Table 1.
Genes Expressed at Lower Levels in the SPT Mutant versus the Parent Strain W83.
| Name | Gene ID | Product | Q Value | Fold Change |
|---|---|---|---|---|
| SPT | PG1780 | Serine palmitoyltransferase | 0 | 0.01 |
| Proteolysis and amino acid metabolism | ||||
| pepD-2 | PG0537 | Aminoacyl-histidine dipeptidase | 1.30E-216 | 0.17 |
| pruA | PG1269 | Delta-1-pyrroline-5-carboxylate dehydrogenase | 2.01E-35 | 0.38 |
| — | PG1270 | PLP-dependent aminotransferase | 3.38E-35 | 0.37 |
| — | PG1271 | Acetylornithine aminotransferase | 2.92E-13 | 0.38 |
| Transposon | ||||
| — | PG0549 | ISPg1, transposase | 4.72E-19 | 0.45 |
| — | PG0872 | Mobilizable transposon, Xis protein | 1.20E-09 | 0.50 |
| — | PG1480 | Conjugative transposon protein TraI | 1.68E-07 | 0.50 |
| — | PG1482 | Conjugative transposon protein TraF | 1.62E-13 | 0.33 |
| — | PG1483 | Conjugative transposon protein TraE | 6.11E-11 | 0.50 |
| Hypothetical | ||||
| — | PG0354 | Hypothetical protein | 1.26E-07 | 0.50 |
| — | PG0554 | Hypothetical protein | 7.25E-13 | 0.46 |
| — | PG0609 | Hypothetical protein | 6.13E-15 | 0.50 |
| — | PG0617 | Hypothetical protein | 7.14E-14 | 0.41 |
| — | PG0727 | Hypothetical protein | 7.89E-57 | 0.28 |
| — | PG0835 | Hypothetical protein | 2.58E-26 | 0.33 |
| — | PG0914 | Hypothetical protein | 1.54E-29 | 0.40 |
| — | PG0986 | Hypothetical protein | 4.38E-24 | 0.37 |
| — | PG0987 | Hypothetical protein | 1.42E-125 | 0.21 |
| — | PG1229 | Hypothetical protein | 1.68E-09 | 0.50 |
| — | PG1268 | Hypothetical protein | 1.54E-53 | 0.32 |
| — | PG1494 | Hypothetical protein | 5.30E-05 | 0.50 |
| — | PG1508 | Hypothetical protein | 0.003359 | 0.35 |
| — | PG1510 | Hypothetical protein | 1.57E-21 | 0.40 |
| — | PG1511 | Hypothetical protein | 2.39E-21 | 0.37 |
| — | PG1512 | Hypothetical protein | 2.21E-18 | 0.36 |
| — | PG1516 | Hypothetical protein | 2.53E-06 | 0.48 |
| — | PG1547 | Hypothetical protein | 7.02E-06 | 0.50 |
| — | PG1549 | Hypothetical protein | 4.25E-17 | 0.33 |
| — | PG1795 | Hypothetical protein | 0.005 | 0.38 |
| — | PG1798 | Hypothetical protein | 1.79E-12 | 0.44 |
| — | PG1871 | Hypothetical protein | 7.38E-05 | 0.33 |
| — | PG1908 | Hypothetical protein | 2.23E-04 | 0.44 |
| CRISPR loci | ||||
| cas2-1 | PG1981 | CRISPR-associated Cas2 family protein | 2.67E-11 | 0.42 |
| — | PG1982 | CRISPR-associated Cas1 family protein | 2.27E-12 | 0.44 |
| — | PG1983 | CRISPR-associated Cmr5 family protein | 2.25E-06 | 0.50 |
| — | PG1984 | Hypothetical protein | 1.27E-19 | 0.33 |
| — | PG1985 | CRISPR-associated Cmr4 family protein | 1.13E-20 | 0.42 |
| — | PG1986 | CRISPR-associated Cmr3 family protein | 2.10E-32 | 0.35 |
| — | PG1987 | CRISPR-associated Csm1 family protein | 4.80E-30 | 0.29 |
| — | PG1988 | Hypothetical protein | 2.31E-40 | 0.24 |
| — | PG1989 | Hypothetical protein | 6.29E-65 | 0.27 |
| cas2-2 | PG2013 | CRISPR-associated Cas2 family protein | 2.73E-12 | 0.47 |
| cas1 | PG2014 | CRISPR-associated Cas1 family protein | 5.31E-31 | 0.39 |
| cas4 | PG2015 | CRISPR-associated Cas4 family protein | 1.92E-26 | 0.40 |
| cas3 | PG2016 | CRISPR-associated helicase Cas3 | 5.50E-09 | 0.33 |
| — | PG2017 | Hypothetical protein | 4.44E-14 | 0.33 |
| — | PG2018 | Hypothetical protein | 3.10E-11 | 0.33 |
| — | PG2019 | Hypothetical protein | 6.56E-22 | 0.31 |
| PG2020 | CRISPR-associated Cas5e family protein | ? | 0.39 | |
| Redox homeostasis | ||||
| — | PG0616 | Thioredoxin | 0.003 | 0.38 |
| Cell wall | ||||
| — | PG0726 | Putative lipoprotein, s-layer | 8.42E-08 | 0.25 |
| Transcription | ||||
| — | PG0985 | ECF subfamily RNA polymerase sigma factor | 3.41E-68 | 0.29 |
| — | PG1535 | Transcriptional regulator | 1.88E-10 | 0.50 |
| Metabolism | ||||
| hprA | PG1190 | Glycerate dehydrogenase | 8.69E-12 | 0.49 |
| — | PG1504 | NAD dependent protein | 0.009 | 0.33 |
| — | PG1509 | HAD superfamily hydrolase | 3.63E-24 | 0.34 |
| — | PG1514 | Glycerol dehydrogenase | 3.16E-11 | 0.44 |
| — | PG1515 | Ribulose bisphosphate carboxylase-like protein | 1.01E-14 | 0.45 |
| Biosynthesis of cofactors | ||||
| — | PG1505 | Radical SAM domain-containing protein | 3.28E-15 | 0.32 |
SPT, serine palmitoyl transferase.