Table 1.
Top 20 differentially expressed genes. Positive log2‐fold change indicates downregulation with the addition of choline and negative values indicate upregulation with choline
| Locus tag | Gene name | Log2‐fold change | P‐value | Gene description |
|---|---|---|---|---|
| PMI2721 | eutM/pduA/J homologue | −10.853338 | 8.58E‐38 | Microcompartment protein (BMC domain, PF00936.14) |
| PMI2720 | eutM/pduA/J homologue | −9.9694882 | 1.25E‐36 | Microcompartment protein (BMC domain, PF00936.14) |
| PMI2722 | eutM/pduA/J homologue | −9.3293139 | 2.06E‐27 | Microcompartment protein (BMC domain, PF00936.14) |
| PMI2716 | cutC | −7.3519216 | 3.39E‐26 | Choline‐trimethylamine lyase, CutC |
| PMI2719 | cutF | −7.9456261 | 1.66E‐20 | Aldehyde dehydrogenase, CutF |
| PMI2715 | cutD | −6.0539258 | 8.64E‐20 | Choline‐trimethylamine lyase, activating enzyme, CutD |
| PMI2714 | eutM/pduA/J homolog | −5.2834574 | 7.49E‐17 | Microcompartment protein (BMC domain, PF00936.14) |
| PMI2718 | eutN/ccmL homologue | −10.804654 | 1.71E‐15 | Microcompartment/carboxysome/ethanolamine utilization protein (EutN_CcmL, PF03319.8) |
| PMI2711 | emrE homologue | −8.6639517 | 7.24E‐13 | Quaternary ammonium compound resistance protein |
| PMI2717 | cutO | −9.6507023 | 1.08E‐10 | Alcohol dehydrogenase |
| PMI2710 | emrE homologue | −9.2090116 | 2.81E‐06 | Multi‐drug resistance protein, EmrE homologue |
| PMI0695 | trxB | −1.9182025 | 0.000123 | Thioredoxin reductase |
| PMI2713 | cutH | −5.5647202 | 0.000259 | Phosphate acetyltransferase |
| PMI0501 | −1.8393886 | 0.000698 | Uncharacterized conserved protein YjdB, phage protein | |
| PMIt054 | 3.6411425 | 0.001508 | tRNA‐Met | |
| PMI1739 | −1.6050110 | 0.001628 | Hypothetical protein YfaZ precursor, putative exporter protein | |
| PMI3109 | fdoH | −1.6200982 | 0.001691 | Formate dehydrogenase‐O subunit beta, transmembrane |
| PMI0297 | −1.7078902 | 0.001728 | Fimbrial subunit | |
| PMI1288 | ydfG | −1.7860287 | 0.001896 | NADP‐dependent L‐serine/L‐allo‐threonine dehydrogenase |
| PMI1955 | eco | −1.6974899 | 0.002404 | Protease inhibitor ecotin; homodimeric protease inhibitor |
BMC, bacterial microcompartment; NADP, nicotinamide adenine dinucleotide phosphate.