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Table 3 Pathways absent in lineages under positive selection

From: Characterizing lineage-specific evolution and the processes driving genomic diversification in chordates

Under-Represented KEGG pathways TAED
KEGG PathwayMapped Lineages Under Positive SelectionLineages Under Positive Selection MappedUncorrected P-valueFDR P-valueBonferroni P-value
Zeatin biosynthesis0.53%<  0.01%0.00010.00060.0562
D-Arginine and D-ornithine metabolism1.12%<  0.01%0.00160.00560.5896
Penicillin and cephalosporin biosynthesis1.12%<  0.01%0.00160.00560.5896
Indole alkaloid biosynthesis0.89%<  0.01%<  0.0001<  0.00010.0011
Bacterial secretion system1.40%<  0.01%0.00130.00470.4768
Toluene degradation2.53%0.01%0.01380.04221.0000
Fluorobenzoate degradation2.53%0.01%0.01380.04221.0000
Chlorocyclohexane and chlorobenzene degradation2.53%0.01%0.01380.04221.0000
Styrene degradation1.37%0.01%<  0.0001<  0.0001<  0.0001
Tropane_ piperidine and pyridine alkaloid biosynthesis3.25%0.02%0.00140.00520.5283
Cyanoamino acid metabolism4.07%0.06%0.00230.00800.8550
Maturity onset diabetes of the young4.11%0.08%0.00040.00140.1353
Phototransduction - fly1.64%0.09%<  0.0001<  0.0001<  0.0001
MAPK signaling pathway - plant4.42%0.11%0.00140.00520.5399
Glycosaminoglycan biosynthesis - keratan sulfate3.51%0.11%<  0.0001<  0.0001<  0.0001
Glycosaminoglycan biosynthesis - heparan sulfate / heparin4.06%0.11%<  0.00010.00010.0061
Thyroid cancer2.78%0.12%<  0.0001<  0.0001<  0.0001
Mannose type O-glycan biosynthesis4.56%0.15%0.00100.00370.3723
RNA polymerase2.96%0.15%<  0.0001<  0.0001<  0.0001
Glycosaminoglycan biosynthesis - chondroitin sulfate / dermatan sulfate4.95%0.16%0.01710.05061.0000
Phototransduction3.79%0.17%<  0.0001<  0.0001<  0.0001
Nicotine addiction4.07%0.21%<  0.0001<  0.0001<  0.0001
Collecting duct acid secretion5.06%0.22%0.01580.04721.0000
Pathogenic Escherichia coli infection3.61%0.23%<  0.0001<  0.0001<  0.0001
Hedgehog signaling pathway - fly3.88%0.23%<  0.0001<  0.0001<  0.0001
  1. The KEGG pathways with the lowest % of lineages under positive selection mapping to a pathway. All pathways were significant at the 0.05 level after correction with the false discovery rate (FDR). Bold numbers indicate not significant at the 0.05 level. Lineages with dN/dS > 1 considered under positive selection