Table 1. Distribution of the DEGs of Burkholderia zhejiangensis CEIB S4-3 at 3 and 9 h in KEGG.
| Metabolic pathway | 3 h | 9 h | ||
|---|---|---|---|---|
| MP* | WMP† | MP* | WMP† | |
| Biosynthesis of antibiotics | 52 | 9 | 111 | 51 |
| Biosynthesis of secondary metabolites | 48 | 20 | 113 | 57 |
| Quorum sensing | 37 | 49 | 139 | 99 |
| Oxidative phosphorylation | 24 | 5 | 38 | 15 |
| Biosynthesis of amino acids | 22 | 10 | 47 | 19 |
| Two-component system | 21 | 12 | 41 | 51 |
| Biosynthesis of unsaturated fatty acids | 19 | 19 | 19 | |
| Biotin metabolism | 19 | 19 | 19 | |
| Fatty acid biosynthesis | 19 | 19 | 19 | |
| Fatty acid metabolism | 19 | 39 | 19 | |
| Phenylalanine metabolism | 19 | 14 | 37 | |
| Carbon metabolism | 17 | 6 | 65 | 25 |
| Chloroalkane and chloroalkene degradation | 17 | 20 | 1 | |
| ABC transporters | 16 | 37 | 118 | 106 |
| Glycine, serine, and threonine metabolism | 16 | 2 | 25 | 18 |
| Ribosome | 15 | 2 | 38 | |
| 2-Oxocarboxylic acid metabolism | 14 | 24 | ||
| Degradation of aromatic compounds | 14 | 6 | 17 | 5 |
| Arginine and proline metabolism | 13 | 13 | ||
| C5 Branched dibasic acid metabolism | 13 | 15 | ||
| Glycolysis/gluconeogenesis | 13 | 22 | 10 | |
| Purine metabolism | 13 | 4 | 18 | 12 |
| Valine, leucine, and isoleucine biosynthesis | 13 | 16 | 4 | |
| Valine, leucine, and isoleucine degradation | 13 | 33 | 5 | |
| Butanoate metabolism | 12 | 43 | ||
| Pyruvate metabolism | 12 | 29 | 5 | |
| Ascorbate and aldarate metabolism | 11 | 11 | 3 | |
| Chlorocyclohexane and chlorobenzene degradation | 10 | 10 | 4 | |
| Flagellar assembly | 10 | 2 | 10 | 1 |
| Tryptophan metabolism | 10 | 4 | 31 | 5 |
| Beta Alanine metabolism | 9 | 3 | 19 | |
| Fatty acid degradation | 9 | 5 | 32 | 1 |
| Glycerolipid metabolism | 9 | 14 | ||
| Histidine metabolism | 9 | 9 | 4 | |
| Limonene and pinene degradation | 9 | 15 | ||
| Lysine degradation | 9 | 31 | ||
| Pyrimidine metabolism | 9 | 4 | 15 | 2 |
| Citrate cycle (TCA cycle) | 7 | 22 | 5 | |
| Glyoxylate and dicarboxylate metabolism | 7 | 7 | 35 | 12 |
| Methane metabolism | 7 | 16 | 6 | |
| Benzoate degradation | 6 | 28 | 5 | |
| Cysteine and methionine metabolism | 6 | 4 | 7 | 7 |
| Phosphonate and phosphinate metabolism | 6 | 6 | ||
| Synthesis and degradation of ketone bodies | 6 | 15 | ||
| Galactose metabolism | 5 | 4 | 4 | |
| Nitrogen metabolism | 5 | 11 | 9 | 12 |
| One carbon pool by folate | 5 | 7 | ||
| Dioxin degradation | 4 | 4 | ||
| Fluorobenzoate degradation | 4 | 4 | 5 | |
| Folate biosynthesis | 4 | 4 | 4 | |
| Naphthalene degradation | 4 | 7 | 1 | |
| Polycyclic aromatic hydrocarbon degradation | 4 | 4 | 3 | |
| Toluene degradation | 4 | 1 | 4 | 5 |
| Beta-Lactam resistance | 3 | 10 | ||
| Cyanoamino acid metabolism | 3 | 3 | ||
| Novobiocin biosynthesis | 3 | 3 | ||
| Phenylalanine, tyrosine, and tryptophan biosynthesis | 3 | 3 | 15 | 4 |
| Propanoate metabolism | 3 | 27 | 6 | |
| Taurine and hypotaurine metabolism | 3 | 4 | ||
| Tyrosine metabolism | 3 | 1 | 13 | 1 |
| Alanine, aspartate, and glutamate metabolism | 2 | 5 | 12 | 3 |
| Bacterial chemotaxis | 2 | 17 | 9 | |
| Carbon fixation in photosynthetic organisms | 2 | 5 | 2 | |
| Pentose phosphate pathway | 2 | 2 | 4 | |
| Polyketide sugar unit biosynthesis | 2 | 2 | ||
| RNA degradation | 2 | 2 | 4 | 6 |
| Streptomycin biosynthesis | 2 | 2 | ||
| Ubiquinone and other terpenoid quinone biosynthesis | 2 | 5 | 2 | |
| Aminobenzoate degradation | 1 | 5 | 7 | 6 |
| Arginine biosynthesis | 1 | 3 | 3 | 3 |
| Fructose and mannose metabolism | 1 | 1 | 2 | 4 |
| Lysine biosynthesis | 1 | 1 | ||
| Porphyrin and chlorophyll metabolism | 1 | 5 | 4 | |
| Riboflavin metabolism | 1 | 3 | ||
| RNA polymerase | 1 | 3 | ||
| Pantothenate and CoA biosynthesis | 11 | 4 | 8 | |
| Nicotinate and nicotinamide metabolism | 5 | 8 | 2 | |
| Starch and sucrose metabolism | 5 | 8 | ||
| Sulfur metabolism | 5 | 7 | 9 | |
| Non homologous end joining | 3 | 3 | ||
| Amino sugar and nucleotide sugar metabolism | 2 | 2 | ||
| Glycerophospholipid metabolism | 1 | 3 | 2 | |
| Styrene degradation | 1 | 3 | 1 | |
| Pentose and glucuronate interconversions | 1 | 5 | 1 | |
| Xylene degradation | 1 | 1 | ||
| Base excision repair | 1 | |||
| Nucleotide excision repair | 1 | |||
| D-Glutamine and D-glutamate metabolism | 1 | |||
| Aminoacyl tRNA biosynthesis | 1 | |||
| alpha-Linolenic acid metabolism | 1 | |||
| Thiamine metabolism | 2 | |||
| Monobactam biosynthesis | 2 | |||
| DNA replication | 3 | 2 | ||
| Inositol phosphate metabolism | 3 | |||
| Bacterial secretion system | 3 | 4 | ||
| Selenocompound metabolism | 3 | 4 | ||
| Mismatch repair | 3 | 1 | ||
| Protein export | 4 | 1 | ||
| Homologous recombination | 4 | |||
| Caprolactam degradation | 7 | |||
| Geraniol degradation | 7 | |||
| Cationic antimicrobial peptide (CAMP) resistance | 8 | |||
| Terpenoid backbone biosynthesis | 9 | 1 | ||
| Glutathione metabolism | 14 | 13 | ||
Note:
The numbers represent the genes of the metabolic pathway in each condition.
*
MP, methyl parathion to 0.2 mM.
†
WMP, without methyl parathion.