Computational identification of obligatorily autocatalytic replicators embedded in metabolic networks

Ádám Kun¹^,2 , Balázs Papp³^,5 and Eörs Szathmáry¹^,2^,4

¹Collegium Budapest, Institute for Advanced Study, Szentháromság utca 2, Budapest H-1014, Hungary

²Department of Plant Taxonomy and Ecology, Institute of Biology, Eötvös University, Pázmány Péter sétány 1/C, Budapest H-1117, Hungary

³Faculty of Life Sciences, The University of Manchester, Oxford Road, Manchester M13 9PT, UK

⁴Parmenides Center for the Study of Thinking, Kardinal Faulhaber Strasse, Munich D-80333, Germany

⁵Current address: Institute of Biochemistry, Biological Research Center, Szeged H-6701, Hungary

author email corresponding author email

Genome Biology 2008, 9:R51doi:10.1186/gb-2008-9-3-r51


Published:	10 March 2008

Subject areas: Molecular biology, Evolution, Genetics

Additional files

Additional data file 1:

The figures (S1-S9) show the autocatalytic production of the identified metabolites. The table (S2) lists the relevant statistics for each metabolic network analyzed.

Format: DOC Size: 327KB Download file

This file can be viewed with: Microsoft Word Viewer

Additional data file 2:

If the network reconstruction used abbreviated names for the metabolites, then the abbreviations are also included for ease of comparisons with the reconstruction.

Format: XLS Size: 393KB Download file

This file can be viewed with: Microsoft Excel Viewer

Additional data file 3:

The separate worksheets lists are: 1, the metabolites involved in the metabolic reconstruction, with their abbreviations and identifier used in the MetaCyc database; 2, the reactions with reaction ID, pathway, EC number and references; 3, the metabolites that cannot be produced in the network (dead end metabolites); 4, the reactions that were left out from the metabolic network, and the reason for the exclusion; and 5, the references and notes for the worksheets.

Format: XLS Size: 275KB Download file

This file can be viewed with: Microsoft Excel Viewer