Table 1 Top differentially expressed genes when exposed to 50 µM FUdR
From: Effects of FUdR on gene expression in the C. elegans bacterial diet OP50
Protein | Gene | LogFC | P-Value | FDR | Function |
|---|---|---|---|---|---|
Amino acid metabolism | |||||
 Phosphoribosylformimino 5-aminoimidazole carboxamide ribotide isomerase | hisA | 2.83 | 6.29E−23 | 6.02E−21 | l-Histidine biosynthesis |
 Imidazoleglycerol phosphate dehydrogenase/histidinol phosphate | hisB | 2.71 | 3.04E−21 | 2.38E−19 | l-Histidine biosynthesis pathway |
 Histidinol-phosphate aminotransferase | hisC | 3.7 | 9.40E−31 | 2.21E−28 | l-Histidine biosynthesis pathway |
 Histidinol dehydrogenase | hidD | 4.19 | 1.31E−34 | 3.37E−32 | l-Histidine biosynthesis pathway |
 ATP phosphotibosyltransferase | hisG | 4.04 | 9.69E−28 | 1.56E−25 | l-Histidine biosynthesis pathway |
 Phosphoribosyl atp pyrophosphohydrolase/phosphoribosyl amp cyclohydrolase | hisI | 2.94 | 2.00E−24 | 2.24E−22 | l-Histidine biosynthesis pathway |
 Acetolactate synthase I/III small subunit | ilvN | 2.93 | 7.50E−30 | 1.29E−27 | Amino acid biosynthesis, pyruvate fermentation to isobutanol, l-valine biosynthesis |
 2-Isopropylmalate synthase | leuA | 3.26 | 1.22E−23 | 1.26E−21 | 3-methylbutanol biosynthesis Pathway, l-leucine biosynthesis |
 3-Isopropylmalate dehydrogenase | leuB | 2.91 | 6.79E−21 | 5.01E−19 | 3-methylbutanol biosynthesis pathway, l-leucine biosynthesis |
 Tryptophan specific transport protein | mtr | − 4.57 | 2.69E−48 | 1.74E−45 | Aromatic amino acid transmembrane transporter activity |
 Anthranilate synthase component 1 | trpE | − 2.87 | 2.81E−24 | 3.02E−22 | Amino acid biosynthesis, l-tryptophan biosynthesis |
DNA replication, binding, and repair | |||||
 Bacteriocin microcin b17 | mcbA | − 3.54 | 1.08E−39 | 3.10E−37 | DNA replication inhibitor, Antibiotic |
 Repressor lexA | lexA | 4.37 | 2.24E−38 | 1.54E−35 | DNA damage, DNA repair, DNA replication, transcription, transcription regulation |
 DNA repair protein recN | recN | 3.7 | 4.30E−40 | 1.39E−37 | DNA damage, DNA repair |
 Competence protein comea | ybaV | 3.97 | 4.98E−50 | 4.29E−47 | DNA binding |
Ion transport and signaling | |||||
 High affinity iron transporter | FhuCDB | − 3.03 | 1.16E−27 | 1.76E−25 | Ion transport |
 Ferric iron reductase protein | fhuF | − 2.56 | 8.41E−20 | 5.71E−18 | Colonic acid biosynthesis process |
 Bacteria non-heme ferritin 1 | ftnA | 3.96 | 7.42E−42 | 3.83E−39 | Iron storage |
 Ribonucleoside triphosphate reductase | nrdD | 4.3 | 6.53E−54 | 1.69E−50 | Reduces thioredoxin, ATP binding, Zinc ion binding, Nucleotide binding |
 Anaerobic ribonucleoside triphosphate reductase activating protein | nrdG | 3.37 | 7.01E−41 | 3.02E−38 | Metal ion binding, catalyzes 5ʹ-deoxy-adenosine |
Other | |||||
 DNA damage inducible protein 1 | dinI | 3.86 | 3.28E−30 | 6.24E−28 | Reductive ion assimilation |
 2,5-diketo-d-gluconate reductase b | dkgB | 2.64 | 2.24E−25 | 2.75E−23 | Ascorbate biosynthesis |
 Glycerol kinase | glpK | − 3.27 | 1.32E−15 | 5.01E−14 | Glycerol degradation 1 pathway |
 mfs transporter, opa family, glycerol 3 phosphate transporter | glpT | − 3.02 | 1.15E−17 | 5.28E−16 | Glycerol metabolism, Transport |
 Small heat shock protein, molecular chaperone ibpB | ibpB | 3.71 | 6.52E−52 | 8.41E−49 | Stress response |
 Small toxic polypeptide | ldrA | 3.58 | 2.55E−30 | 5.48E−28 | Toxin–antitoxin system |
 Anaerobic ribonucleoside triphosphate reductase activating protein | nrdG | 3.37 | 7.01E−41 | 3.02E−38 | Metal ion binding, catalyzes 5ʹ-deoxy-adenosine |
 Adenylosuccinate synthase | purA | − 2.75 | 1.30E−27 | 1.87E−25 | Adenosine ribonucleotides de novo biosynthesis |
 Uncharacterized protein yciG | yciG | − 2.81 | 5.15E−19 | 3.17E−17 | Bacterial type flagellum dependent swarming motility |