Table 4

Enriched gained and lost Gene Ontology terms for select clades

Enriched gained GO terms

P-value

Enriched lost GO terms

P-value

Corticata

Cobalamin biosynthetic process

3.2E-7

Small GTPase mediated signal transduction

7.9E-3

Photosynthesis

2.3E-6

Lipid transport

1.1E-2

Archaeplastida

Photosynthesis

3.1E-25

Carbohydrate metabolic process

9.1E-4

Glycyl-tRNA aminoacylation

1.8E-2

Xylan catabolic process

4.8E-3

Viridiplantae

Photosynthesis

2.7E-3

Tryptophan catabolic process to kynurenine

7.1E-3

Protein import into mitochondrial outer membrane

7.1E-3

Sulfur compound biosynthetic process

1.3E-2

Protostomia

Sensory perception of smell

4.3E-3

Protein secretion by the type II secretion system

3.4E-3

Cell adhesion

4.2E-3

The two terms with the lowest P-values are shown (calculated by the Ontologizer 2.0 software [63] with the Topology-Elim algorithm [64]). Prototypical regulatory terms are in bold text, prototypical metabolic terms are in italics (for detailed results see Additional files 5 and 6).

Zmasek and Godzik Genome Biology 2011 12:R4   doi:10.1186/gb-2011-12-1-r4