Table 3.
Transcripts associated with transport significantly altered between 16M and 16MΔvjbR, with and without the treatment of C12-HSL to cells.
| BME Loci | Gene Function | Exponential Growth Phase Change fold | Stationary Growth Phase Change (fold) | STM | ||||
|---|---|---|---|---|---|---|---|---|
| ΔvjbR/wt | wt+AHL/wt | ΔvjbR/ΔvjbR+AHL | ΔvjbR/wt | wt+AHL/wt | ΔvjbR/ΔvjbR+AHL | |||
| Amino Acid | ||||||||
| I 0114 | ABC-Type AA Transport | 1.6 | 2.1 | - | 1.8 | 1.5 | - | |
| I 0263 | ABC-Type Leucine/Isoleucine/Valine/Threonine/Alanine Transport | -1.8† | - | - | 2.1 | 2.1 | - | |
| II 0038 | D-Serine, D-Alanine, Glycine Transporter | - | -1.5† | - | -1.6† | -1.8 | - | Ficht, u.p. |
| II 0517 | ABC-Type Branched Chain AA Transport System, AzlC | -1.8 | - | - | -2.2 | -1.7† | - | |
| II 0873 | ABC-Type High Affinity Branched Chain AA Transport System, LivF | -2.0† | -2.3 | - | - | -1.5† | - | |
| II 0909 | Glutamate, γ-Aminobutyrate Antiporter | - | - | - | -2.1 | -1.7 | - | |
| I 0260 | ABC-Type High-Affinity Branched Chain AA Transport, BraF | - | 2.1 | - | -1.5† | - | 3.0† | |
| I 0642 | Urea Transporter | -2.3† | -1.9 | 2.0† | - | - | - | |
| I 1022 | ABC-Type Arginine, Ornithine Transporter | 1.7† | 2.8 | 2.2† | - | - | - | |
| I 1869 | Homoserine Lactone Efflux Protein | - | -2.3 | -3.1† | -1.5† | - | 2.1† | |
| II 0070 | ABC-Type Branched Chain AA Transport System | - | 1.6† | - | -2.5 | -1.8† | 1.9 | |
| II 0484 | ABC-Type Spermidine/Putrescine Transport System | -2.3 | -2.5 | - | - | -2.0 | -2.3† | |
| Carbohydrate | ||||||||
| I 1385 | ABC-Type Lactose Transport System | -2.6† | -3.2 | - | - | - | - | Ficht, u.p. |
| II 0115 | ABC-Type G3P Transport System | -1.7† | -3.2 | - | - | - | - | |
| II 0301 | ABC-Type Ribose Transport System, RbsC | 1.5† | - | - | -1.9 | - | - | |
| II 1096 | MFS Family, Putative Tartrate Transporter | 1.7† | 2.6 | - | - | - | - | |
| I 0556 | MFS Transporter ?-Ketoglutarate Permease | -2.4† | -2.5 | - | - | - | -2.2† | |
| II 0300 | ABC-Type Ribose Transport System, RbsA | -1.9 | -1.8† | - | 1.7 | - | 1.6† | [22] |
| II 0362 | ABC-Type Xylose Transport System, XylH | -1.6† | -2.5 | -3.0† | - | - | - | |
| II 0700 | Galactoside Transport System, MglC | 1.6† | - | -1.8† | -2.1 | - | 5.5† | |
| II 0701 | ABC-Type Ribose Transport System, RbsC | 2.4† | 2.2 | - | - | - | 2.6† | [33] |
| II 0702 | ABC-Type Simple Sugar Transport System | 1.5† | - | -3.6† | - | -2.8 | -5.1† | |
| II 0838 | Succinoglycan Biosynthesis Transport Protein, ExoT | -2.0 | -4.3 | -4.2† | - | -1.7 | - | |
| II 0851 | Exopolysaccharide Export, ExoF Precursor | -2.1 | - | 2.1† | - | - | - | |
| Defense Mechanism | ||||||||
| I 0361 | ABC-Type Antimicrobial Peptide Transporter System, FtsX | -1.9 | - | - | - | -1.6† | - | |
| I 0472 | ABC-Type Multidrug Transport System | - | 2.0 | - | -1.6† | -1.5† | - | |
| I 0656 | ABC-Type Multidrug Transporter | 1.7 | 2.3† | - | 1.6† | - | - | |
| I 1743 | ABC-Type Multidrug Transporter System | - | - | - | -1.8† | -1.7 | - | |
| I 1934 | ABC-Type Oligopeptide Transport System | -1.6† | -1.9 | - | - | - | - | |
| II 0199 | ABC-Type Oligopeptide Transport System, OppF | -1.5† | -2.8 | - | - | - | - | |
| II 0205 | ABC-Type Oligo/Dipeptide Transport System, DppF | -1.9 | -2.1† | - | 1.6 | - | - | |
| II 0285 | ABC-Type Oligo/Dipeptide/Nickel Transport System, DppB | - | - | - | 1.7 | 1.6† | - | [31] |
| II 0473 | Cation/Multidrug Efflux Pump | -1.8 | -1.5† | - | 1.8 | - | - | |
| II 0801 | ABC-Type Multidrug Transport System | -2.3 | - | - | -1.7 | - | - | |
| I 0187 | DME Family Transporter | - | - | -3.9† | -1.8 | -2.2 | - | Ficht, u.p. |
| I 0654 | ABC-Type Multidrug Transporter | -1.7 | -2.1 | -2.3† | 2.0 | - | - | |
| I 0655 | ABC-Type Multidrug Transporter | -1.8 | -2.3 | - | -1.7† | - | 1.5† | |
| I 0984 | ABC-Type β -(1,2) Glucan Transporter | -2.1 | - | 1.7† | - | -1.5† | - | |
| II 0221 | ABC-Type Oligo/Dipeptide/Nickel Transport System, DppC | - | -1.9 | -2.8† | -1.5† | - | - | |
| II 0382 | Acriflavin Resistance Protein D | -1.5† | - | - | -1.8 | - | 1.8† | |
| Inorganic Ions | ||||||||
| I 1041 | ABC-Type Fe-S Cluster Assembly Transporter | 1.5† | 2.0 | - | - | - | - | |
| I 1954 | ABC-Type Metal Ion Transport System | -2.0 | -1.6 | - | 2.0 | 2.1 | - | |
| II 0005 | ABC-Type Molybdate-Binding Protein | -2.7 | -2.4 | - | 1.8† | - | - | |
| II 0418 | Mg2+ Transporter Protein, MgtE | -3.2 | -1.9† | - | -1.6† | -1.8† | - | |
| II 0798 | ABC-Type Nitrate Transport System, NrtC | - | - | - | -2.1 | -2.1 | - | |
| II 0923 | ABC-Type Spermidine/Putrescine Transport System | -1.9† | -2.6 | - | - | - | - | [22] |
| II 1121 | ABC-Type Fe3+ Transport System, SfuB | - | - | - | -1.8† | -1.9 | - | |
| I 0637 | ABC-Type Cobalt Transport Protein, CbiQ | 1.5† | 2.3 | 1.9† | -1.6† | - | 1.9† | |
| I 0641 | ABC-Type Co2+ Transport System | 1.8† | 1.9 | - | -1.8 | - | 1.6† | |
| I 0659 | ABC-Type Fe3+ Siderophore Transport System | -1.8 | -2.0 | - | - | - | 1.7† | |
| I 1739 | ABC-Type Nitrate/Sulfonate/Bicarbonate Transporter | -1.5† | -1.8 | -1.8† | -1.7 | -2.1 | - | |
| II 0176 | ABC-Type High-Affinity Zn Transport System, ZnuB | -2.4† | -2.3 | -1.8† | - | - | - | |
| II 0770 | Potassium Efflux System, PhaA, PhaB | -2.0† | -2.1 | -1.6† | - | - | - | |
| Other | ||||||||
| I 1852 | ABC-Type Heme Exporter Protein B | -1.8 | -1.9 | - | - | - | - | |
| I 1860 | ABC-Type Transporter, Lysophospholipase L1 | -1.8† | -1.9 | - | - | - | - | |
| I 1198 | RDD Family, Hypothetical Membrane Spanning Protein | 1.5 | 1.6† | -1.7† | - | - | - | |
| I 1554 | MFS Family Transporter | - | - | - | -2.3 | -2.0 | 2.0† | |
| I 1851 | ABC-Type Heme Exporter Protein C | - | -1.9† | -1.6† | 1.8 | - | - | |
| II 1136 | ABC-Type Uncharacterized Transport System | -1.5† | -1.9 | -2.2 | - | - | - | |
A (-) indicates genes excluded for technical reasons or had a fold change of less than 1.5; † genes that did not pass the statistical significance test but showed an average alteration of at least 1.5-fold. Fold change values are the averaged log2 ratio of normalized signal values from two independent statistical analyses. Abbreviations are as follows: STM, Signature Tagged Mutagenesis; DME, Drug/Metabolite Exporter; G3P, Glycerol-3-Phosphate; AA, amino acid.