Comparative analyses of parasites with a comprehensive database of genome-scale metabolic models
Fig 3
Reconstructions for all eukaryotic organisms with published genomes.
(A): Model summary. Genome size is measured here by the number of amino acid sequences encoded by the genome (triangle) and model size is measured by the number of reactions present in the network (square points). Grey rings highlight 100, 500, 1000, 5000, and 10,000 ORFs moving from the center outwards. Genomes are grouped by database, a rough phylogenetic grouping (see Fig 1). Note: T. gondii RH is excluded from all future analyses given only a subset of the genome is available from EuPathDB. (B): Model size is correlated with genome size. Larger genomes tend to generate larger models. Line is fit to a linear regression with R2 noted (p-value < 0.001); the standard error is not shown. Points are color-coded by database. (C): Unique reactions by database. Number of unique metabolic reactions per database. Unique reactions are defined here as reactions found in every reconstruction within a database grouping and in no other reconstructions outside of that database grouping. Reactions found in different cellular compartments are considered distinct reactions.