heckmann D., Lloyd C. J., Mih N., Ha Y., Zielinski D. C., Haiman Z. B., Desouki A. A., Lercher M. J., Palsson B. O., Nature Communications 9: 5252, 7. December 2018, https://doi.org/10.1038/s41467-018-07652-6

Alleles of a gene differ in pleiotropy, often mediated through currency metabolite production, in E. coli and yeast metabolic simulations

Alzoubi D., Desouki A. A., Lercher M. J., Scientific Reports 8: 17252, 22. November 2018, https://doi.org/10.1038/s41598-018-35092-1

Supra-operonic clusters of functionally related genes (SOCs) are a source of horizontal gene co-transfers

Pang T. Y., Lercher M. J., Scientific Reports 7: 40294, 9. January 2017, https://doi.org/10.1038/srep40294

Energy efficiency trade-offs drive nucleotide usage in transcribed regions

Chen W.-H., Lu G., Bork P., Hu S., and Lercher M.J., Nature Communications volume 7, 21. April 2016, http://dx.doi.org/10.1038/ncomms11334

Recombinant transfer in the basic genome of Escherichia coli

Dixit P.D., Pang T.Y., Studier F.W., and Maslov S., Proc. Natl. Acad. Sci. USA 112: 9070-9075, 3. June 2015, https://doi.org/10.1073/pnas.1510839112

imprint