| Condition | Gene | Description | Fitness | Cons. |
|---|
| 2-Keto-D-gluconic acid hemicalcium salt monohydrate | PFR28_00638 | Acyl carrier protein phosphodiesterase | -3.5 | |
| 2-Keto-D-gluconic acid hemicalcium salt monohydrate | PFR28_00812 | Glucose-1-phosphate cytidylyltransferase | -1.4 | |
| 2-Keto-D-gluconic acid hemicalcium salt monohydrate | PFR28_00815 | hypothetical protein | -1.0 | |
| 2-Keto-D-gluconic acid hemicalcium salt monohydrate | PFR28_00817 | hypothetical protein | -1.1 | |
| 2-Keto-D-gluconic acid hemicalcium salt monohydrate | PFR28_00818 | Rhamnosyl O-methyltransferase | -1.0 | |
| 2-Keto-D-gluconic acid hemicalcium salt monohydrate | PFR28_01097 | Aerotaxis receptor | -1.4 | |
| 2-Keto-D-gluconic acid hemicalcium salt monohydrate | PFR28_01596 | Glyoxylate/hydroxypyruvate reductase B | -5.2 | Yes |
| 2-Keto-D-gluconic acid hemicalcium salt monohydrate | PFR28_01597 | Putative tartrate transporter | -5.2 | Yes |
| 2-Keto-D-gluconic acid hemicalcium salt monohydrate | PFR28_01598 | 2-dehydro-3-deoxygluconokinase | -4.7 | Yes |
| 2-Keto-D-gluconic acid hemicalcium salt monohydrate | PFR28_01599 | hypothetical protein | -4.7 | Yes |
| 2-Keto-D-gluconic acid hemicalcium salt monohydrate | PFR28_02083 | Pesticin receptor | -1.5 | |
| 2-Keto-D-gluconic acid hemicalcium salt monohydrate | PFR28_02345 | hypothetical protein | -1.8 | |
| 2-Keto-D-gluconic acid hemicalcium salt monohydrate | PFR28_02361 | hypothetical protein | -3.2 | |
| 2-Keto-D-gluconic acid hemicalcium salt monohydrate | PFR28_04725 | NAD(P) transhydrogenase subunit alpha part 1 | -1.6 | |
| 2-Keto-D-gluconic acid hemicalcium salt monohydrate | PFR28_04828 | hypothetical protein | -2.2 | |
| 4-Acetoxy-3-methoxycinnamic acid | PFR28_00419 | HTH-type transcriptional regulator DmlR | -2.4 | Yes |
| 4-Acetoxy-3-methoxycinnamic acid | PFR28_00420 | S-(hydroxymethyl)glutathione dehydrogenase | -2.1 | |
| 4-Acetoxy-3-methoxycinnamic acid | PFR28_00421 | S-formylglutathione hydrolase YeiG | -2.5 | |
| 4-Acetoxy-3-methoxycinnamic acid | PFR28_00631 | putative efflux pump membrane transporter TtgB | +1.4 | |
| 4-Acetoxy-3-methoxycinnamic acid | PFR28_00632 | putative efflux pump periplasmic linker TtgA | +1.7 | |
| 4-Acetoxy-3-methoxycinnamic acid | PFR28_00947 | Acyl-CoA thioesterase 2 | -1.6 | |
| 4-Acetoxy-3-methoxycinnamic acid | PFR28_01834 | 3-(3-hydroxy-phenyl)propionate transporter | -3.5 | Yes |
| 4-Acetoxy-3-methoxycinnamic acid | PFR28_01835 | Porin-like protein NicP | -3.5 | |
| 4-Acetoxy-3-methoxycinnamic acid | PFR28_01841 | Oxidoreductase NdmD | -4.1 | Yes |
| 4-Acetoxy-3-methoxycinnamic acid | PFR28_01842 | Toluene-4-sulfonate monooxygenase system iron-sulfur subunit TsaM1 | -3.7 | Yes |
| 4-Acetoxy-3-methoxycinnamic acid | PFR28_03389 | Copper resistance protein A | -1.9 | |
| 4-Acetoxy-3-methoxycinnamic acid | PFR28_03390 | Copper resistance protein B | -2.0 | |
| 4-Acetoxy-3-methoxycinnamic acid | PFR28_03485 | Cytochrome c551 peroxidase | -1.7 | |
| 4-Acetoxy-3-methoxycinnamic acid | PFR28_03486 | Adaptive-response sensory-kinase SasA | -1.4 | |
| 4-Acetoxy-3-methoxycinnamic acid | PFR28_03487 | Adaptive-response sensory-kinase SasA | -1.6 | |
| 4-Acetoxy-3-methoxycinnamic acid | PFR28_03611 | HTH-type transcriptional regulator CdhR | -1.6 | |
| 4-Aminobutyric acid | PFR28_04053 | hypothetical protein | -1.9 | Yes |
| 4-Aminobutyric acid | PFR28_04055 | Response regulator UvrY | -1.6 | |
| 4-Aminobutyric acid | PFR28_04242 | Pyridoxal phosphate homeostasis protein | -2.1 | |
| 4-Aminobutyric acid | PFR28_04595 | GABA permease | -2.4 | Yes |
| 4-Guanidinobutyric acid | PFR28_00018 | Na(+), Li(+), K(+)/H(+) antiporter | variable | |
| 4-Guanidinobutyric acid | PFR28_00775 | Osmoregulated proline transporter OpuE | -4.6 | Yes |
| 4-Guanidinobutyric acid | PFR28_00776 | hypothetical protein | -3.7 | |
| 4-Guanidinobutyric acid | PFR28_00778 | Guanidinobutyrase | -6.1 | Yes |
| 4-Guanidinobutyric acid | PFR28_00779 | hypothetical protein | -5.0 | Yes |
| 4-Guanidinobutyric acid | PFR28_01160 | hypothetical protein | +1.6 | |
| 4-Guanidinobutyric acid | PFR28_01676 | Na(+)/H(+) antiporter NhaB | -4.5 | |
| 4-Guanidinobutyric acid | PFR28_04242 | Pyridoxal phosphate homeostasis protein | -1.8 | |
| 4-Guanidinobutyric acid | PFR28_04399 | D-amino acid dehydrogenase 1 | variable | |
| 4-Guanidinobutyric acid | PFR28_05045 | K(+)/H(+) antiporter NhaP2 | -2.4 | |
| 4-Hydroxybenzoic Acid | PFR28_00210 | hypothetical protein | -1.2 | |
| 4-Hydroxybenzoic Acid | PFR28_00393 | LL-diaminopimelate aminotransferase | -1.7 | |
| 4-Hydroxybenzoic Acid | PFR28_00545 | p-hydroxybenzoate hydroxylase | -2.8 | Yes |
| 4-Hydroxybenzoic Acid | PFR28_00546 | HTH-type transcriptional activator RhaS | -4.1 | Yes |
| 4-Hydroxybenzoic Acid | PFR28_00579 | p-hydroxybenzoic acid efflux pump subunit AaeB | -2.8 | Yes |
| 4-Hydroxybenzoic Acid | PFR28_00580 | hypothetical protein | -3.2 | |
| 4-Hydroxybenzoic Acid | PFR28_00581 | p-hydroxybenzoic acid efflux pump subunit AaeA | -3.4 | Yes |
| 4-Hydroxybenzoic Acid | PFR28_00585 | Long-chain-fatty-acid--CoA ligase | +2.3 | |
| 4-Hydroxybenzoic Acid | PFR28_00908 | Histidinol-phosphate aminotransferase | -1.6 | |
| 4-Hydroxybenzoic Acid | PFR28_00944 | putative NTE family protein | +1.3 | |
| 4-Hydroxybenzoic Acid | PFR28_01021 | hypothetical protein | -1.3 | |
| 4-Hydroxybenzoic Acid | PFR28_01233 | hypothetical protein | -1.9 | |
| 4-Hydroxybenzoic Acid | PFR28_01267 | Arginine N-succinyltransferase subunit beta | +1.4 | |
| 4-Hydroxybenzoic Acid | PFR28_01576 | hypothetical protein | -1.4 | |
| 4-Hydroxybenzoic Acid | PFR28_01689 | Undecaprenyl-diphosphatase | +1.3 | |
| 4-Hydroxybenzoic Acid | PFR28_01720 | Chemotaxis protein methyltransferase | +1.8 | |
| 4-Hydroxybenzoic Acid | PFR28_01802 | Sensor histidine kinase RcsC | -1.3 | |
| 4-Hydroxybenzoic Acid | PFR28_02410 | hypothetical protein | -1.4 | |
| 4-Hydroxybenzoic Acid | PFR28_02794 | hypothetical protein | -1.4 | |
| 4-Hydroxybenzoic Acid | PFR28_02974 | Peptidoglycan-associated lipoprotein | -1.5 | |
| 4-Hydroxybenzoic Acid | PFR28_03054 | HTH-type transcriptional activator RhaS | -1.3 | |
| 4-Hydroxybenzoic Acid | PFR28_03194 | Long-chain fatty acid transport protein | -1.7 | |
| 4-Hydroxybenzoic Acid | PFR28_03237 | Inner membrane protein YohC | -2.3 | |
| 4-Hydroxybenzoic Acid | PFR28_03261 | putative MFS-type transporter YcaD | +2.7 | |
| 4-Hydroxybenzoic Acid | PFR28_03618 | hypothetical protein | -1.5 | |
| 4-Hydroxybenzoic Acid | PFR28_03619 | hypothetical protein | -1.4 | |
| 4-Hydroxybenzoic Acid | PFR28_03686 | Intermembrane transport protein YebT | -1.5 | |
| 4-Hydroxybenzoic Acid | PFR28_03688 | hypothetical protein | -1.4 | |
| 4-Hydroxybenzoic Acid | PFR28_03779 | hypothetical protein | -2.2 | |
| 4-Hydroxybenzoic Acid | PFR28_03780 | hypothetical protein | -1.7 | |
| 4-Hydroxybenzoic Acid | PFR28_03851 | Magnesium and cobalt efflux protein CorC | -1.6 | |
| 4-Hydroxybenzoic Acid | PFR28_03864 | D-alanyl-D-alanine carboxypeptidase DacC | -1.9 | Yes |
| 4-Hydroxybenzoic Acid | PFR28_04204 | ATP-dependent RNA helicase RhlE | -1.5 | |
| 4-Hydroxybenzoic Acid | PFR28_04295 | Putrescine-binding periplasmic protein SpuD | -1.4 | |
| 4-Hydroxybenzoic Acid | PFR28_04434 | Hydrogen peroxide-inducible genes activator | -1.5 | |
| 4-Hydroxybenzoic Acid | PFR28_04540 | Ubiquinone biosynthesis O-methyltransferase, mitochondrial | -1.3 | |
| 4-Hydroxybenzoic Acid | PFR28_04692 | hypothetical protein | +1.3 | |
| 4-Hydroxybenzoic Acid | PFR28_04737 | Protein YdgA | +1.5 | |
| 4-Hydroxybenzoic Acid | PFR28_04753 | hypothetical protein | -1.4 | |
| 4-Hydroxybenzoic Acid | PFR28_04783 | hypothetical protein | +1.3 | |
| 4-Hydroxybenzoic Acid | PFR28_04965 | Urocanate hydratase | -1.6 | |
| 4-Hydroxyphenylpropionic acid | PFR28_00129 | Porin D | +4.2 | |
| 4-Hydroxyphenylpropionic acid | PFR28_00130 | Periplasmic dipeptide transport protein | +2.5 | |
| 4-Hydroxyphenylpropionic acid | PFR28_00131 | Periplasmic dipeptide transport protein | +3.1 | |
| 4-Hydroxyphenylpropionic acid | PFR28_00546 | HTH-type transcriptional activator RhaS | -1.8 | Yes |
| 4-Hydroxyphenylpropionic acid | PFR28_00585 | Long-chain-fatty-acid--CoA ligase | +1.7 | |
| 4-Hydroxyphenylpropionic acid | PFR28_00654 | Alcohol dehydrogenase 2 | -1.1 | |
| 4-Hydroxyphenylpropionic acid | PFR28_00897 | hypothetical protein | -1.2 | |
| 4-Hydroxyphenylpropionic acid | PFR28_00947 | Acyl-CoA thioesterase 2 | +1.2 | |
| 4-Hydroxyphenylpropionic acid | PFR28_01233 | hypothetical protein | -2.4 | |
| 4-Hydroxyphenylpropionic acid | PFR28_01546 | putative ABC transporter ATP-binding protein YejF | +1.3 | |
| 4-Hydroxyphenylpropionic acid | PFR28_01547 | Inner membrane ABC transporter permease protein YejE | +2.5 | |
| 4-Hydroxyphenylpropionic acid | PFR28_01548 | Inner membrane ABC transporter permease protein YejB | +2.3 | |
| 4-Hydroxyphenylpropionic acid | PFR28_01549 | Oligopeptide-binding protein AppA | +2.4 | |
| 4-Hydroxyphenylpropionic acid | PFR28_01576 | hypothetical protein | -1.3 | |
| 4-Hydroxyphenylpropionic acid | PFR28_01820 | 1,3-propanediol dehydrogenase | -3.0 | |
| 4-Hydroxyphenylpropionic acid | PFR28_01835 | Porin-like protein NicP | +1.4 | |
| 4-Hydroxyphenylpropionic acid | PFR28_02968 | hypothetical protein | -2.0 | |
| 4-Hydroxyphenylpropionic acid | PFR28_03175 | FKBP-type 22 kDa peptidyl-prolyl cis-trans isomerase | +1.7 | |
| 4-Hydroxyphenylpropionic acid | PFR28_03189 | Sensor histidine kinase RcsC | -1.8 | |
| 4-Hydroxyphenylpropionic acid | PFR28_03237 | Inner membrane protein YohC | -2.9 | |
| 4-Hydroxyphenylpropionic acid | PFR28_03285 | Histidine transport ATP-binding protein HisP | +2.0 | |
| 4-Hydroxyphenylpropionic acid | PFR28_03286 | Octopine transport system permease protein OccM | +1.6 | |
| 4-Hydroxyphenylpropionic acid | PFR28_03287 | Histidine transport system permease protein HisQ | +1.9 | |
| 4-Hydroxyphenylpropionic acid | PFR28_03288 | Lysine/arginine/ornithine-binding periplasmic protein | +1.6 | |
| 4-Hydroxyphenylpropionic acid | PFR28_03483 | hypothetical protein | -1.4 | |
| 4-Hydroxyphenylpropionic acid | PFR28_03484 | hypothetical protein | -2.2 | |
| 4-Hydroxyphenylpropionic acid | PFR28_03618 | hypothetical protein | -1.4 | |
| 4-Hydroxyphenylpropionic acid | PFR28_03619 | hypothetical protein | -1.4 | |
| 4-Hydroxyphenylpropionic acid | PFR28_03812 | HTH-type transcriptional repressor NicS | +1.5 | Yes |
| 4-Hydroxyphenylpropionic acid | PFR28_04088 | Pyrroloquinoline-quinone synthase | -1.6 | |
| 4-Hydroxyphenylpropionic acid | PFR28_04241 | Twitching mobility protein | -1.6 | |
| 4-Hydroxyphenylpropionic acid | PFR28_04323 | hypothetical protein | +2.0 | |
| 4-Hydroxyphenylpropionic acid | PFR28_04361 | Regulator of sigma D | +1.3 | |
| 4-Hydroxyphenylpropionic acid | PFR28_04411 | Periplasmic dipeptide transport protein | -1.6 | |
| 4-Hydroxyphenylpropionic acid | PFR28_04624 | DNA polymerase I | -1.8 | |
| 4-Hydroxyphenylpropionic acid | PFR28_04686 | hypothetical protein | -2.1 | |
| 4-Hydroxyphenylpropionic acid | PFR28_04688 | Cytochrome c oxidase subunit 3 | -1.6 | |
| 4-Hydroxyphenylpropionic acid | PFR28_04690 | Cytochrome c oxidase subunit 1 | -1.6 | |
| 4-Hydroxyphenylpropionic acid | PFR28_04737 | Protein YdgA | +1.4 | |
| 4-Hydroxyphenylpropionic acid | PFR28_04905 | hypothetical protein | -1.3 | |
| 4-Hydroxyphenylpropionic acid | PFR28_04965 | Urocanate hydratase | -1.6 | |
| 4-Hydroxyphenylpropionic acid | PFR28_04991 | hypothetical protein | -2.2 | |
| 5-Aminovaleric acid | PFR28_00738 | Isocitrate dehydrogenase kinase/phosphatase | -4.4 | |
| 5-Aminovaleric acid | PFR28_02060 | hypothetical protein | -1.6 | |
| 5-Aminovaleric acid | PFR28_02062 | 3-hydroxybutyryl-CoA dehydrogenase | -3.1 | |
| 5-Aminovaleric acid | PFR28_02063 | hypothetical protein | -1.2 | |
| 5-Aminovaleric acid | PFR28_03426 | 2-dehydropantoate 2-reductase | -1.1 | |
| 5-Aminovaleric acid | PFR28_04053 | hypothetical protein | -5.8 | |
| 5-Aminovaleric acid | PFR28_04055 | Response regulator UvrY | -5.5 | |
| 5-Aminovaleric acid | PFR28_04056 | Membrane-bound lytic murein transglycosylase F | -1.5 | |
| 5-Aminovaleric acid | PFR28_04727 | Glycine cleavage system transcriptional activator | -5.4 | Yes |
| 5-Aminovaleric acid | PFR28_04728 | Acyl-CoA dehydrogenase | -5.4 | Yes |
| 5-Aminovaleric acid | PFR28_04729 | Acetyl-CoA:oxalate CoA-transferase | -5.7 | Yes |
| Adenosine | PFR28_00208 | Dihydromonapterin reductase | -1.8 | |
| Adenosine | PFR28_00424 | '5'-nucleotidase SurE' transl_table=11 | -1.6 | |
| Adenosine | PFR28_01062 | hypothetical protein | -1.9 | |
| Adenosine | PFR28_01063 | putative xanthine dehydrogenase subunit D | -1.9 | |
| Adenosine | PFR28_01064 | hypothetical protein | -1.9 | |
| Adenosine | PFR28_02498 | Vitamin B12 import ATP-binding protein BtuD | -1.2 | |
| Adenosine | PFR28_02731 | Pyrimidine-specific ribonucleoside hydrolase RihB | -3.4 | |
| Adenosine | PFR28_03111 | Hydroxypyruvate isomerase | -1.6 | |
| Adenosine | PFR28_03840 | AMP nucleosidase | -2.3 | Yes |
| Adenosine | PFR28_04939 | putative protein YibN | -1.5 | |
| Adenosine | PFR28_05253 | Adenine deaminase | -1.9 | Yes |
| Azelaic acid | PFR28_03821 | Acyl-CoA thioesterase 2 | -1.5 | |
| Betaine | PFR28_01004 | Molybdenum cofactor guanylyltransferase | -2.1 | |
| Betaine | PFR28_02656 | HTH-type transcriptional regulator CdhR | -3.7 | |
| Betaine | PFR28_03947 | Riboflavin biosynthesis protein RibBA | -2.7 | |
| Betaine | PFR28_04162 | L-serine dehydratase TdcG | -2.6 | |
| Betaine | PFR28_04723 | NAD(P) transhydrogenase subunit beta | -4.4 | |
| Betaine | PFR28_04724 | NAD(P) transhydrogenase subunit alpha | -4.2 | |
| Betaine | PFR28_04725 | NAD(P) transhydrogenase subunit alpha part 1 | -3.8 | |
| Betaine | PFR28_04882 | Sulfur carrier protein FdhD | -2.6 | |
| Betaine hydrochloride | PFR28_01004 | Molybdenum cofactor guanylyltransferase | -1.4 | |
| Betaine hydrochloride | PFR28_02656 | HTH-type transcriptional regulator CdhR | -1.3 | |
| Betaine hydrochloride | PFR28_02933 | Aminodeoxychorismate synthase component 1 | -1.2 | Yes |
| Betaine hydrochloride | PFR28_03261 | putative MFS-type transporter YcaD | +1.4 | |
| Betaine hydrochloride | PFR28_03335 | Transcriptional activator protein CzcR | -1.7 | |
| Betaine hydrochloride | PFR28_04723 | NAD(P) transhydrogenase subunit beta | -1.5 | Yes |
| Choline | PFR28_00196 | Phosphate acetyltransferase | -2.0 | |
| Choline | PFR28_01004 | Molybdenum cofactor guanylyltransferase | -1.9 | |
| Choline | PFR28_04162 | L-serine dehydratase TdcG | -2.4 | |
| Choline | PFR28_04167 | NAD/NADP-dependent betaine aldehyde dehydrogenase | -5.0 | |
| Choline | PFR28_04168 | Oxygen-dependent choline dehydrogenase | -5.1 | |
| Choline | PFR28_04882 | Sulfur carrier protein FdhD | -1.6 | |
| Choline chloride | PFR28_00196 | Phosphate acetyltransferase | -1.5 | |
| Choline chloride | PFR28_01004 | Molybdenum cofactor guanylyltransferase | -2.0 | |
| Choline chloride | PFR28_01165 | hypothetical protein | +1.2 | |
| Choline chloride | PFR28_04162 | L-serine dehydratase TdcG | -2.1 | |
| Choline chloride | PFR28_04166 | HTH-type transcriptional regulator BetI | -1.5 | Yes |
| Choline chloride | PFR28_04167 | NAD/NADP-dependent betaine aldehyde dehydrogenase | -3.3 | Yes |
| Choline chloride | PFR28_04168 | Oxygen-dependent choline dehydrogenase | -4.4 | Yes |
| Choline chloride | PFR28_04882 | Sulfur carrier protein FdhD | -1.6 | |
| Citric Acid | PFR28_00679 | hypothetical protein | -2.7 | |
| Citric Acid | PFR28_00680 | hypothetical protein | -2.4 | |
| Citric Acid | PFR28_01057 | D-alanyl-D-alanine carboxypeptidase DacC | +1.1 | |
| Citric Acid | PFR28_04648 | Citrate transporter | -1.6 | Yes |
| Cytidine | PFR28_00042 | 1-aminocyclopropane-1-carboxylate deaminase | +1.1 | |
| Cytidine | PFR28_00700 | Outer membrane protein assembly factor BamC | variable | |
| Cytidine | PFR28_01021 | hypothetical protein | +1.7 | |
| Cytidine | PFR28_01269 | Putrescine importer PuuP | +1.5 | |
| Cytidine | PFR28_01273 | hypothetical protein | +1.5 | |
| Cytidine | PFR28_01741 | Phosphoglucomutase | +1.2 | |
| Cytidine | PFR28_02155 | NADP-dependent glyceraldehyde-3-phosphate dehydrogenase | +1.0 | |
| Cytidine | PFR28_02408 | hypothetical protein | +1.1 | |
| D,L-Malic Acid | PFR28_02578 | Glycolate permease GlcA | +1.0 | |
| D,L-Malic Acid | PFR28_03241 | C4-dicarboxylate transport protein 2 | -2.9 | Yes |
| D,L-Malic Acid | PFR28_04889 | C4-dicarboxylate transport transcriptional regulatory protein DctD | -2.8 | |
| D,L-Malic Acid | PFR28_04890 | C4-dicarboxylate transport sensor protein DctB | -1.8 | |
| D-(+)-Galactosamine hydrochloride | PFR28_00598 | hypothetical protein | variable | |
| D-(+)-Galactosamine hydrochloride | PFR28_00607 | Arginine exporter protein ArgO | -5.0 | Yes |
| D-(+)-Galactosamine hydrochloride | PFR28_00608 | HTH-type transcriptional regulator ArgP | -5.4 | Yes |
| D-(+)-Galactosamine hydrochloride | PFR28_00830 | Regulatory protein AtoC | variable | |
| D-(+)-Galactosamine hydrochloride | PFR28_00841 | hypothetical protein | +2.1 | |
| D-(+)-Galactosamine hydrochloride | PFR28_00854 | Protein phosphatase CheZ | +1.7 | |
| D-(+)-Galactosamine hydrochloride | PFR28_01002 | hypothetical protein | -1.6 | |
| D-(+)-Galactosamine hydrochloride | PFR28_01383 | Major cell-binding factor | variable | Yes |
| D-(+)-Galactosamine hydrochloride | PFR28_01384 | Glutamine transport system permease protein GlnP | variable | Yes |
| D-(+)-Galactosamine hydrochloride | PFR28_01385 | L-cystine transport system permease protein TcyB | variable | Yes |
| D-(+)-Galactosamine hydrochloride | PFR28_01389 | D-threonine aldolase | -5.1 | Yes |
| D-(+)-Galactosamine hydrochloride | PFR28_02078 | hypothetical protein | +1.2 | |
| D-(+)-Galactosamine hydrochloride | PFR28_02986 | 2-dehydro-3-deoxy-6-phosphogalactonate aldolase | -5.2 | |
| D-(+)-Galactosamine hydrochloride | PFR28_02987 | putative 2-dehydro-3-deoxygalactonokinase DgoK1 | -6.3 | Yes |
| D-(+)-Galactosamine hydrochloride | PFR28_02992 | L-arabinose transport system permease protein AraH | variable | |
| D-(+)-Galactosamine hydrochloride | PFR28_02993 | Arabinose import ATP-binding protein AraG | variable | |
| D-(+)-Galactosamine hydrochloride | PFR28_02994 | L-arabinose-binding periplasmic protein | variable | Yes |
| D-(+)-Galactosamine hydrochloride | PFR28_02995 | Oxidoreductase UcpA | variable | Yes |
| D-(+)-Galactosamine hydrochloride | PFR28_02996 | 6-deoxy-6-sulfogluconolactonase | -2.8 | Yes |
| D-(+)-Galactosamine hydrochloride | PFR28_02997 | hypothetical protein | -2.6 | |
| D-(+)-Galactosamine hydrochloride | PFR28_03354 | Peptidoglycan-associated lipoprotein | +1.4 | |
| D-(+)-Galactosamine hydrochloride | PFR28_03411 | Acyl-CoA thioester hydrolase YbgC | -1.1 | |
| D-(+)-Galactosamine hydrochloride | PFR28_03486 | Adaptive-response sensory-kinase SasA | -1.1 | |
| D-(+)-Galactosamine hydrochloride | PFR28_03542 | Putative amino-acid ABC transporter-binding protein YhdW | +1.2 | |
| D-(+)-Galactosamine hydrochloride | PFR28_03812 | HTH-type transcriptional repressor NicS | +4.3 | |
| D-(+)-Galactosamine hydrochloride | PFR28_04689 | Cytochrome c oxidase assembly protein CtaG | -2.0 | |
| D-(+)-Galactosamine hydrochloride | PFR28_05045 | K(+)/H(+) antiporter NhaP2 | +2.1 | |
| D-(+)-Galactosamine hydrochloride | PFR28_05110 | Motility protein A | +3.0 | |
| D-Fructose | PFR28_00104 | Catabolite repressor/activator | +1.5 | Yes |
| D-Fructose | PFR28_00105 | hypothetical protein | -4.9 | Yes |
| D-Fructose | PFR28_00107 | hypothetical protein | -5.4 | Yes |
| D-Fructose | PFR28_02346 | hypothetical protein | -1.4 | |
| D-Galactose | PFR28_00566 | putative sugar-binding periplasmic protein | +1.2 | Yes |
| D-Galactose | PFR28_00567 | Melibiose/raffinose/stachyose import permease protein MelD | +1.0 | Yes |
| D-Galactose | PFR28_02984 | D-galactonate transporter | -3.0 | Yes |
| D-Galactose | PFR28_02985 | D-galactonate dehydratase | -6.1 | Yes |
| D-Galactose | PFR28_02986 | 2-dehydro-3-deoxy-6-phosphogalactonate aldolase | -5.1 | Yes |
| D-Galactose | PFR28_02987 | putative 2-dehydro-3-deoxygalactonokinase DgoK1 | -5.5 | Yes |
| D-Galactose | PFR28_04760 | hypothetical protein | variable | |
| D-Galacturonic Acid monohydrate | PFR28_00142 | putative 5-dehydro-4-deoxyglucarate dehydratase | -5.7 | Yes |
| D-Galacturonic Acid monohydrate | PFR28_00143 | Aldehyde dehydrogenase, thermostable | -5.4 | Yes |
| D-Galacturonic Acid monohydrate | PFR28_00144 | putative glucarate transporter | -5.0 | Yes |
| D-Galacturonic Acid monohydrate | PFR28_00145 | Galactarate dehydratase (L-threo-forming) | -4.9 | Yes |
| D-Galacturonic Acid monohydrate | PFR28_01676 | Na(+)/H(+) antiporter NhaB | -5.0 | |
| D-Galacturonic Acid monohydrate | PFR28_02436 | Uronate dehydrogenase | -5.2 | Yes |
| D-Galacturonic Acid monohydrate | PFR28_02437 | 6-deoxy-6-sulfogluconolactonase | -5.8 | Yes |
| D-Galacturonic Acid monohydrate | PFR28_02438 | Solute-binding protein | -5.0 | Yes |
| D-Galacturonic Acid monohydrate | PFR28_02439 | hypothetical protein | -4.7 | Yes |
| D-Galacturonic Acid monohydrate | PFR28_02440 | C4-dicarboxylate TRAP transporter large permease protein DctM | -4.8 | Yes |
| D-Galacturonic Acid monohydrate | PFR28_02441 | putative protein YphB | -3.0 | Yes |
| D-Galacturonic Acid monohydrate | PFR28_02985 | D-galactonate dehydratase | -2.2 | |
| D-Galacturonic Acid monohydrate | PFR28_02986 | 2-dehydro-3-deoxy-6-phosphogalactonate aldolase | -3.8 | Yes |
| D-Galacturonic Acid monohydrate | PFR28_02987 | putative 2-dehydro-3-deoxygalactonokinase DgoK1 | -2.8 | Yes |
| D-Galacturonic Acid monohydrate | PFR28_02992 | L-arabinose transport system permease protein AraH | -1.4 | |
| D-Galacturonic Acid monohydrate | PFR28_02993 | Arabinose import ATP-binding protein AraG | -1.5 | |
| D-Galacturonic Acid monohydrate | PFR28_02994 | L-arabinose-binding periplasmic protein | -1.6 | |
| D-Glucosamine Hydrochloride | PFR28_00196 | Phosphate acetyltransferase | -1.8 | |
| D-Glucosamine Hydrochloride | PFR28_00468 | hypothetical protein | variable | |
| D-Glucosamine Hydrochloride | PFR28_00564 | Adaptive-response sensory-kinase SasA | +2.7 | Yes |
| D-Glucosamine Hydrochloride | PFR28_00566 | putative sugar-binding periplasmic protein | +3.4 | Yes |
| D-Glucosamine Hydrochloride | PFR28_00567 | Melibiose/raffinose/stachyose import permease protein MelD | +3.3 | Yes |
| D-Glucosamine Hydrochloride | PFR28_00568 | Diacetylchitobiose uptake system permease protein NgcG | +3.1 | Yes |
| D-Glucosamine Hydrochloride | PFR28_00569 | sn-glycerol-3-phosphate import ATP-binding protein UgpC | +3.5 | Yes |
| D-Glucosamine Hydrochloride | PFR28_00593 | HTH-type transcriptional regulator GntR | +3.5 | Yes |
| D-Glucosamine Hydrochloride | PFR28_01185 | hypothetical protein | variable | |
| D-Glucosamine Hydrochloride | PFR28_01210 | hypothetical protein | -1.1 | |
| D-Glucosamine Hydrochloride | PFR28_01211 | Shikimate dehydrogenase-like protein | +2.8 | Yes |
| D-Glucosamine Hydrochloride | PFR28_01383 | Major cell-binding factor | -4.6 | Yes |
| D-Glucosamine Hydrochloride | PFR28_01384 | Glutamine transport system permease protein GlnP | -4.3 | Yes |
| D-Glucosamine Hydrochloride | PFR28_01385 | L-cystine transport system permease protein TcyB | -4.4 | Yes |
| D-Glucosamine Hydrochloride | PFR28_01389 | D-threonine aldolase | -6.4 | Yes |
| D-Glucosamine Hydrochloride | PFR28_02691 | hypothetical protein | variable | |
| D-Glucosamine Hydrochloride | PFR28_02696 | hypothetical protein | variable | |
| D-Glucosamine Hydrochloride | PFR28_02940 | Phosphoglycolate phosphatase | -1.1 | Yes |
| D-Glucosamine Hydrochloride | PFR28_03503 | Quinoprotein glucose dehydrogenase | -1.0 | |
| D-Glucosamine Hydrochloride | PFR28_03823 | hypothetical protein | +1.0 | |
| D-Glucosamine Hydrochloride | PFR28_04087 | Coenzyme PQQ synthesis protein B | -1.3 | |
| D-Glucosamine Hydrochloride | PFR28_04088 | Pyrroloquinoline-quinone synthase | -1.1 | |
| D-Glucosamine Hydrochloride | PFR28_04090 | PqqA peptide cyclase | -1.2 | Yes |
| D-Glucuronic Acid | PFR28_00142 | putative 5-dehydro-4-deoxyglucarate dehydratase | -5.0 | Yes |
| D-Glucuronic Acid | PFR28_00143 | Aldehyde dehydrogenase, thermostable | -3.0 | |
| D-Glucuronic Acid | PFR28_00564 | Adaptive-response sensory-kinase SasA | -2.4 | |
| D-Glucuronic Acid | PFR28_00566 | putative sugar-binding periplasmic protein | -2.6 | |
| D-Glucuronic Acid | PFR28_00567 | Melibiose/raffinose/stachyose import permease protein MelD | -2.8 | |
| D-Glucuronic Acid | PFR28_00568 | Diacetylchitobiose uptake system permease protein NgcG | -3.0 | |
| D-Glucuronic Acid | PFR28_00569 | sn-glycerol-3-phosphate import ATP-binding protein UgpC | -3.1 | |
| D-Glucuronic Acid | PFR28_00799 | Putative NAD(P)H nitroreductase YdjA | -1.7 | |
| D-Glucuronic Acid | PFR28_01320 | Glucarate dehydratase | -4.3 | Yes |
| D-Glucuronic Acid | PFR28_01321 | Putative tartrate transporter | -4.3 | Yes |
| D-Glucuronic Acid | PFR28_01676 | Na(+)/H(+) antiporter NhaB | -4.1 | |
| D-Glucuronic Acid | PFR28_02435 | Porin-like protein NicP | -5.4 | |
| D-Glucuronic Acid | PFR28_02436 | Uronate dehydrogenase | -4.9 | Yes |
| D-Glucuronic Acid | PFR28_02437 | 6-deoxy-6-sulfogluconolactonase | -4.3 | Yes |
| D-Glucuronic Acid | PFR28_02438 | Solute-binding protein | -4.0 | Yes |
| D-Glucuronic Acid | PFR28_02439 | hypothetical protein | -3.7 | Yes |
| D-Glucuronic Acid | PFR28_02440 | C4-dicarboxylate TRAP transporter large permease protein DctM | -4.6 | Yes |
| D-Glucuronic Acid | PFR28_03814 | hypothetical protein | +1.7 | |
| D-Glucuronic acid sodium salt monohydrate | PFR28_00142 | putative 5-dehydro-4-deoxyglucarate dehydratase | -2.6 | Yes |
| D-Glucuronic acid sodium salt monohydrate | PFR28_00143 | Aldehyde dehydrogenase, thermostable | -2.5 | Yes |
| D-Glucuronic acid sodium salt monohydrate | PFR28_01320 | Glucarate dehydratase | -3.0 | Yes |
| D-Glucuronic acid sodium salt monohydrate | PFR28_01321 | Putative tartrate transporter | -2.4 | Yes |
| D-Glucuronic acid sodium salt monohydrate | PFR28_01676 | Na(+)/H(+) antiporter NhaB | -2.3 | |
| D-Glucuronic acid sodium salt monohydrate | PFR28_02436 | Uronate dehydrogenase | -2.3 | Yes |
| D-Glucuronic acid sodium salt monohydrate | PFR28_02437 | 6-deoxy-6-sulfogluconolactonase | -2.6 | Yes |
| D-Glucuronic acid sodium salt monohydrate | PFR28_02438 | Solute-binding protein | -2.9 | |
| D-Glucuronic acid sodium salt monohydrate | PFR28_02439 | hypothetical protein | -2.4 | |
| D-Glucuronic acid sodium salt monohydrate | PFR28_02440 | C4-dicarboxylate TRAP transporter large permease protein DctM | -3.3 | |
| D-Mannitol | PFR28_01707 | Fructokinase | -5.2 | Yes |
| D-Mannitol | PFR28_01708 | Xylulose kinase | -5.1 | Yes |
| D-Mannitol | PFR28_01709 | Polyol:NADP oxidoreductase | -5.1 | Yes |
| D-Mannitol | PFR28_01710 | Maltose/maltodextrin import ATP-binding protein MalK | -4.7 | Yes |
| D-Mannitol | PFR28_01711 | Diacetylchitobiose uptake system permease protein DasC | -5.5 | Yes |
| D-Mannitol | PFR28_01712 | sn-glycerol-3-phosphate transport system permease protein UgpA | -4.9 | Yes |
| D-Mannitol | PFR28_01713 | hypothetical protein | -5.3 | Yes |
| D-Mannitol | PFR28_01716 | HTH-type transcriptional activator RhaS | -5.0 | Yes |
| D-Mannose | PFR28_00105 | hypothetical protein | -4.8 | Yes |
| D-Mannose | PFR28_00107 | hypothetical protein | -4.4 | Yes |
| D-Mannose | PFR28_00564 | Adaptive-response sensory-kinase SasA | -3.7 | Yes |
| D-Mannose | PFR28_00565 | Sulfoquinovose isomerase | -5.5 | Yes |
| D-Mannose | PFR28_00566 | putative sugar-binding periplasmic protein | -4.9 | Yes |
| D-Mannose | PFR28_00567 | Melibiose/raffinose/stachyose import permease protein MelD | -2.5 | Yes |
| D-Mannose | PFR28_00568 | Diacetylchitobiose uptake system permease protein NgcG | -2.6 | Yes |
| D-Mannose | PFR28_00569 | sn-glycerol-3-phosphate import ATP-binding protein UgpC | -2.4 | Yes |
| D-Mannose | PFR28_01709 | Polyol:NADP oxidoreductase | +2.2 | Yes |
| D-Mannose | PFR28_01710 | Maltose/maltodextrin import ATP-binding protein MalK | +2.2 | Yes |
| D-Mannose | PFR28_01711 | Diacetylchitobiose uptake system permease protein DasC | +2.1 | Yes |
| D-Mannose | PFR28_01712 | sn-glycerol-3-phosphate transport system permease protein UgpA | +2.5 | Yes |
| D-Mannose | PFR28_01713 | hypothetical protein | +2.2 | Yes |
| D-Mannose | PFR28_01716 | HTH-type transcriptional activator RhaS | +1.6 | Yes |
| D-Ribose | PFR28_00915 | Chain length determinant protein | variable | |
| D-Ribose | PFR28_01185 | hypothetical protein | variable | |
| D-Ribose | PFR28_01581 | hypothetical protein | -3.1 | |
| D-Ribose | PFR28_02986 | 2-dehydro-3-deoxy-6-phosphogalactonate aldolase | +1.8 | |
| D-Ribose | PFR28_02987 | putative 2-dehydro-3-deoxygalactonokinase DgoK1 | +1.5 | |
| D-Ribose | PFR28_04090 | PqqA peptide cyclase | -1.2 | |
| D-Trehalose dihydrate | PFR28_00562 | Glucokinase | -2.7 | Yes |
| D-Trehalose dihydrate | PFR28_00564 | Adaptive-response sensory-kinase SasA | -2.9 | |
| D-Trehalose dihydrate | PFR28_00566 | putative sugar-binding periplasmic protein | -3.3 | |
| D-Trehalose dihydrate | PFR28_00567 | Melibiose/raffinose/stachyose import permease protein MelD | -3.1 | |
| D-Trehalose dihydrate | PFR28_00568 | Diacetylchitobiose uptake system permease protein NgcG | -3.0 | |
| D-Trehalose dihydrate | PFR28_00569 | sn-glycerol-3-phosphate import ATP-binding protein UgpC | -2.9 | Yes |
| D-Trehalose dihydrate | PFR28_02340 | Periplasmic trehalase | -2.4 | Yes |
| D-Trehalose dihydrate | PFR28_04551 | hypothetical protein | -1.1 | Yes |
| D-Trehalose dihydrate | PFR28_04552 | hypothetical protein | -1.1 | Yes |
| D-Trehalose dihydrate | PFR28_04556 | hypothetical protein | -1.3 | |
| D-Trehalose dihydrate | PFR28_04557 | Vitamin B12 import ATP-binding protein BtuD | -1.2 | Yes |
| D-Trehalose dihydrate | PFR28_04559 | D-inositol-3-phosphate glycosyltransferase | -1.1 | |
| D-Xylose | PFR28_01305 | Aldose 1-epimerase | -1.3 | Yes |
| D-Xylose | PFR28_01708 | Xylulose kinase | -4.2 | Yes |
| D-Xylose | PFR28_01709 | Polyol:NADP oxidoreductase | -2.1 | Yes |
| D-Xylose | PFR28_01710 | Maltose/maltodextrin import ATP-binding protein MalK | -3.1 | |
| D-Xylose | PFR28_01711 | Diacetylchitobiose uptake system permease protein DasC | -3.2 | Yes |
| D-Xylose | PFR28_01712 | sn-glycerol-3-phosphate transport system permease protein UgpA | -2.5 | |
| D-Xylose | PFR28_01713 | hypothetical protein | -3.8 | Yes |
| D-Xylose | PFR28_01716 | HTH-type transcriptional activator RhaS | -4.2 | Yes |
| D-Xylose | PFR28_02347 | Xylose operon regulatory protein | -3.9 | Yes |
| D-Xylose | PFR28_02348 | Xylose isomerase | -4.0 | Yes |
| D-Xylose | PFR28_02349 | D-xylose-binding periplasmic protein | -1.7 | Yes |
| D-Xylose | PFR28_02350 | Xylose import ATP-binding protein XylG | -1.9 | Yes |
| D-Xylose | PFR28_02351 | Xylose transport system permease protein XylH | -1.6 | Yes |
| D-Xylose | PFR28_03405 | Cell division coordinator CpoB | +1.4 | |
| Ferulic Acid | PFR28_00283 | 'tRNA (cytidine/uridine/adenosine-2'-O-)-methyltransferase TrmJ' transl_table=11 | -1.2 | |
| Ferulic Acid | PFR28_00419 | HTH-type transcriptional regulator DmlR | -1.7 | Yes |
| Ferulic Acid | PFR28_00420 | S-(hydroxymethyl)glutathione dehydrogenase | -2.1 | Yes |
| Ferulic Acid | PFR28_00421 | S-formylglutathione hydrolase YeiG | -1.1 | |
| Ferulic Acid | PFR28_00800 | Aspartate aminotransferase | -1.4 | Yes |
| Ferulic Acid | PFR28_00812 | Glucose-1-phosphate cytidylyltransferase | -1.1 | |
| Ferulic Acid | PFR28_00897 | hypothetical protein | -1.1 | |
| Ferulic Acid | PFR28_00898 | hypothetical protein | -1.2 | |
| Ferulic Acid | PFR28_01233 | hypothetical protein | -2.0 | |
| Ferulic Acid | PFR28_01835 | Porin-like protein NicP | +2.2 | |
| Ferulic Acid | PFR28_01841 | Oxidoreductase NdmD | -2.9 | Yes |
| Ferulic Acid | PFR28_01842 | Toluene-4-sulfonate monooxygenase system iron-sulfur subunit TsaM1 | -2.9 | Yes |
| Ferulic Acid | PFR28_01914 | HTH-type transcriptional repressor RspR | -1.6 | |
| Ferulic Acid | PFR28_02041 | hypothetical protein | -1.1 | |
| Ferulic Acid | PFR28_03124 | Acireductone dioxygenase | -1.3 | Yes |
| Ferulic Acid | PFR28_03237 | Inner membrane protein YohC | -2.3 | |
| Ferulic Acid | PFR28_03359 | Bacterioferritin | -1.3 | |
| Ferulic Acid | PFR28_03880 | hypothetical protein | -1.6 | |
| Ferulic Acid | PFR28_04291 | Inner membrane ABC transporter permease protein YdcV | -1.2 | |
| Ferulic Acid | PFR28_04568 | Na(+)/H(+)-K(+) antiporter GerN | -1.3 | |
| Ferulic Acid | PFR28_04690 | Cytochrome c oxidase subunit 1 | -1.3 | |
| Ferulic Acid | PFR28_04753 | hypothetical protein | -1.6 | |
| Ferulic Acid | PFR28_04905 | hypothetical protein | -1.4 | |
| Ferulic Acid | PFR28_04965 | Urocanate hydratase | -1.5 | |
| Glycerol | PFR28_01186 | hypothetical protein | +1.6 | |
| Glycerol | PFR28_03367 | Glycerol uptake facilitator protein | -4.1 | Yes |
| Glycerol | PFR28_03368 | Glycerol kinase | -4.4 | Yes |
| Glycerol | PFR28_04287 | 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase | -3.9 | Yes |
| Glycocyamine | PFR28_01185 | hypothetical protein | +2.1 | |
| Glycocyamine | PFR28_03573 | Toluene efflux pump outer membrane protein TtgI | -1.4 | |
| Guanosine | PFR28_01061 | Guanine deaminase | -4.3 | Yes |
| Guanosine | PFR28_01062 | hypothetical protein | -4.0 | Yes |
| Guanosine | PFR28_01063 | putative xanthine dehydrogenase subunit D | -4.3 | Yes |
| Guanosine | PFR28_01064 | hypothetical protein | -4.2 | Yes |
| Guanosine | PFR28_02469 | Glycerate 2-kinase | -1.7 | |
| Guanosine | PFR28_02498 | Vitamin B12 import ATP-binding protein BtuD | -2.0 | Yes |
| Guanosine | PFR28_02525 | hypothetical protein | variable | |
| Guanosine | PFR28_02731 | Pyrimidine-specific ribonucleoside hydrolase RihB | -3.7 | Yes |
| Guanosine | PFR28_02933 | Aminodeoxychorismate synthase component 1 | variable | |
| Guanosine | PFR28_03110 | Glyoxylate carboligase | -3.9 | Yes |
| Guanosine | PFR28_03111 | Hydroxypyruvate isomerase | -2.5 | Yes |
| Guanosine | PFR28_03137 | Adenine permease AdeQ | -3.8 | Yes |
| Guanosine | PFR28_04621 | High-affinity zinc uptake system protein ZnuA | -1.4 | |
| Hydroxy-L-Proline | PFR28_00303 | Omega-amidase YafV | -4.1 | |
| Hydroxy-L-Proline | PFR28_00596 | Glutamate-pyruvate aminotransferase AlaC | -2.3 | |
| Hydroxy-L-Proline | PFR28_00915 | Chain length determinant protein | variable | |
| Hydroxy-L-Proline | PFR28_01776 | 4-hydroxy-tetrahydrodipicolinate synthase | -5.3 | |
| Hydroxy-L-Proline | PFR28_01778 | Glutamine transport ATP-binding protein GlnQ | -4.3 | |
| Hydroxy-L-Proline | PFR28_01779 | Arginine transport system permease protein ArtQ | -3.7 | |
| Hydroxy-L-Proline | PFR28_01780 | Octopine transport system permease protein OccM | -4.4 | |
| Hydroxy-L-Proline | PFR28_01782 | Membrane-bound lytic murein transglycosylase F | -5.2 | |
| Hydroxy-L-Proline | PFR28_01783 | HTH-type transcriptional activator RhaS | -5.4 | Yes |
| Hydroxy-L-Proline | PFR28_01784 | Hydrogen cyanide synthase subunit HcnB | -4.4 | |
| Hydroxy-L-Proline | PFR28_01786 | Hydrogen cyanide synthase subunit HcnC | -4.9 | |
| Hydroxy-L-Proline | PFR28_01787 | 4-hydroxyproline 2-epimerase | -5.2 | Yes |
| Hydroxy-L-Proline | PFR28_02400 | hypothetical protein | variable | Yes |
| Hydroxy-L-Proline | PFR28_02820 | Aspartate-semialdehyde dehydrogenase | -1.9 | |
| Hydroxy-L-Proline | PFR28_02934 | Phosphoserine phosphatase | +1.3 | |
| Hydroxy-L-Proline | PFR28_03539 | Glutamine transport ATP-binding protein GlnQ | +1.2 | |
| Hydroxy-L-Proline | PFR28_03540 | Inner membrane amino-acid ABC transporter permease protein YhdY | +1.3 | |
| Hydroxy-L-Proline | PFR28_03541 | hypothetical protein | +1.3 | |
| Hydroxy-L-Proline | PFR28_03542 | Putative amino-acid ABC transporter-binding protein YhdW | +1.5 | |
| Hydroxy-L-Proline | PFR28_03816 | Riboflavin transporter | -1.4 | |
| Hydroxy-L-Proline | PFR28_05053 | Bifunctional protein PutA | -4.4 | Yes |
| Hydroxy-L-Proline | PFR28_05153 | Leu/Ile/Val-binding protein | variable | |
| Hydroxy-L-Proline | PFR28_05154 | High-affinity branched-chain amino acid transport system permease protein LivH | variable | |
| Hydroxy-L-Proline | PFR28_05155 | hypothetical protein | variable | |
| Hydroxy-L-Proline | PFR28_05156 | Glutamine transport ATP-binding protein GlnQ | variable | |
| Hydroxy-L-Proline | PFR28_05157 | High-affinity branched-chain amino acid transport ATP-binding protein LivF | variable | |
| Inosine | PFR28_00104 | Catabolite repressor/activator | +6.3 | |
| Inosine | PFR28_00429 | DNA mismatch repair protein MutS | variable | |
| Inosine | PFR28_01031 | Sensor protein QseC | +1.9 | |
| Inosine | PFR28_01037 | Phosphoenolpyruvate synthase regulatory protein | +2.3 | |
| Inosine | PFR28_01062 | hypothetical protein | variable | Yes |
| Inosine | PFR28_01063 | putative xanthine dehydrogenase subunit D | variable | Yes |
| Inosine | PFR28_01064 | hypothetical protein | variable | Yes |
| Inosine | PFR28_01071 | hypothetical protein | variable | |
| Inosine | PFR28_01088 | Cbb3-type cytochrome c oxidase subunit CcoP2 | +3.5 | Yes |
| Inosine | PFR28_01090 | hypothetical protein | variable | |
| Inosine | PFR28_01091 | Cbb3-type cytochrome c oxidase subunit CcoN1 | +3.7 | Yes |
| Inosine | PFR28_01123 | Transcription-repair-coupling factor | +1.7 | |
| Inosine | PFR28_01150 | hypothetical protein | variable | |
| Inosine | PFR28_01152 | hypothetical protein | variable | |
| Inosine | PFR28_01159 | hypothetical protein | variable | |
| Inosine | PFR28_01189 | hypothetical protein | variable | |
| Inosine | PFR28_01527 | Carboxynorspermidine/carboxyspermidine decarboxylase | variable | |
| Inosine | PFR28_01709 | Polyol:NADP oxidoreductase | +3.9 | |
| Inosine | PFR28_02498 | Vitamin B12 import ATP-binding protein BtuD | variable | Yes |
| Inosine | PFR28_02731 | Pyrimidine-specific ribonucleoside hydrolase RihB | -1.4 | Yes |
| Inosine | PFR28_03016 | hypothetical protein | variable | |
| Inosine | PFR28_03110 | Glyoxylate carboligase | -3.0 | Yes |
| Inosine | PFR28_03111 | Hydroxypyruvate isomerase | -1.6 | Yes |
| Inosine | PFR28_03125 | putative 3-phenylpropionic acid transporter | +6.7 | |
| Inosine | PFR28_03137 | Adenine permease AdeQ | variable | Yes |
| Inosine | PFR28_03138 | Homoserine/homoserine lactone efflux protein | variable | |
| Inosine | PFR28_03224 | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD | variable | |
| Inosine | PFR28_03298 | Nucleoid occlusion factor SlmA | +1.6 | |
| Inosine | PFR28_03640 | Hypoxanthine-guanine phosphoribosyltransferase | variable | |
| Inosine | PFR28_03723 | Aspartate 1-decarboxylase | +4.7 | |
| Inosine | PFR28_03840 | AMP nucleosidase | variable | |
| Inosine | PFR28_04108 | Protein RarD | +1.0 | |
| Inosine | PFR28_04647 | hypothetical protein | variable | |
| Inosine | PFR28_04760 | hypothetical protein | variable | Yes |
| Inosine | PFR28_04939 | putative protein YibN | variable | |
| Inosine | PFR28_05119 | DNA mismatch repair protein MutL | variable | |
| L-Arabinose | PFR28_01579 | L-arabonate dehydratase | -5.6 | Yes |
| L-Arabinose | PFR28_01580 | Quinolone resistance transporter | -2.6 | Yes |
| L-Arabinose | PFR28_01581 | hypothetical protein | -5.7 | Yes |
| L-Arabinose | PFR28_01582 | Alpha-ketoglutaric semialdehyde dehydrogenase | -4.3 | Yes |
| L-Arabinose | PFR28_02992 | L-arabinose transport system permease protein AraH | -2.8 | Yes |
| L-Arabinose | PFR28_02993 | Arabinose import ATP-binding protein AraG | -2.4 | Yes |
| L-Arabinose | PFR28_02994 | L-arabinose-binding periplasmic protein | -2.1 | Yes |
| L-Arabinose | PFR28_02995 | Oxidoreductase UcpA | -1.1 | Yes |
| L-Arabinose | PFR28_02996 | 6-deoxy-6-sulfogluconolactonase | -2.8 | Yes |
| L-Arginine | PFR28_02805 | Gamma-glutamylputrescine oxidoreductase | -1.5 | |
| L-Arginine | PFR28_03007 | Aminodeoxychorismate lyase | -1.9 | |
| L-Arginine | PFR28_03277 | Succinylglutamate desuccinylase | -5.5 | Yes |
| L-Arginine | PFR28_03280 | N-succinylglutamate 5-semialdehyde dehydrogenase | -6.4 | Yes |
| L-Arginine | PFR28_03283 | Succinylornithine transaminase/acetylornithine aminotransferase | -5.6 | Yes |
| L-Arginine | PFR28_03285 | Histidine transport ATP-binding protein HisP | -5.5 | Yes |
| L-Arginine | PFR28_03286 | Octopine transport system permease protein OccM | -5.1 | Yes |
| L-Arginine | PFR28_03287 | Histidine transport system permease protein HisQ | -5.4 | Yes |
| L-Arginine | PFR28_03288 | Lysine/arginine/ornithine-binding periplasmic protein | -5.1 | Yes |
| L-Arginine | PFR28_04298 | Gamma-glutamylputrescine synthetase PuuA | -3.3 | Yes |
| L-Arginine | PFR28_04915 | Octopine permease ATP-binding protein P | -1.2 | |
| L-Arginine | PFR28_05228 | Biosynthetic arginine decarboxylase | -1.6 | Yes |
| L-Carnitine hydrochloride | PFR28_00172 | Ribosome hibernation promoting factor | variable | |
| L-Carnitine hydrochloride | PFR28_00196 | Phosphate acetyltransferase | -3.8 | Yes |
| L-Carnitine hydrochloride | PFR28_00488 | hypothetical protein | variable | |
| L-Carnitine hydrochloride | PFR28_00489 | hypothetical protein | variable | |
| L-Carnitine hydrochloride | PFR28_00693 | Periplasmic serine endoprotease DegP | -2.5 | |
| L-Carnitine hydrochloride | PFR28_01085 | hypothetical protein | variable | |
| L-Carnitine hydrochloride | PFR28_01324 | putative succinyl-CoA:3-ketoacid coenzyme A transferase subunit B | -1.7 | Yes |
| L-Carnitine hydrochloride | PFR28_01394 | Acetyl-coenzyme A synthetase | -1.7 | |
| L-Carnitine hydrochloride | PFR28_01396 | hypothetical protein | -1.7 | |
| L-Carnitine hydrochloride | PFR28_01397 | Anaerobic nitric oxide reductase transcription regulator NorR | -1.5 | |
| L-Carnitine hydrochloride | PFR28_01802 | Sensor histidine kinase RcsC | -1.3 | |
| L-Carnitine hydrochloride | PFR28_02330 | 3-phenylpropionate-dihydrodiol/cinnamic acid-dihydrodiol dehydrogenase | variable | |
| L-Carnitine hydrochloride | PFR28_02931 | hypothetical protein | variable | |
| L-Carnitine hydrochloride | PFR28_03334 | Adaptive-response sensory-kinase SasA | variable | |
| L-Carnitine hydrochloride | PFR28_03831 | hypothetical protein | variable | |
| L-Carnitine hydrochloride | PFR28_04155 | hypothetical protein | -3.2 | Yes |
| L-Carnitine hydrochloride | PFR28_04156 | 3-keto-5-aminohexanoate cleavage enzyme | -3.4 | Yes |
| L-Carnitine hydrochloride | PFR28_04157 | L-carnitine dehydrogenase | -3.4 | Yes |
| L-Carnitine hydrochloride | PFR28_04158 | L-carnitine dehydrogenase | -3.2 | Yes |
| L-Carnitine hydrochloride | PFR28_04172 | ATP-dependent RNA helicase DbpA | +1.6 | |
| L-Carnitine hydrochloride | PFR28_04361 | Regulator of sigma D | variable | |
| L-Carnitine hydrochloride | PFR28_04623 | hypothetical protein | -1.4 | Yes |
| L-Glutamic acid monopotassium salt monohydrate | PFR28_03371 | Glutamate/aspartate import solute-binding protein | -1.4 | Yes |
| L-Glutamic acid monopotassium salt monohydrate | PFR28_03372 | Glutamate/aspartate import permease protein GltJ | -1.4 | Yes |
| L-Glutamic acid monopotassium salt monohydrate | PFR28_03373 | Glutamate/aspartate import permease protein GltK | variable | Yes |
| L-Glutamic acid monopotassium salt monohydrate | PFR28_03375 | C4-dicarboxylate transport sensor protein DctB | -1.2 | Yes |
| L-Glutamic acid monopotassium salt monohydrate | PFR28_03376 | C4-dicarboxylate transport transcriptional regulatory protein DctD | -1.6 | Yes |
| L-Glutamic acid monopotassium salt monohydrate | PFR28_05159 | Cellobiose 2-epimerase | -1.6 | Yes |
| L-Isoleucine | PFR28_01071 | hypothetical protein | variable | |
| L-Isoleucine | PFR28_01877 | CDP-diacylglycerol--serine O-phosphatidyltransferase | -2.8 | |
| L-Isoleucine | PFR28_01878 | putative HTH-type transcriptional regulator | -5.2 | Yes |
| L-Isoleucine | PFR28_01880 | Acetyl-coenzyme A synthetase | -3.1 | Yes |
| L-Isoleucine | PFR28_01882 | Acetyl-CoA acetyltransferase | -4.9 | Yes |
| L-Isoleucine | PFR28_01883 | Acyl-CoA dehydrogenase | -4.5 | Yes |
| L-Isoleucine | PFR28_02973 | HTH-type transcriptional regulator NorG | -1.8 | Yes |
| L-Isoleucine | PFR28_03405 | Cell division coordinator CpoB | variable | |
| L-Leucine | PFR28_00013 | Methylmalonate-semialdehyde dehydrogenase [acylating] | -1.2 | |
| L-Leucine | PFR28_00208 | Dihydromonapterin reductase | -2.9 | Yes |
| L-Leucine | PFR28_00536 | High-affinity branched-chain amino acid transport ATP-binding protein LivF | -3.6 | Yes |
| L-Leucine | PFR28_00537 | Lipopolysaccharide export system ATP-binding protein LptB | -4.5 | Yes |
| L-Leucine | PFR28_00538 | hypothetical protein | -3.2 | Yes |
| L-Leucine | PFR28_00539 | High-affinity branched-chain amino acid transport system permease protein LivH | -3.4 | Yes |
| L-Leucine | PFR28_00677 | Uracil-DNA glycosylase | +1.2 | |
| L-Leucine | PFR28_00738 | Isocitrate dehydrogenase kinase/phosphatase | -4.1 | Yes |
| L-Leucine | PFR28_01037 | Phosphoenolpyruvate synthase regulatory protein | -2.7 | Yes |
| L-Leucine | PFR28_01844 | HTH-type transcriptional activator RhaS | +4.4 | Yes |
| L-Leucine | PFR28_01845 | Cysteine/O-acetylserine efflux protein | +4.4 | Yes |
| L-Leucine | PFR28_02745 | Peptidyl-prolyl cis-trans isomerase cyp18 | +1.9 | |
| L-Leucine | PFR28_03383 | Glycine dehydrogenase (decarboxylating) | -1.2 | Yes |
| L-Leucine | PFR28_03426 | 2-dehydropantoate 2-reductase | -2.8 | |
| L-Leucine | PFR28_04234 | hypothetical protein | -1.5 | |
| L-Leucine | PFR28_04316 | Aminomethyltransferase | -1.7 | |
| L-Leucine | PFR28_05045 | K(+)/H(+) antiporter NhaP2 | -1.5 | |
| L-Leucine | PFR28_05053 | Bifunctional protein PutA | +3.1 | Yes |
| L-Leucine | PFR28_05153 | Leu/Ile/Val-binding protein | -2.2 | Yes |
| L-Leucine | PFR28_05154 | High-affinity branched-chain amino acid transport system permease protein LivH | -2.3 | Yes |
| L-Leucine | PFR28_05155 | hypothetical protein | -2.4 | Yes |
| L-Leucine | PFR28_05156 | Glutamine transport ATP-binding protein GlnQ | -2.4 | Yes |
| L-Leucine | PFR28_05157 | High-affinity branched-chain amino acid transport ATP-binding protein LivF | -2.5 | Yes |
| L-Lysine | PFR28_00505 | Histidine transport system permease protein HisM | -1.2 | Yes |
| L-Lysine | PFR28_00506 | Histidine transport system permease protein HisQ | -1.3 | Yes |
| L-Lysine | PFR28_00507 | Lysine/arginine/ornithine-binding periplasmic protein | -1.4 | Yes |
| L-Lysine | PFR28_00738 | Isocitrate dehydrogenase kinase/phosphatase | -3.9 | |
| L-Lysine | PFR28_02761 | hypothetical protein | -1.5 | Yes |
| L-Lysine | PFR28_02930 | hypothetical protein | +1.2 | |
| L-Lysine | PFR28_02931 | hypothetical protein | +1.3 | |
| L-Lysine | PFR28_03283 | Succinylornithine transaminase/acetylornithine aminotransferase | +5.4 | |
| L-Lysine | PFR28_03285 | Histidine transport ATP-binding protein HisP | -1.9 | Yes |
| L-Lysine | PFR28_03286 | Octopine transport system permease protein OccM | -1.9 | Yes |
| L-Lysine | PFR28_03287 | Histidine transport system permease protein HisQ | -1.8 | Yes |
| L-Lysine | PFR28_04082 | Leucine-responsive regulatory protein | -3.7 | Yes |
| L-Lysine | PFR28_04083 | Tryptophan 2-monooxygenase | -5.2 | Yes |
| L-Lysine | PFR28_04084 | (R)-stereoselective amidase | -5.7 | Yes |
| L-Lysine | PFR28_04291 | Inner membrane ABC transporter permease protein YdcV | -2.2 | |
| L-Lysine | PFR28_04292 | Putrescine transport system permease protein PotH | -2.1 | |
| L-Lysine | PFR28_04293 | Spermidine/putrescine import ATP-binding protein PotA | -2.5 | |
| L-Lysine | PFR28_04295 | Putrescine-binding periplasmic protein SpuD | -2.2 | Yes |
| L-Lysine | PFR28_04298 | Gamma-glutamylputrescine synthetase PuuA | +2.1 | |
| L-Lysine | PFR28_04683 | Protoheme IX farnesyltransferase | variable | |
| L-Lysine | PFR28_04727 | Glycine cleavage system transcriptional activator | -4.8 | Yes |
| L-Lysine | PFR28_04728 | Acyl-CoA dehydrogenase | -5.3 | Yes |
| L-Lysine | PFR28_04729 | Acetyl-CoA:oxalate CoA-transferase | -4.9 | Yes |
| L-Malic acid | PFR28_03241 | C4-dicarboxylate transport protein 2 | -1.8 | Yes |
| L-Malic acid | PFR28_04889 | C4-dicarboxylate transport transcriptional regulatory protein DctD | -2.3 | Yes |
| L-Malic acid disodium salt monohydrate | PFR28_03241 | C4-dicarboxylate transport protein 2 | -2.8 | Yes |
| L-Malic acid disodium salt monohydrate | PFR28_04889 | C4-dicarboxylate transport transcriptional regulatory protein DctD | -3.2 | Yes |
| L-Malic acid disodium salt monohydrate | PFR28_04890 | C4-dicarboxylate transport sensor protein DctB | -1.8 | Yes |
| L-Phenylalanine | PFR28_00220 | Pectin degradation repressor protein KdgR | +1.2 | |
| L-Phenylalanine | PFR28_00221 | Homogentisate 1,2-dioxygenase | -3.9 | Yes |
| L-Phenylalanine | PFR28_00223 | Maleylpyruvate isomerase | -5.5 | Yes |
| L-Phenylalanine | PFR28_00800 | Aspartate aminotransferase | -3.4 | Yes |
| L-Phenylalanine | PFR28_00803 | Transcriptional regulatory protein TyrR | -3.2 | Yes |
| L-Phenylalanine | PFR28_00841 | hypothetical protein | variable | |
| L-Phenylalanine | PFR28_00854 | Protein phosphatase CheZ | variable | |
| L-Phenylalanine | PFR28_00857 | Chemotaxis protein PomA | -1.1 | |
| L-Phenylalanine | PFR28_01324 | putative succinyl-CoA:3-ketoacid coenzyme A transferase subunit B | variable | Yes |
| L-Phenylalanine | PFR28_02278 | hypothetical protein | +1.0 | |
| L-Phenylalanine | PFR28_02475 | 4-hydroxyphenylpyruvate dioxygenase | -4.1 | Yes |
| L-Phenylalanine | PFR28_02933 | Aminodeoxychorismate synthase component 1 | -1.2 | Yes |
| L-Phenylalanine | PFR28_03078 | hypothetical protein | variable | |
| L-Phenylalanine | PFR28_03311 | Aromatic amino acid transport protein AroP | -2.9 | Yes |
| L-Phenylalanine | PFR28_03547 | Transcriptional regulator DauR | +1.1 | |
| L-Phenylalanine | PFR28_03572 | p-hydroxybenzoic acid efflux pump subunit AaeB | variable | |
| L-Phenylalanine | PFR28_03681 | [Ribosomal protein S18]-alanine N-acetyltransferase | variable | |
| L-Phenylalanine | PFR28_03956 | putative ABC transporter ATP-binding protein | variable | |
| L-Phenylalanine | PFR28_03957 | hypothetical protein | variable | |
| L-Phenylalanine | PFR28_04230 | Response regulator PleD | variable | |
| L-Phenylalanine | PFR28_04323 | hypothetical protein | +1.8 | |
| L-Phenylalanine | PFR28_04624 | DNA polymerase I | variable | |
| L-Phenylalanine | PFR28_05045 | K(+)/H(+) antiporter NhaP2 | +1.4 | |
| L-Phenylalanine | PFR28_05090 | Outer membrane protein TolC | +1.8 | |
| L-Phenylalanine | PFR28_05110 | Motility protein A | variable | |
| L-Proline | PFR28_03371 | Glutamate/aspartate import solute-binding protein | -1.1 | |
| L-Proline | PFR28_03372 | Glutamate/aspartate import permease protein GltJ | -1.1 | |
| L-Proline | PFR28_03624 | Putative manganese exporter | variable | |
| L-Proline | PFR28_05053 | Bifunctional protein PutA | -5.6 | Yes |
| L-Valine | PFR28_00012 | HTH-type transcriptional regulator HdfR | -5.1 | Yes |
| L-Valine | PFR28_00013 | Methylmalonate-semialdehyde dehydrogenase [acylating] | -5.6 | Yes |
| L-Valine | PFR28_00196 | Phosphate acetyltransferase | +2.7 | Yes |
| L-Valine | PFR28_00208 | Dihydromonapterin reductase | -1.7 | |
| L-Valine | PFR28_00212 | hypothetical protein | -1.3 | Yes |
| L-Valine | PFR28_00536 | High-affinity branched-chain amino acid transport ATP-binding protein LivF | +2.1 | Yes |
| L-Valine | PFR28_00537 | Lipopolysaccharide export system ATP-binding protein LptB | +2.1 | |
| L-Valine | PFR28_00538 | hypothetical protein | +2.0 | Yes |
| L-Valine | PFR28_00539 | High-affinity branched-chain amino acid transport system permease protein LivH | +2.2 | Yes |
| L-Valine | PFR28_00838 | Sensor histidine kinase RcsC | +1.4 | |
| L-Valine | PFR28_01528 | Carboxynorspermidine synthase | +1.2 | |
| L-Valine | PFR28_01886 | Acyl-CoA dehydrogenase | -3.7 | Yes |
| L-Valine | PFR28_01887 | 1,4-dihydroxy-2-naphthoyl-CoA synthase | -4.5 | Yes |
| L-Valine | PFR28_02973 | HTH-type transcriptional regulator NorG | -3.4 | Yes |
| L-Valine | PFR28_03125 | putative 3-phenylpropionic acid transporter | +2.1 | |
| L-Valine | PFR28_03539 | Glutamine transport ATP-binding protein GlnQ | +1.1 | |
| L-Valine | PFR28_03541 | hypothetical protein | +1.1 | |
| L-Valine | PFR28_03542 | Putative amino-acid ABC transporter-binding protein YhdW | +1.2 | |
| L-Valine | PFR28_04042 | hypothetical protein | -2.9 | Yes |
| L-Valine | PFR28_04323 | hypothetical protein | +1.5 | |
| L-Valine | PFR28_04499 | hypothetical protein | +3.5 | |
| L-Valine | PFR28_04500 | Amino-acid carrier protein AlsT | +5.0 | Yes |
| L-Valine | PFR28_04729 | Acetyl-CoA:oxalate CoA-transferase | -1.1 | Yes |
| L-Valine | PFR28_05057 | Peptide methionine sulfoxide reductase MsrA | +1.2 | |
| L-Valine | PFR28_05158 | Sulfoacetaldehyde reductase | +1.1 | |
| L-pyroglutamic acid | PFR28_00727 | Putative metabolite transport protein YjhB | -3.3 | |
| L-pyroglutamic acid | PFR28_01891 | HTH-type transcriptional regulator GltR | -3.1 | |
| L-pyroglutamic acid | PFR28_05159 | Cellobiose 2-epimerase | -1.4 | |
| L-tyrosine | PFR28_00221 | Homogentisate 1,2-dioxygenase | -4.8 | |
| L-tyrosine | PFR28_00223 | Maleylpyruvate isomerase | -4.6 | |
| L-tyrosine | PFR28_00800 | Aspartate aminotransferase | -4.6 | |
| L-tyrosine | PFR28_00803 | Transcriptional regulatory protein TyrR | -3.5 | |
| L-tyrosine | PFR28_01324 | putative succinyl-CoA:3-ketoacid coenzyme A transferase subunit B | -1.9 | |
| L-tyrosine | PFR28_02475 | 4-hydroxyphenylpyruvate dioxygenase | -4.6 | |
| L-tyrosine | PFR28_03311 | Aromatic amino acid transport protein AroP | -4.1 | |
| L-tyrosine disodium salt | PFR28_00630 | putative efflux pump outer membrane protein TtgC | +3.7 | |
| L-tyrosine disodium salt | PFR28_00631 | putative efflux pump membrane transporter TtgB | +3.5 | |
| L-tyrosine disodium salt | PFR28_00632 | putative efflux pump periplasmic linker TtgA | +3.7 | |
| L-tyrosine disodium salt | PFR28_01088 | Cbb3-type cytochrome c oxidase subunit CcoP2 | -1.1 | |
| L-tyrosine disodium salt | PFR28_01090 | hypothetical protein | -1.3 | |
| L-tyrosine disodium salt | PFR28_01383 | Major cell-binding factor | +1.4 | |
| L-tyrosine disodium salt | PFR28_01384 | Glutamine transport system permease protein GlnP | +1.5 | |
| L-tyrosine disodium salt | PFR28_01385 | L-cystine transport system permease protein TcyB | +2.3 | |
| L-tyrosine disodium salt | PFR28_02092 | hypothetical protein | -1.7 | |
| L-tyrosine disodium salt | PFR28_03297 | hypothetical protein | +2.8 | |
| L-tyrosine disodium salt | PFR28_03405 | Cell division coordinator CpoB | -1.4 | |
| L-tyrosine disodium salt | PFR28_03891 | Protein DedA | -7.3 | Yes |
| L-tyrosine disodium salt | PFR28_04399 | D-amino acid dehydrogenase 1 | +2.0 | |
| Malonic acid | PFR28_01676 | Na(+)/H(+) antiporter NhaB | -3.6 | |
| Malonic acid | PFR28_03189 | Sensor histidine kinase RcsC | -3.7 | |
| Malonic acid | PFR28_04176 | Protein ElaA | +1.1 | |
| Malonic acid | PFR28_04214 | HTH-type transcriptional regulator GltC | -5.8 | |
| Malonic acid | PFR28_04215 | hypothetical protein | -4.9 | |
| Malonic acid | PFR28_04216 | hypothetical protein | -5.6 | |
| Malonic acid | PFR28_04217 | Malonyl CoA-acyl carrier protein transacylase | -5.8 | Yes |
| Malonic acid | PFR28_04218 | Phosphoribosyl-dephospho-CoA transferase | -6.4 | |
| Malonic acid | PFR28_04219 | hypothetical protein | -5.9 | Yes |
| Malonic acid | PFR28_04220 | Malonyl-S-ACP:biotin-protein carboxyltransferase MADC | -5.7 | |
| Malonic acid | PFR28_04222 | '2-(5''-triphosphoribosyl)-3'-dephosphocoenzyme-A synthase' transl_table=11 | -6.8 | |
| Malonic acid | PFR28_04223 | Acetyl-S-ACP:malonate ACP transferase | -5.8 | Yes |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_00172 | Ribosome hibernation promoting factor | -1.5 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_00546 | HTH-type transcriptional activator RhaS | -1.8 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_00581 | p-hydroxybenzoic acid efflux pump subunit AaeA | -1.2 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_00585 | Long-chain-fatty-acid--CoA ligase | +3.7 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_00619 | 4-hydroxybenzoate transporter PcaK | -1.3 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_00631 | putative efflux pump membrane transporter TtgB | +2.5 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_00632 | putative efflux pump periplasmic linker TtgA | +2.3 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_00700 | Outer membrane protein assembly factor BamC | -2.3 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_00708 | Nodulation protein D 2 | +1.1 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_00748 | HTH-type transcriptional regulator YhaJ | -1.7 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_00750 | FMN-dependent NADH-azoreductase | +1.7 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_00860 | hypothetical protein | -1.5 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_00915 | Chain length determinant protein | -1.6 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_01020 | HTH-type transcriptional repressor KstR2 | +1.2 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_01057 | D-alanyl-D-alanine carboxypeptidase DacC | -1.2 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_01233 | hypothetical protein | -2.0 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_01400 | putative ABC transporter ATP-binding protein YejF | -1.8 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_01403 | Oligopeptide-binding protein AppA | -1.4 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_01546 | putative ABC transporter ATP-binding protein YejF | -1.6 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_01547 | Inner membrane ABC transporter permease protein YejE | -1.6 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_01548 | Inner membrane ABC transporter permease protein YejB | -1.3 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_01549 | Oligopeptide-binding protein AppA | -1.6 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_01576 | hypothetical protein | -3.3 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_01590 | hypothetical protein | +1.4 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_01591 | hypothetical protein | +1.9 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_01593 | hypothetical protein | +1.7 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_01595 | hypothetical protein | +1.4 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_01802 | Sensor histidine kinase RcsC | -1.7 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_01914 | HTH-type transcriptional repressor RspR | -1.8 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_02741 | Translational regulator CsrA1 | -2.6 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_02931 | hypothetical protein | -1.5 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_02932 | hypothetical protein | -1.6 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_03194 | Long-chain fatty acid transport protein | -1.6 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_03237 | Inner membrane protein YohC | -2.5 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_03249 | Transcriptional regulatory protein RstA | -2.6 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_03261 | putative MFS-type transporter YcaD | +2.3 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_03298 | Nucleoid occlusion factor SlmA | -2.2 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_03367 | Glycerol uptake facilitator protein | +1.3 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_03368 | Glycerol kinase | +1.2 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_03389 | Copper resistance protein A | -1.7 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_03390 | Copper resistance protein B | -2.0 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_03484 | hypothetical protein | -2.9 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_03519 | Membrane-bound lytic murein transglycosylase F | +1.8 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_03617 | HTH-type transcriptional regulator MalT | -1.9 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_03618 | hypothetical protein | -3.8 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_03619 | hypothetical protein | -4.0 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_03651 | Lipid A deacylase PagL | -3.0 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_03733 | Type 4 prepilin-like proteins leader peptide-processing enzyme | -1.8 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_03746 | Chaperone protein ClpB | -1.8 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_03779 | hypothetical protein | -1.7 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_03864 | D-alanyl-D-alanine carboxypeptidase DacC | -2.9 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_03889 | hypothetical protein | -1.2 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_03942 | hypothetical protein | +2.1 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_03973 | Inner membrane transport protein YajR | -1.9 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_04085 | hypothetical protein | -1.5 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_04204 | ATP-dependent RNA helicase RhlE | -1.3 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_04260 | putative zinc protease | +1.1 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_04292 | Putrescine transport system permease protein PotH | -1.1 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_04323 | hypothetical protein | +1.8 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_04361 | Regulator of sigma D | +1.7 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_04400 | Leucine-responsive regulatory protein | +1.2 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_04407 | NADP/NAD-dependent aldehyde dehydrogenase PuuC | -1.1 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_04487 | hypothetical protein | +1.5 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_04634 | Alginate biosynthesis transcriptional regulatory protein AlgB | +1.3 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_04685 | hypothetical protein | -1.6 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_04686 | hypothetical protein | -1.8 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_04688 | Cytochrome c oxidase subunit 3 | -1.4 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_04690 | Cytochrome c oxidase subunit 1 | -1.5 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_04737 | Protein YdgA | +1.7 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_04783 | hypothetical protein | +2.4 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_04785 | hypothetical protein | +1.5 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_04787 | Leukotoxin export ATP-binding protein LtxB | +1.2 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_04788 | Type I secretion system membrane fusion protein PrsE | +1.2 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_04965 | Urocanate hydratase | -1.9 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_05095 | hypothetical protein | -1.0 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_05110 | Motility protein A | +1.4 | |
| Methyl 3-(4-hydroxyphenyl)propionate | PFR28_05122 | GTPase HflX | +1.8 | |
| N-Acetyl-D-Glucosamine | PFR28_00915 | Chain length determinant protein | variable | |
| N-Acetyl-D-Glucosamine | PFR28_03512 | N-acetylgalactosamine-6-phosphate deacetylase | -5.7 | Yes |
| N-Acetyl-D-Glucosamine | PFR28_03514 | hypothetical protein | -5.8 | Yes |
| N-Acetyl-D-Glucosamine | PFR28_03515 | Putative PTS system glucosamine-specific EIICBA component | -5.8 | Yes |
| N-Acetyl-D-Glucosamine | PFR28_04203 | putative amino-acid-binding protein YxeM | variable | |
| N-Acetyl-D-Glucosamine | PFR28_04492 | Putative glucose-6-phosphate 1-epimerase | -1.5 | Yes |
| N-Acetyl-D-Glucosamine | PFR28_04760 | hypothetical protein | variable | |
| Potassium acetate | PFR28_01848 | hypothetical protein | +1.2 | |
| Potassium acetate | PFR28_03189 | Sensor histidine kinase RcsC | -4.6 | Yes |
| Potassium acetate | PFR28_03283 | Succinylornithine transaminase/acetylornithine aminotransferase | -1.2 | |
| Potassium acetate | PFR28_03571 | Protein AaeX | -1.4 | Yes |
| Potassium acetate | PFR28_03572 | p-hydroxybenzoic acid efflux pump subunit AaeB | -1.2 | Yes |
| Potassium acetate | PFR28_04694 | Carbonic anhydrase 1 | -1.8 | Yes |
| Potassium acetate | PFR28_04722 | Succinyl-CoA:coenzyme A transferase | -2.5 | Yes |
| Quinic Acid | PFR28_03810 | 3-dehydroquinate dehydratase 1 | -5.3 | Yes |
| Quinic Acid | PFR28_03811 | Quinate/shikimate dehydrogenase (NAD(+)) | -4.2 | Yes |
| Quinic Acid | PFR28_03813 | hypothetical protein | -2.9 | Yes |
| Quinic Acid | PFR28_03814 | hypothetical protein | -1.8 | |
| Quinic Acid | PFR28_03815 | Hexuronate transporter | -3.4 | Yes |
| Shikimic Acid | PFR28_00619 | 4-hydroxybenzoate transporter PcaK | -5.2 | Yes |
| Shikimic Acid | PFR28_00908 | Histidinol-phosphate aminotransferase | -1.2 | |
| Shikimic Acid | PFR28_01801 | hypothetical protein | -2.0 | |
| Shikimic Acid | PFR28_01802 | Sensor histidine kinase RcsC | -2.0 | |
| Shikimic Acid | PFR28_02461 | Alkaline phosphatase synthesis transcriptional regulatory protein PhoP | +1.9 | |
| Shikimic Acid | PFR28_02475 | 4-hydroxyphenylpyruvate dioxygenase | -2.0 | |
| Shikimic Acid | PFR28_03334 | Adaptive-response sensory-kinase SasA | -5.7 | Yes |
| Shikimic Acid | PFR28_03335 | Transcriptional activator protein CzcR | -6.0 | Yes |
| Shikimic Acid | PFR28_03528 | Cytosol aminopeptidase | -1.5 | |
| Shikimic Acid | PFR28_03810 | 3-dehydroquinate dehydratase 1 | -4.8 | Yes |
| Shikimic Acid | PFR28_03811 | Quinate/shikimate dehydrogenase (NAD(+)) | -3.9 | Yes |
| Shikimic Acid | PFR28_03812 | HTH-type transcriptional repressor NicS | +3.6 | Yes |
| Shikimic Acid | PFR28_03813 | hypothetical protein | -2.7 | Yes |
| Shikimic Acid | PFR28_03815 | Hexuronate transporter | -2.7 | Yes |
| Sodium D,L-Lactate | PFR28_00059 | hypothetical protein | -1.2 | Yes |
| Sodium D,L-Lactate | PFR28_00060 | hypothetical protein | -5.9 | Yes |
| Sodium D,L-Lactate | PFR28_00061 | Lactate utilization protein B | -5.6 | Yes |
| Sodium D,L-Lactate | PFR28_00062 | Lactate utilization protein A | -6.3 | Yes |
| Sodium D,L-Lactate | PFR28_00063 | Glycolate permease GlcA | -6.5 | Yes |
| Sodium D,L-Lactate | PFR28_00891 | DNA-binding transcriptional regulator BolA | -1.4 | |
| Sodium D,L-Lactate | PFR28_01806 | Linearmycin resistance ATP-binding protein LnrL | variable | |
| Sodium Fumarate dibasic | PFR28_00838 | Sensor histidine kinase RcsC | +1.5 | |
| Sodium Fumarate dibasic | PFR28_01057 | D-alanyl-D-alanine carboxypeptidase DacC | +1.3 | |
| Sodium Fumarate dibasic | PFR28_01266 | Oxaloacetate decarboxylase | -1.4 | |
| Sodium Fumarate dibasic | PFR28_02453 | Protease PrtS | -1.1 | |
| Sodium Fumarate dibasic | PFR28_03241 | C4-dicarboxylate transport protein 2 | -6.7 | Yes |
| Sodium Fumarate dibasic | PFR28_03242 | hypothetical protein | -1.0 | |
| Sodium Fumarate dibasic | PFR28_04646 | hypothetical protein | variable | |
| Sodium Fumarate dibasic | PFR28_04889 | C4-dicarboxylate transport transcriptional regulatory protein DctD | -7.0 | Yes |
| Sodium Fumarate dibasic | PFR28_04890 | C4-dicarboxylate transport sensor protein DctB | -3.2 | Yes |
| Sodium L-Lactate | PFR28_00060 | hypothetical protein | -5.5 | Yes |
| Sodium L-Lactate | PFR28_00061 | Lactate utilization protein B | -6.7 | Yes |
| Sodium L-Lactate | PFR28_00062 | Lactate utilization protein A | -5.8 | Yes |
| Sodium L-Lactate | PFR28_00063 | Glycolate permease GlcA | -5.8 | Yes |
| Sodium L-Lactate | PFR28_00891 | DNA-binding transcriptional regulator BolA | -2.0 | Yes |
| Sodium L-Lactate | PFR28_01159 | hypothetical protein | +1.4 | |
| Sodium L-Lactate | PFR28_01160 | hypothetical protein | variable | |
| Sodium L-Lactate | PFR28_01161 | hypothetical protein | +1.3 | |
| Sodium L-Lactate | PFR28_01170 | hypothetical protein | +1.0 | |
| Sodium L-Lactate | PFR28_01171 | hypothetical protein | +1.2 | |
| Sodium L-Lactate | PFR28_01175 | hypothetical protein | +1.7 | |
| Sodium L-Lactate | PFR28_01810 | hypothetical protein | variable | |
| Sodium acetate | PFR28_00915 | Chain length determinant protein | -1.6 | |
| Sodium acetate | PFR28_02093 | Vitamin B12 transport ATP-binding protein BacA | -1.0 | |
| Sodium acetate | PFR28_03189 | Sensor histidine kinase RcsC | -4.9 | Yes |
| Sodium acetate | PFR28_04694 | Carbonic anhydrase 1 | -2.0 | |
| Sodium acetate | PFR28_04722 | Succinyl-CoA:coenzyme A transferase | -1.6 | Yes |
| Sodium acetate | PFR28_04760 | hypothetical protein | +2.9 | Yes |
| Sodium butyrate | PFR28_01085 | hypothetical protein | -1.3 | |
| Sodium butyrate | PFR28_03574 | HTH-type transcriptional regulator DmlR | +1.8 | Yes |
| Sodium butyrate | PFR28_04093 | 3-methylmercaptopropionyl-CoA dehydrogenase | -2.2 | Yes |
| Sodium octanoate | PFR28_00129 | Porin D | +1.5 | |
| Sodium octanoate | PFR28_00131 | Periplasmic dipeptide transport protein | +1.6 | |
| Sodium octanoate | PFR28_00579 | p-hydroxybenzoic acid efflux pump subunit AaeB | -2.9 | Yes |
| Sodium octanoate | PFR28_00580 | hypothetical protein | -3.0 | Yes |
| Sodium octanoate | PFR28_00581 | p-hydroxybenzoic acid efflux pump subunit AaeA | -3.2 | Yes |
| Sodium octanoate | PFR28_00585 | Long-chain-fatty-acid--CoA ligase | -2.9 | Yes |
| Sodium octanoate | PFR28_00908 | Histidinol-phosphate aminotransferase | -1.5 | |
| Sodium octanoate | PFR28_00931 | Undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphate transferase | +1.1 | |
| Sodium octanoate | PFR28_00962 | Phospho-2-dehydro-3-deoxyheptonate aldolase, Tyr-sensitive | -1.5 | Yes |
| Sodium octanoate | PFR28_01111 | 3-ketoacyl-CoA thiolase | -3.9 | |
| Sodium octanoate | PFR28_02820 | Aspartate-semialdehyde dehydrogenase | -1.6 | |
| Sodium octanoate | PFR28_03619 | hypothetical protein | +1.2 | |
| Sodium octanoate | PFR28_03620 | Long-chain-fatty-acid--CoA ligase | -1.4 | Yes |
| Sodium octanoate | PFR28_04093 | 3-methylmercaptopropionyl-CoA dehydrogenase | -4.8 | Yes |
| Sodium octanoate | PFR28_04286 | hypothetical protein | +1.5 | Yes |
| Sodium octanoate | PFR28_04556 | hypothetical protein | +1.1 | |
| Sodium octanoate | PFR28_04760 | hypothetical protein | +2.3 | |
| Sodium octanoate | PFR28_04996 | Poly(3-hydroxyalkanoate) polymerase subunit PhaC | +1.4 | Yes |
| Sodium octanoate | PFR28_05090 | Outer membrane protein TolC | -1.6 | |
| Sodium propionate | PFR28_00172 | Ribosome hibernation promoting factor | +1.4 | Yes |
| Sodium propionate | PFR28_00212 | hypothetical protein | variable | Yes |
| Sodium propionate | PFR28_00368 | Phosphoenolpyruvate carboxylase | -1.6 | Yes |
| Sodium propionate | PFR28_00664 | 3-(3-hydroxydecanoyloxy)decanoate synthase | -1.2 | |
| Sodium propionate | PFR28_00731 | hypothetical protein | -1.2 | |
| Sodium propionate | PFR28_00798 | Trk system potassium uptake protein TrkI | variable | |
| Sodium propionate | PFR28_00915 | Chain length determinant protein | variable | |
| Sodium propionate | PFR28_01070 | hypothetical protein | variable | |
| Sodium propionate | PFR28_01071 | hypothetical protein | variable | |
| Sodium propionate | PFR28_01072 | hypothetical protein | variable | |
| Sodium propionate | PFR28_02083 | Pesticin receptor | -2.3 | |
| Sodium propionate | PFR28_02092 | hypothetical protein | -1.6 | |
| Sodium propionate | PFR28_02361 | hypothetical protein | +1.6 | |
| Sodium propionate | PFR28_03007 | Aminodeoxychorismate lyase | -1.4 | |
| Sodium propionate | PFR28_03189 | Sensor histidine kinase RcsC | -4.1 | Yes |
| Sodium propionate | PFR28_03283 | Succinylornithine transaminase/acetylornithine aminotransferase | -1.8 | |
| Sodium propionate | PFR28_03290 | hypothetical protein | -2.2 | Yes |
| Sodium propionate | PFR28_03291 | hypothetical protein | -3.7 | |
| Sodium propionate | PFR28_03354 | Peptidoglycan-associated lipoprotein | variable | |
| Sodium propionate | PFR28_03392 | Copper resistance protein D | -1.1 | |
| Sodium propionate | PFR28_03457 | hypothetical protein | -1.0 | |
| Sodium propionate | PFR28_03570 | p-hydroxybenzoic acid efflux pump subunit AaeA | variable | Yes |
| Sodium propionate | PFR28_03574 | HTH-type transcriptional regulator DmlR | variable | Yes |
| Sodium propionate | PFR28_04033 | N-acetyl-gamma-glutamyl-phosphate reductase | -1.6 | |
| Sodium propionate | PFR28_04203 | putative amino-acid-binding protein YxeM | variable | |
| Sodium propionate | PFR28_04257 | Cell division protein FtsX | variable | |
| Sodium propionate | PFR28_04402 | Gamma-glutamylputrescine oxidoreductase | -1.2 | |
| Sodium propionate | PFR28_04476 | Chorismate pyruvate-lyase | -1.8 | |
| Sodium propionate | PFR28_04664 | Trk system potassium uptake protein TrkA | variable | |
| Sodium propionate | PFR28_04692 | hypothetical protein | +1.6 | |
| Sodium propionate | PFR28_04760 | hypothetical protein | variable | |
| Sodium propionate | PFR28_04783 | hypothetical protein | -1.8 | |
| Sodium propionate | PFR28_04785 | hypothetical protein | variable | |
| Sodium propionate | PFR28_04787 | Leukotoxin export ATP-binding protein LtxB | -1.6 | |
| Sodium propionate | PFR28_04788 | Type I secretion system membrane fusion protein PrsE | variable | |
| Sodium propionate | PFR28_04888 | hypothetical protein | -3.7 | Yes |
| Sodium propionate | PFR28_04897 | Agmatine deiminase | -1.5 | |
| Sodium propionate | PFR28_04937 | Murein hydrolase activator EnvC | variable | |
| Sodium pyruvate | PFR28_01160 | hypothetical protein | +1.4 | |
| Sodium pyruvate | PFR28_01175 | hypothetical protein | +1.5 | |
| Sodium pyruvate | PFR28_01618 | Oxygen regulatory protein NreC | -2.9 | Yes |
| Sodium pyruvate | PFR28_01619 | hypothetical protein | -2.4 | Yes |
| Sodium pyruvate | PFR28_03788 | P-loop guanosine triphosphatase YjiA | -1.6 | Yes |
| Sodium pyruvate | PFR28_04621 | High-affinity zinc uptake system protein ZnuA | -1.2 | Yes |
| Sodium succinate dibasic hexahydrate | PFR28_03241 | C4-dicarboxylate transport protein 2 | -4.6 | Yes |
| Sodium succinate dibasic hexahydrate | PFR28_04889 | C4-dicarboxylate transport transcriptional regulatory protein DctD | -4.0 | Yes |
| Sodium succinate dibasic hexahydrate | PFR28_04890 | C4-dicarboxylate transport sensor protein DctB | -1.9 | Yes |
| Trisodium citrate dihydrate | PFR28_00393 | LL-diaminopimelate aminotransferase | -1.4 | Yes |
| Trisodium citrate dihydrate | PFR28_00679 | hypothetical protein | -1.7 | Yes |
| Trisodium citrate dihydrate | PFR28_00680 | hypothetical protein | -1.7 | Yes |
| Trisodium citrate dihydrate | PFR28_04648 | Citrate transporter | -1.6 | Yes |
| Uridine | PFR28_01186 | hypothetical protein | +1.6 | |
| Vanillic Acid | PFR28_00129 | Porin D | +1.1 | |
| Vanillic Acid | PFR28_00419 | HTH-type transcriptional regulator DmlR | -1.2 | Yes |
| Vanillic Acid | PFR28_00579 | p-hydroxybenzoic acid efflux pump subunit AaeB | +1.7 | |
| Vanillic Acid | PFR28_00581 | p-hydroxybenzoic acid efflux pump subunit AaeA | +1.2 | |
| Vanillic Acid | PFR28_00812 | Glucose-1-phosphate cytidylyltransferase | -1.3 | |
| Vanillic Acid | PFR28_00897 | hypothetical protein | -1.4 | |
| Vanillic Acid | PFR28_01108 | Universal stress protein A | -2.3 | |
| Vanillic Acid | PFR28_01233 | hypothetical protein | -2.5 | |
| Vanillic Acid | PFR28_01547 | Inner membrane ABC transporter permease protein YejE | +1.6 | |
| Vanillic Acid | PFR28_01548 | Inner membrane ABC transporter permease protein YejB | +1.3 | |
| Vanillic Acid | PFR28_01549 | Oligopeptide-binding protein AppA | +1.2 | |
| Vanillic Acid | PFR28_01576 | hypothetical protein | -1.8 | |
| Vanillic Acid | PFR28_01843 | hypothetical protein | +1.6 | |
| Vanillic Acid | PFR28_01914 | HTH-type transcriptional repressor RspR | -1.9 | |
| Vanillic Acid | PFR28_02070 | HTH-type transcriptional repressor ComR | -1.3 | |
| Vanillic Acid | PFR28_02844 | Methyl-accepting chemotaxis protein McpP | -1.2 | |
| Vanillic Acid | PFR28_02932 | hypothetical protein | -1.4 | |
| Vanillic Acid | PFR28_02968 | hypothetical protein | -1.3 | |
| Vanillic Acid | PFR28_03091 | Branched-chain amino acid transport system 2 carrier protein | -1.4 | |
| Vanillic Acid | PFR28_03175 | FKBP-type 22 kDa peptidyl-prolyl cis-trans isomerase | +1.1 | |
| Vanillic Acid | PFR28_03194 | Long-chain fatty acid transport protein | -1.4 | |
| Vanillic Acid | PFR28_03237 | Inner membrane protein YohC | -2.2 | |
| Vanillic Acid | PFR28_03256 | Chemotaxis protein CheV | -1.1 | |
| Vanillic Acid | PFR28_03618 | hypothetical protein | -1.7 | |
| Vanillic Acid | PFR28_03619 | hypothetical protein | -1.7 | |
| Vanillic Acid | PFR28_03651 | Lipid A deacylase PagL | -1.8 | |
| Vanillic Acid | PFR28_03730 | Fimbrial protein | -1.6 | |
| Vanillic Acid | PFR28_03779 | hypothetical protein | -1.7 | |
| Vanillic Acid | PFR28_03780 | hypothetical protein | -1.5 | |
| Vanillic Acid | PFR28_03840 | AMP nucleosidase | -1.1 | |
| Vanillic Acid | PFR28_03885 | Aldehyde dehydrogenase | -1.1 | |
| Vanillic Acid | PFR28_03889 | hypothetical protein | -1.5 | |
| Vanillic Acid | PFR28_03891 | Protein DedA | +1.5 | |
| Vanillic Acid | PFR28_04130 | Formyltetrahydrofolate deformylase | +1.6 | |
| Vanillic Acid | PFR28_04316 | Aminomethyltransferase | -1.2 | |
| Vanillic Acid | PFR28_04411 | Periplasmic dipeptide transport protein | -1.2 | |
| Vanillic Acid | PFR28_04487 | hypothetical protein | -2.2 | |
| Vanillic Acid | PFR28_04546 | hypothetical protein | +1.1 | |
| Vanillic Acid | PFR28_04646 | hypothetical protein | -1.8 | |
| Vanillic Acid | PFR28_04686 | hypothetical protein | -1.6 | |
| Vanillic Acid | PFR28_04688 | Cytochrome c oxidase subunit 3 | -2.0 | |
| Vanillic Acid | PFR28_04690 | Cytochrome c oxidase subunit 1 | -1.9 | |
| Vanillic Acid | PFR28_04728 | Acyl-CoA dehydrogenase | -1.4 | |
| Vanillic Acid | PFR28_04729 | Acetyl-CoA:oxalate CoA-transferase | -1.2 | |
| Vanillic Acid | PFR28_04737 | Protein YdgA | +1.5 | |
| Vanillic Acid | PFR28_04753 | hypothetical protein | -1.4 | |
| Vanillic Acid | PFR28_04882 | Sulfur carrier protein FdhD | -1.5 | |
| Vanillic Acid | PFR28_04905 | hypothetical protein | -1.5 | |
| Vanillic Acid | PFR28_04965 | Urocanate hydratase | -1.9 | |
| Xanthosine | PFR28_00915 | Chain length determinant protein | variable | |
| Xanthosine | PFR28_01062 | hypothetical protein | -2.7 | Yes |
| Xanthosine | PFR28_01063 | putative xanthine dehydrogenase subunit D | -2.9 | Yes |
| Xanthosine | PFR28_01064 | hypothetical protein | -2.9 | Yes |
| Xanthosine | PFR28_01209 | Uric acid transporter UacT | -2.8 | Yes |
| Xanthosine | PFR28_01273 | hypothetical protein | variable | |
| Xanthosine | PFR28_01741 | Phosphoglucomutase | variable | |
| Xanthosine | PFR28_02498 | Vitamin B12 import ATP-binding protein BtuD | -1.4 | Yes |
| Xanthosine | PFR28_02731 | Pyrimidine-specific ribonucleoside hydrolase RihB | -2.3 | |
| Xanthosine | PFR28_03110 | Glyoxylate carboligase | -3.7 | Yes |
| Xanthosine | PFR28_03111 | Hydroxypyruvate isomerase | -3.9 | Yes |
| Xanthosine | PFR28_03148 | hypothetical protein | -1.2 | |
| Xanthosine | PFR28_04619 | Zinc import ATP-binding protein ZnuC | variable | |
| Xanthosine | PFR28_04621 | High-affinity zinc uptake system protein ZnuA | variable | |
| Xanthosine | PFR28_04664 | Trk system potassium uptake protein TrkA | variable | |
| Xanthosine | PFR28_04760 | hypothetical protein | +1.7 | |
| a-Ketoglutaric acid disodium salt hydrate | PFR28_03461 | C4-dicarboxylate transport sensor protein DctB | -5.0 | Yes |
| a-Ketoglutaric acid disodium salt hydrate | PFR28_03462 | C4-dicarboxylate transport transcriptional regulatory protein DctD | -5.1 | Yes |
| a-Ketoglutaric acid disodium salt hydrate | PFR28_03468 | Alpha-ketoglutarate permease | -5.0 | Yes |
| caffeic acid | PFR28_00944 | putative NTE family protein | variable | |
| caffeic acid | PFR28_01108 | Universal stress protein A | -1.7 | |
| caffeic acid | PFR28_01233 | hypothetical protein | variable | |
| caffeic acid | PFR28_01834 | 3-(3-hydroxy-phenyl)propionate transporter | -3.8 | Yes |
| caffeic acid | PFR28_01914 | HTH-type transcriptional repressor RspR | variable | |
| caffeic acid | PFR28_02041 | hypothetical protein | -1.1 | |
| caffeic acid | PFR28_02150 | Glycogen operon protein GlgX | -1.2 | |
| caffeic acid | PFR28_02974 | Peptidoglycan-associated lipoprotein | -1.9 | |
| caffeic acid | PFR28_03054 | HTH-type transcriptional activator RhaS | variable | |
| caffeic acid | PFR28_03237 | Inner membrane protein YohC | -2.2 | |
| caffeic acid | PFR28_03261 | putative MFS-type transporter YcaD | +1.6 | |
| caffeic acid | PFR28_03419 | DNA protection during starvation protein 2 | variable | |
| caffeic acid | PFR28_03779 | hypothetical protein | -1.9 | |
| caffeic acid | PFR28_03780 | hypothetical protein | -1.9 | |
| caffeic acid | PFR28_03851 | Magnesium and cobalt efflux protein CorC | -1.5 | |
| caffeic acid | PFR28_04171 | putative transport protein HsrA | -1.5 | |
| caffeic acid | PFR28_04540 | Ubiquinone biosynthesis O-methyltransferase, mitochondrial | -1.3 | |
| caffeic acid | PFR28_04634 | Alginate biosynthesis transcriptional regulatory protein AlgB | variable | |
| caffeic acid | PFR28_04649 | hypothetical protein | variable | |
| caffeic acid | PFR28_04688 | Cytochrome c oxidase subunit 3 | variable | |
| caffeic acid | PFR28_04690 | Cytochrome c oxidase subunit 1 | variable | |
| caffeic acid | PFR28_04736 | hypothetical protein | -1.0 | |
| caffeic acid | PFR28_04753 | hypothetical protein | -1.5 | |
| caffeic acid | PFR28_04905 | hypothetical protein | variable | |
| caffeic acid | PFR28_04965 | Urocanate hydratase | -1.5 | |
| m-Inositol | PFR28_02415 | Ribose import permease protein RbsC | -5.5 | Yes |
| m-Inositol | PFR28_02416 | Galactose/methyl galactoside import ATP-binding protein MglA | -5.7 | Yes |
| m-Inositol | PFR28_02417 | Xylitol-binding protein | -6.2 | Yes |
| m-Inositol | PFR28_02420 | Inositol 2-dehydrogenase/D-chiro-inositol 3-dehydrogenase | -6.2 | Yes |
| m-Inositol | PFR28_02421 | 3D-(3,5/4)-trihydroxycyclohexane-1,2-dione hydrolase | -6.1 | Yes |
| m-Inositol | PFR28_02422 | Inosose isomerase | -3.6 | Yes |
| m-Inositol | PFR28_02423 | 5-deoxy-glucuronate isomerase | -5.8 | Yes |
| m-Inositol | PFR28_02424 | Inosose dehydratase | -5.5 | Yes |
| m-Inositol | PFR28_02425 | 5-dehydro-2-deoxygluconokinase | -6.6 | Yes |
| m-Inositol | PFR28_05261 | hypothetical protein | -4.8 | |
| m-Inositol | PFR28_05263 | Putative 3-oxopropanoate dehydrogenase | -5.3 | Yes |
| methyl ferulate | PFR28_00138 | Vitamin B12 transport ATP-binding protein BacA | +1.5 | |
| methyl ferulate | PFR28_00419 | HTH-type transcriptional regulator DmlR | -1.4 | |
| methyl ferulate | PFR28_00420 | S-(hydroxymethyl)glutathione dehydrogenase | -1.7 | |
| methyl ferulate | PFR28_00421 | S-formylglutathione hydrolase YeiG | -1.2 | |
| methyl ferulate | PFR28_00562 | Glucokinase | -1.4 | |
| methyl ferulate | PFR28_00630 | putative efflux pump outer membrane protein TtgC | -1.7 | |
| methyl ferulate | PFR28_00631 | putative efflux pump membrane transporter TtgB | -1.4 | |
| methyl ferulate | PFR28_00947 | Acyl-CoA thioesterase 2 | -1.6 | |
| methyl ferulate | PFR28_01102 | Multidrug resistance protein NorM | +1.9 | |
| methyl ferulate | PFR28_01108 | Universal stress protein A | -1.6 | |
| methyl ferulate | PFR28_01136 | NADPH-dependent 7-cyano-7-deazaguanine reductase | -1.6 | |
| methyl ferulate | PFR28_01267 | Arginine N-succinyltransferase subunit beta | +1.8 | |
| methyl ferulate | PFR28_01268 | Arginine N-succinyltransferase subunit alpha | +1.6 | |
| methyl ferulate | PFR28_01271 | Glutamine synthetase | +1.4 | |
| methyl ferulate | PFR28_01272 | Peroxyureidoacrylate/ureidoacrylate amidohydrolase RutB | +1.5 | |
| methyl ferulate | PFR28_01576 | hypothetical protein | -1.0 | |
| methyl ferulate | PFR28_01721 | Protein-glutamate methylesterase/protein-glutamine glutaminase 2 | -1.5 | |
| methyl ferulate | PFR28_01841 | Oxidoreductase NdmD | -2.7 | |
| methyl ferulate | PFR28_01842 | Toluene-4-sulfonate monooxygenase system iron-sulfur subunit TsaM1 | -3.2 | |
| methyl ferulate | PFR28_02147 | 4-alpha-glucanotransferase | -1.3 | |
| methyl ferulate | PFR28_02150 | Glycogen operon protein GlgX | -1.3 | |
| methyl ferulate | PFR28_02290 | Spermidine-binding periplasmic protein SpuE | -1.5 | |
| methyl ferulate | PFR28_02292 | 6-aminohexanoate-dimer hydrolase | -2.4 | |
| methyl ferulate | PFR28_02361 | hypothetical protein | -1.6 | |
| methyl ferulate | PFR28_02745 | Peptidyl-prolyl cis-trans isomerase cyp18 | -2.4 | |
| methyl ferulate | PFR28_03073 | Putative esterase | +1.4 | |
| methyl ferulate | PFR28_03124 | Acireductone dioxygenase | -1.2 | |
| methyl ferulate | PFR28_03298 | Nucleoid occlusion factor SlmA | -2.1 | |
| methyl ferulate | PFR28_03389 | Copper resistance protein A | -1.2 | |
| methyl ferulate | PFR28_03390 | Copper resistance protein B | -1.1 | |
| methyl ferulate | PFR28_03603 | Stringent starvation protein A | -1.4 | |
| methyl ferulate | PFR28_03611 | HTH-type transcriptional regulator CdhR | -2.0 | |
| methyl ferulate | PFR28_03618 | hypothetical protein | -1.2 | |
| methyl ferulate | PFR28_03619 | hypothetical protein | -1.2 | |
| methyl ferulate | PFR28_03864 | D-alanyl-D-alanine carboxypeptidase DacC | -1.7 | |
| methyl ferulate | PFR28_04292 | Putrescine transport system permease protein PotH | -1.4 | |
| methyl ferulate | PFR28_04524 | hypothetical protein | -1.2 | |
| methyl ferulate | PFR28_04869 | Osmolarity sensor protein EnvZ | -1.2 | |
| methyl-trans-p-coumarate | PFR28_00129 | Porin D | +1.2 | |
| methyl-trans-p-coumarate | PFR28_00131 | Periplasmic dipeptide transport protein | +1.6 | |
| methyl-trans-p-coumarate | PFR28_00138 | Vitamin B12 transport ATP-binding protein BacA | +2.6 | |
| methyl-trans-p-coumarate | PFR28_00208 | Dihydromonapterin reductase | -1.4 | |
| methyl-trans-p-coumarate | PFR28_00497 | hypothetical protein | -1.0 | |
| methyl-trans-p-coumarate | PFR28_00545 | p-hydroxybenzoate hydroxylase | -1.9 | |
| methyl-trans-p-coumarate | PFR28_00546 | HTH-type transcriptional activator RhaS | -2.5 | |
| methyl-trans-p-coumarate | PFR28_00562 | Glucokinase | -1.8 | |
| methyl-trans-p-coumarate | PFR28_00630 | putative efflux pump outer membrane protein TtgC | -1.7 | |
| methyl-trans-p-coumarate | PFR28_00631 | putative efflux pump membrane transporter TtgB | -1.8 | |
| methyl-trans-p-coumarate | PFR28_00632 | putative efflux pump periplasmic linker TtgA | -2.0 | |
| methyl-trans-p-coumarate | PFR28_00692 | Sigma factor AlgU regulatory protein MucB | +2.6 | |
| methyl-trans-p-coumarate | PFR28_00726 | hypothetical protein | +1.3 | |
| methyl-trans-p-coumarate | PFR28_00735 | hypothetical protein | -1.1 | |
| methyl-trans-p-coumarate | PFR28_00740 | Beta-ketodecanoyl-[acyl-carrier-protein] synthase | -2.0 | |
| methyl-trans-p-coumarate | PFR28_00749 | hypothetical protein | -1.8 | |
| methyl-trans-p-coumarate | PFR28_00841 | hypothetical protein | +1.6 | |
| methyl-trans-p-coumarate | PFR28_01133 | Sensor histidine kinase CusS | +1.5 | |
| methyl-trans-p-coumarate | PFR28_01267 | Arginine N-succinyltransferase subunit beta | +2.6 | |
| methyl-trans-p-coumarate | PFR28_01268 | Arginine N-succinyltransferase subunit alpha | +2.5 | |
| methyl-trans-p-coumarate | PFR28_01269 | Putrescine importer PuuP | +1.7 | |
| methyl-trans-p-coumarate | PFR28_01271 | Glutamine synthetase | +2.0 | |
| methyl-trans-p-coumarate | PFR28_01272 | Peroxyureidoacrylate/ureidoacrylate amidohydrolase RutB | +2.2 | |
| methyl-trans-p-coumarate | PFR28_01332 | Zinc transporter ZupT | +1.5 | |
| methyl-trans-p-coumarate | PFR28_01590 | hypothetical protein | -1.2 | |
| methyl-trans-p-coumarate | PFR28_01700 | hypothetical protein | -1.0 | |
| methyl-trans-p-coumarate | PFR28_01720 | Chemotaxis protein methyltransferase | +1.3 | |
| methyl-trans-p-coumarate | PFR28_01722 | Sensor histidine kinase RcsC | -1.8 | |
| methyl-trans-p-coumarate | PFR28_01801 | hypothetical protein | -2.5 | |
| methyl-trans-p-coumarate | PFR28_01802 | Sensor histidine kinase RcsC | -2.2 | |
| methyl-trans-p-coumarate | PFR28_01819 | Aldehyde dehydrogenase | -1.7 | |
| methyl-trans-p-coumarate | PFR28_01983 | Coniferyl aldehyde dehydrogenase | -2.2 | |
| methyl-trans-p-coumarate | PFR28_01984 | Acetyl esterase | -2.0 | |
| methyl-trans-p-coumarate | PFR28_02147 | 4-alpha-glucanotransferase | -2.0 | |
| methyl-trans-p-coumarate | PFR28_02150 | Glycogen operon protein GlgX | -1.5 | |
| methyl-trans-p-coumarate | PFR28_02291 | hypothetical protein | +1.2 | |
| methyl-trans-p-coumarate | PFR28_02361 | hypothetical protein | -2.0 | |
| methyl-trans-p-coumarate | PFR28_02410 | hypothetical protein | -1.3 | |
| methyl-trans-p-coumarate | PFR28_02469 | Glycerate 2-kinase | +1.5 | |
| methyl-trans-p-coumarate | PFR28_02818 | hypothetical protein | +1.2 | |
| methyl-trans-p-coumarate | PFR28_03006 | Endolytic murein transglycosylase | +2.0 | |
| methyl-trans-p-coumarate | PFR28_03016 | hypothetical protein | -1.4 | |
| methyl-trans-p-coumarate | PFR28_03073 | Putative esterase | +2.2 | |
| methyl-trans-p-coumarate | PFR28_03078 | hypothetical protein | -1.2 | |
| methyl-trans-p-coumarate | PFR28_03286 | Octopine transport system permease protein OccM | +1.1 | |
| methyl-trans-p-coumarate | PFR28_03298 | Nucleoid occlusion factor SlmA | +4.4 | |
| methyl-trans-p-coumarate | PFR28_03354 | Peptidoglycan-associated lipoprotein | +1.4 | |
| methyl-trans-p-coumarate | PFR28_03405 | Cell division coordinator CpoB | -1.4 | |
| methyl-trans-p-coumarate | PFR28_03597 | Ribosomal RNA small subunit methyltransferase I | -1.6 | |
| methyl-trans-p-coumarate | PFR28_03603 | Stringent starvation protein A | -2.0 | |
| methyl-trans-p-coumarate | PFR28_03623 | Ribosomal RNA small subunit methyltransferase C | +1.2 | |
| methyl-trans-p-coumarate | PFR28_03644 | Epimerase family protein | +1.3 | |
| methyl-trans-p-coumarate | PFR28_03779 | hypothetical protein | -1.4 | |
| methyl-trans-p-coumarate | PFR28_03840 | AMP nucleosidase | -1.4 | |
| methyl-trans-p-coumarate | PFR28_03864 | D-alanyl-D-alanine carboxypeptidase DacC | -1.6 | |
| methyl-trans-p-coumarate | PFR28_03961 | dTDP-4-dehydrorhamnose reductase | +2.3 | |
| methyl-trans-p-coumarate | PFR28_03973 | Inner membrane transport protein YajR | +1.7 | |
| methyl-trans-p-coumarate | PFR28_04112 | hypothetical protein | +1.1 | |
| methyl-trans-p-coumarate | PFR28_04204 | ATP-dependent RNA helicase RhlE | -1.2 | |
| methyl-trans-p-coumarate | PFR28_04209 | Ribosomal RNA small subunit methyltransferase E | +1.4 | |
| methyl-trans-p-coumarate | PFR28_04244 | hypothetical protein | -2.6 | |
| methyl-trans-p-coumarate | PFR28_04291 | Inner membrane ABC transporter permease protein YdcV | -1.8 | |
| methyl-trans-p-coumarate | PFR28_04292 | Putrescine transport system permease protein PotH | -1.5 | |
| methyl-trans-p-coumarate | PFR28_04293 | Spermidine/putrescine import ATP-binding protein PotA | -1.9 | |
| methyl-trans-p-coumarate | PFR28_04295 | Putrescine-binding periplasmic protein SpuD | -1.5 | |
| methyl-trans-p-coumarate | PFR28_04316 | Aminomethyltransferase | -1.9 | |
| methyl-trans-p-coumarate | PFR28_04448 | Protein phosphatase PrpC | -1.1 | |
| methyl-trans-p-coumarate | PFR28_04546 | hypothetical protein | +1.3 | |
| methyl-trans-p-coumarate | PFR28_04631 | N-acetylmuramoyl-L-alanine amidase AmiD | -1.4 | |
| methyl-trans-p-coumarate | PFR28_04634 | Alginate biosynthesis transcriptional regulatory protein AlgB | -1.5 | |
| methyl-trans-p-coumarate | PFR28_04785 | hypothetical protein | +1.8 | |
| methyl-trans-p-coumarate | PFR28_04787 | Leukotoxin export ATP-binding protein LtxB | +1.8 | |
| methyl-trans-p-coumarate | PFR28_04788 | Type I secretion system membrane fusion protein PrsE | +1.8 | |
| methyl-trans-p-coumarate | PFR28_04920 | Putative nuclease YhcG | +1.1 | |
| methyl-trans-p-coumarate | PFR28_04926 | hypothetical protein | -1.6 | |
| methyl-trans-p-coumarate | PFR28_04976 | Proline iminopeptidase | +1.0 | |
| methyl-trans-p-coumarate | PFR28_05014 | Cell division protein DamX | +1.1 | |
| p-Coumaric acid | PFR28_00250 | hypothetical protein | variable | |
| p-Coumaric acid | PFR28_00545 | p-hydroxybenzoate hydroxylase | -4.0 | Yes |
| p-Coumaric acid | PFR28_00546 | HTH-type transcriptional activator RhaS | -4.2 | Yes |
| p-Coumaric acid | PFR28_00579 | p-hydroxybenzoic acid efflux pump subunit AaeB | -2.2 | Yes |
| p-Coumaric acid | PFR28_00580 | hypothetical protein | -2.1 | |
| p-Coumaric acid | PFR28_00581 | p-hydroxybenzoic acid efflux pump subunit AaeA | -2.3 | |
| p-Coumaric acid | PFR28_00812 | Glucose-1-phosphate cytidylyltransferase | variable | |
| p-Coumaric acid | PFR28_00897 | hypothetical protein | variable | |
| p-Coumaric acid | PFR28_00898 | hypothetical protein | variable | |
| p-Coumaric acid | PFR28_01233 | hypothetical protein | -1.9 | |
| p-Coumaric acid | PFR28_01835 | Porin-like protein NicP | variable | |
| p-Coumaric acid | PFR28_01914 | HTH-type transcriptional repressor RspR | -1.5 | |
| p-Coumaric acid | PFR28_02968 | hypothetical protein | -1.2 | |
| p-Coumaric acid | PFR28_03054 | HTH-type transcriptional activator RhaS | variable | |
| p-Coumaric acid | PFR28_03237 | Inner membrane protein YohC | -2.3 | |
| p-Coumaric acid | PFR28_03290 | hypothetical protein | variable | Yes |
| p-Coumaric acid | PFR28_03574 | HTH-type transcriptional regulator DmlR | variable | Yes |
| p-Coumaric acid | PFR28_03686 | Intermembrane transport protein YebT | variable | |
| p-Coumaric acid | PFR28_04596 | hypothetical protein | variable | |
| p-Coumaric acid | PFR28_04597 | Sensor histidine kinase WalK | variable | |
| p-Coumaric acid | PFR28_04688 | Cytochrome c oxidase subunit 3 | variable | |
| p-Coumaric acid | PFR28_04736 | hypothetical protein | variable | |
| p-Coumaric acid | PFR28_04738 | Poly-beta-1,6-N-acetyl-D-glucosamine export protein | variable | |
| p-Coumaric acid | PFR28_04739 | Poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase | +1.5 | |
| p-Coumaric acid | PFR28_04741 | hypothetical protein | variable | |
| p-Coumaric acid | PFR28_04753 | hypothetical protein | variable | |
| p-Coumaric acid | PFR28_04905 | hypothetical protein | variable | |
| p-Coumaric acid | PFR28_04965 | Urocanate hydratase | variable | |
| sn-glycero-3-phosphocholine | PFR28_00010 | Diguanylate cyclase DgcN | variable | |
| sn-glycero-3-phosphocholine | PFR28_01159 | hypothetical protein | +1.3 | |
| sn-glycero-3-phosphocholine | PFR28_01679 | Regulatory protein AtoC | variable | |
| sn-glycero-3-phosphocholine | PFR28_02254 | Multidrug resistance protein MdtA | -1.1 | |
| sn-glycero-3-phosphocholine | PFR28_02255 | Toluene efflux pump outer membrane protein TtgC | -1.1 | |
| sn-glycero-3-phosphocholine | PFR28_02473 | Protein RarD | variable | |
| sn-glycero-3-phosphocholine | PFR28_02878 | Dimodular nonribosomal peptide synthase | +1.0 | |
| sn-glycero-3-phosphocholine | PFR28_03303 | Glycerophosphodiester phosphodiesterase | -1.7 | Yes |
| sn-glycero-3-phosphocholine | PFR28_04166 | HTH-type transcriptional regulator BetI | -2.3 | |
| sn-glycero-3-phosphocholine | PFR28_04167 | NAD/NADP-dependent betaine aldehyde dehydrogenase | -3.4 | Yes |
| sn-glycero-3-phosphocholine | PFR28_04168 | Oxygen-dependent choline dehydrogenase | -4.1 | Yes |
| sn-glycero-3-phosphocholine | PFR28_04333 | Glycerol-3-phosphate transporter | -2.3 | Yes |
| sn-glycero-3-phosphocholine | PFR28_04480 | Phosphate regulon sensor protein PhoR | -1.1 | |
| sn-glycero-3-phosphocholine | PFR28_04487 | hypothetical protein | -2.2 | |
| trans-aconitic acid | PFR28_00212 | hypothetical protein | -1.4 | |
| trans-aconitic acid | PFR28_01942 | HTH-type transcriptional regulator CynR | -3.4 | Yes |
| trans-aconitic acid | PFR28_01943 | Putative isomerase YbhH | -5.4 | Yes |
| trans-aconitic acid | PFR28_01944 | Citrate transporter | -4.3 | |