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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 Pathway

Mapped Lineages Under Positive Selection

Lineages Under Positive Selection Mapped

Uncorrected P-value

FDR P-value

Bonferroni P-value

Zeatin biosynthesis

0.53%

<  0.01%

0.0001

0.0006

0.0562

D-Arginine and D-ornithine metabolism

1.12%

<  0.01%

0.0016

0.0056

0.5896

Penicillin and cephalosporin biosynthesis

1.12%

<  0.01%

0.0016

0.0056

0.5896

Indole alkaloid biosynthesis

0.89%

<  0.01%

<  0.0001

<  0.0001

0.0011

Bacterial secretion system

1.40%

<  0.01%

0.0013

0.0047

0.4768

Toluene degradation

2.53%

0.01%

0.0138

0.0422

1.0000

Fluorobenzoate degradation

2.53%

0.01%

0.0138

0.0422

1.0000

Chlorocyclohexane and chlorobenzene degradation

2.53%

0.01%

0.0138

0.0422

1.0000

Styrene degradation

1.37%

0.01%

<  0.0001

<  0.0001

<  0.0001

Tropane_ piperidine and pyridine alkaloid biosynthesis

3.25%

0.02%

0.0014

0.0052

0.5283

Cyanoamino acid metabolism

4.07%

0.06%

0.0023

0.0080

0.8550

Maturity onset diabetes of the young

4.11%

0.08%

0.0004

0.0014

0.1353

Phototransduction - fly

1.64%

0.09%

<  0.0001

<  0.0001

<  0.0001

MAPK signaling pathway - plant

4.42%

0.11%

0.0014

0.0052

0.5399

Glycosaminoglycan biosynthesis - keratan sulfate

3.51%

0.11%

<  0.0001

<  0.0001

<  0.0001

Glycosaminoglycan biosynthesis - heparan sulfate / heparin

4.06%

0.11%

<  0.0001

0.0001

0.0061

Thyroid cancer

2.78%

0.12%

<  0.0001

<  0.0001

<  0.0001

Mannose type O-glycan biosynthesis

4.56%

0.15%

0.0010

0.0037

0.3723

RNA polymerase

2.96%

0.15%

<  0.0001

<  0.0001

<  0.0001

Glycosaminoglycan biosynthesis - chondroitin sulfate / dermatan sulfate

4.95%

0.16%

0.0171

0.0506

1.0000

Phototransduction

3.79%

0.17%

<  0.0001

<  0.0001

<  0.0001

Nicotine addiction

4.07%

0.21%

<  0.0001

<  0.0001

<  0.0001

Collecting duct acid secretion

5.06%

0.22%

0.0158

0.0472

1.0000

Pathogenic Escherichia coli infection

3.61%

0.23%

<  0.0001

<  0.0001

<  0.0001

Hedgehog signaling pathway - fly

3.88%

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
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BMC Ecology and Evolution

ISSN: 2730-7182

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