Specific Phenotypes for Rhodopseudomonas palustris CGA009 in carbon source experiments

Condition Gene Description Fitness Cons.
4-Aminobutyric acid TX73_006050 aspartate aminotransferase family protein -2.3 Yes
4-Aminobutyric acid TX73_012010 LysR substrate-binding domain-containing protein -3.5  
4-Aminobutyric acid TX73_012015 4-aminobutyrate--2-oxoglutarate transaminase -3.5 Yes
4-Aminobutyric acid TX73_012020 NAD-dependent succinate-semialdehyde dehydrogenase -1.4  
4-Aminobutyric acid TX73_012025 ArgE/DapE family deacylase -1.1  
4-Aminobutyric acid TX73_012030 acetolactate synthase large subunit -1.1  
4-Aminobutyric acid TX73_012035 ABC transporter substrate-binding protein -1.5  
4-Aminobutyric acid TX73_012040 ABC transporter permease -1.1  
4-Aminobutyric acid TX73_012045 ABC transporter permease -1.2  
4-Aminobutyric acid TX73_012050 ABC transporter ATP-binding protein -1.3  
4-Aminobutyric acid TX73_018890 glycogen debranching protein GlgX -1.6  
4-Aminobutyric acid TX73_023060 fatty-acid--CoA ligase -1.2  
4-Hydroxybenzoic Acid TX73_003425 benzoate-CoA ligase family protein -3.5  
4-Hydroxybenzoic Acid TX73_010175 Mrp/NBP35 family ATP-binding protein -1.3  
4-Hydroxybenzoic Acid TX73_011335 RlmE family RNA methyltransferase -1.4  
4-Hydroxybenzoic Acid TX73_014710 5'/3'-nucleotidase SurE -1.6  
4-Hydroxybenzoic Acid TX73_021395 helix-turn-helix transcriptional regulator -1.3  
4-Hydroxybenzoic Acid TX73_024880 helix-turn-helix transcriptional regulator +1.6  
4-Hydroxybenzoic Acid TX73_025025 molecular chaperone HtpG -1.6  
Citraconic acid TX73_000825 GNAT family N-acetyltransferase -1.1  
Citraconic acid TX73_001910 hypothetical protein +2.0  
Citraconic acid TX73_002380 serine hydrolase -1.2  
Citraconic acid TX73_007410 GntR family transcriptional regulator -1.2  
Citraconic acid TX73_008250 Grx4 family monothiol glutaredoxin -2.4  
Citraconic acid TX73_009410 methylmalonyl Co-A mutase-associated GTPase MeaB -1.3  
Citraconic acid TX73_015205 methylmalonyl-CoA epimerase -2.5  
Citraconic acid TX73_016525 indolepyruvate ferredoxin oxidoreductase family protein -5.4  
Citraconic acid TX73_019260 IclR family transcriptional regulator -1.5  
Citraconic acid TX73_021570 helix-turn-helix domain-containing protein -2.1  
Citraconic acid TX73_021725 DUF1244 domain-containing protein +1.5  
Citraconic acid TX73_022645 MarR family transcriptional regulator +1.9  
Citraconic acid TX73_024130 IclR family transcriptional regulator -1.6  
L-Leucine TX73_003045 TetR/AcrR family transcriptional regulator +1.4  
L-Leucine TX73_004185 TIGR02186 family protein -1.9  
L-Leucine TX73_004190 sulfite exporter TauE/SafE family protein -2.0  
L-Leucine TX73_004635 LysE family translocator -1.2  
L-Leucine TX73_008250 Grx4 family monothiol glutaredoxin -2.0  
L-Leucine TX73_008290 isovaleryl-CoA dehydrogenase -4.8 Yes
L-Leucine TX73_013115 carboxyl transferase domain-containing protein -4.2 Yes
L-Leucine TX73_013120 acetyl-CoA carboxylase biotin carboxylase subunit -3.7 Yes
L-Leucine TX73_016525 indolepyruvate ferredoxin oxidoreductase family protein -4.9 Yes
L-Leucine TX73_019260 IclR family transcriptional regulator -1.6  
L-Leucine TX73_019710 branched-chain amino acid ABC transporter permease -2.1 Yes
L-Leucine TX73_019715 high-affinity branched-chain amino acid ABC transporter permease LivM -1.9  
L-Leucine TX73_019720 ABC transporter ATP-binding protein -2.3 Yes
L-Leucine TX73_019725 ABC transporter ATP-binding protein -2.1 Yes
L-Leucine TX73_019730 branched-chain amino acid ABC transporter substrate-binding protein -1.9 Yes
L-Leucine TX73_021540 3-oxoacid CoA-transferase subunit B -1.2 Yes
Potassium acetate TX73_023925 nitrogenase stabilizing/protective protein NifW -1.2  
Potassium acetate TX73_023945 iron-sulfur cluster assembly accessory protein -1.6  
Potassium acetate TX73_023950 nitrogen fixation protein NifQ -1.9  
Sebacic acid TX73_019245 acetyl-CoA C-acyltransferase -1.2  
Sebacic acid TX73_019255 3-hydroxyacyl-CoA dehydrogenase NAD-binding domain-containing protein -1.4  
Sodium 4-Hydroxybenzoate TX73_000410 PAS-domain containing protein +1.5  
Sodium 4-Hydroxybenzoate TX73_000895 glycosyltransferase family 1 protein -1.5  
Sodium 4-Hydroxybenzoate TX73_001575 Tim44/TimA family putative adaptor protein -1.5  
Sodium 4-Hydroxybenzoate TX73_001830 glycosyltransferase family 39 protein -1.4  
Sodium 4-Hydroxybenzoate TX73_002530 M48 family metalloprotease -1.3  
Sodium 4-Hydroxybenzoate TX73_002565 PAS domain S-box protein +1.5  
Sodium 4-Hydroxybenzoate TX73_003395 MarR family transcriptional regulator +1.6  
Sodium 4-Hydroxybenzoate TX73_003425 benzoate-CoA ligase family protein -4.0  
Sodium 4-Hydroxybenzoate TX73_003465 bifunctional 4-hydroxybenzoate--CoA/benzoate--CoA ligase variable  
Sodium 4-Hydroxybenzoate TX73_005185 helix-turn-helix domain-containing protein +1.9 Yes
Sodium 4-Hydroxybenzoate TX73_005190 cytochrome P450 +1.6  
Sodium 4-Hydroxybenzoate TX73_005490 folate-binding protein YgfZ variable  
Sodium 4-Hydroxybenzoate TX73_008770 TetR family transcriptional regulator -1.9  
Sodium 4-Hydroxybenzoate TX73_009225 MarR family transcriptional regulator +2.0  
Sodium 4-Hydroxybenzoate TX73_009995 cation-efflux pump -3.1  
Sodium 4-Hydroxybenzoate TX73_010175 Mrp/NBP35 family ATP-binding protein -1.9  
Sodium 4-Hydroxybenzoate TX73_012725 anhydro-N-acetylmuramic acid kinase -1.8  
Sodium 4-Hydroxybenzoate TX73_012770 iron-sulfur cluster assembly accessory protein +4.2  
Sodium 4-Hydroxybenzoate TX73_014770 beta-N-acetylhexosaminidase -2.3  
Sodium 4-Hydroxybenzoate TX73_014790 iron-sulfur cluster insertion protein ErpA variable  
Sodium 4-Hydroxybenzoate TX73_016170 NUDIX hydrolase +1.2  
Sodium 4-Hydroxybenzoate TX73_019585 glycosyltransferase family 39 protein -1.1  
Sodium 4-Hydroxybenzoate TX73_019590 glycosyltransferase family 2 protein -1.3  
Sodium 4-Hydroxybenzoate TX73_020230 flagellar basal body L-ring protein FlgH +1.3  
Sodium 4-Hydroxybenzoate TX73_020440 hypothetical protein -1.9  
Sodium 4-Hydroxybenzoate TX73_020630 lysylphosphatidylglycerol synthase transmembrane domain-containing protein -2.0  
Sodium 4-Hydroxybenzoate TX73_022105 long-chain fatty acid--CoA ligase -2.0  
Sodium 4-Hydroxybenzoate TX73_022895 ATP-binding protein -1.6  
Sodium 4-Hydroxybenzoate TX73_024400 4-oxalomesaconate tautomerase -1.5  
Sodium 4-Hydroxybenzoate TX73_024420 amidohydrolase family protein -1.8  
Sodium 4-Hydroxybenzoate TX73_025025 molecular chaperone HtpG -1.6  
Sodium Formate TX73_002020 potassium/proton antiporter +1.8  
Sodium Formate TX73_002230 catalase/peroxidase HPI +1.2  
Sodium Formate TX73_002530 M48 family metalloprotease -1.4  
Sodium Formate TX73_003780 LysR family transcriptional regulator -2.8 Yes
Sodium Formate TX73_003785 formate dehydrogenase subunit gamma -3.1  
Sodium Formate TX73_003790 NADH-quinone oxidoreductase subunit NuoF -3.0  
Sodium Formate TX73_003795 formate dehydrogenase subunit alpha -3.0 Yes
Sodium Formate TX73_003800 formate dehydrogenase accessory sulfurtransferase FdhD -3.0 Yes
Sodium Formate TX73_003805 formate dehydrogenase subunit delta -2.5  
Sodium Formate TX73_005845 NAD(P)-binding protein +1.7  
Sodium Formate TX73_012115 GntR family transcriptional regulator +1.7  
Sodium Formate TX73_012670 Rne/Rng family ribonuclease +2.6  
Sodium Formate TX73_013040 cold-shock protein +2.5  
Sodium Formate TX73_015780 CDP-alcohol phosphatidyltransferase family protein +1.9  
Sodium Formate TX73_016235 HIT family protein -4.4  
Sodium Formate TX73_017030 ABC transporter ATP-binding protein +1.1  
Sodium Formate TX73_017045 substrate-binding protein +1.3  
Sodium Formate TX73_017715 gamma carbonic anhydrase family protein +2.0  
Sodium Formate TX73_018935 molybdenum cofactor guanylyltransferase MobA -3.2  
Sodium Formate TX73_024885 sn-glycerol-3-phosphate ABC transporter substrate-binding protein UgpB -1.5  
Sodium Formate TX73_024890 HAMP domain-containing sensor histidine kinase -1.1  
Sodium Fumarate dibasic TX73_002280 ribosome maturation factor RimP +1.5  
Sodium Fumarate dibasic TX73_009465 DUF4332 domain-containing protein -1.1  
Sodium acetate trihydrate TX73_002820 CidA/LrgA family protein -3.8  
Sodium acetate trihydrate TX73_002825 LrgB family protein -3.6  
Sodium acetate trihydrate TX73_006995 ABC transporter substrate-binding protein -1.2  
Sodium acetate trihydrate TX73_013030 VOC family protein +2.0  
Sodium acetate trihydrate TX73_018240 DNA repair protein RecN -1.3  
Sodium acetate trihydrate TX73_022385 alpha-hydroxy acid oxidase +10.1  
Sodium acetate trihydrate TX73_022510 excinuclease ABC subunit UvrB +1.5  
Sodium bicarbonate TX73_004450 MgtC/SapB family protein -1.3  
Sodium bicarbonate TX73_005255 DsbA family protein variable  
Sodium bicarbonate TX73_010095 TetR/AcrR family transcriptional regulator -1.9  
Sodium bicarbonate TX73_010280 DUF2865 domain-containing protein variable  
Sodium bicarbonate TX73_010325 c-type cytochrome -1.7  
Sodium bicarbonate TX73_012670 Rne/Rng family ribonuclease -2.4  
Sodium bicarbonate TX73_014775 SPOR domain-containing protein -1.2  
Sodium bicarbonate TX73_018065 Do family serine endopeptidase variable  
Sodium bicarbonate TX73_020000 hypothetical protein variable  
Sodium bicarbonate TX73_022670 pitrilysin family protein variable  
Sodium bicarbonate TX73_022675 pitrilysin family protein variable  
Sodium bicarbonate TX73_022865 DeoR/GlpR family DNA-binding transcription regulator -1.4  
Sodium bicarbonate TX73_023215 thioredoxin family protein -3.2  
Sodium bicarbonate TX73_025005 lipocalin-like domain-containing protein -1.0  
Sodium butyrate TX73_001430 P-II family nitrogen regulator +1.3  
Sodium butyrate TX73_001435 ammonium transporter +1.4  
Sodium butyrate TX73_002280 ribosome maturation factor RimP +1.6  
Sodium butyrate TX73_007680 hypothetical protein +1.4  
Sodium butyrate TX73_012295 TonB-dependent receptor +1.0  
Sodium butyrate TX73_012305 ATP-binding cassette domain-containing protein +1.1  
Sodium butyrate TX73_012310 iron chelate uptake ABC transporter family permease subunit +1.0  
Sodium butyrate TX73_012315 iron chelate uptake ABC transporter family permease subunit +1.0  
Sodium butyrate TX73_012320 siderophore ABC transporter substrate-binding protein +1.1  
Sodium butyrate TX73_012335 AMP-binding protein +1.0  
Sodium butyrate TX73_022365 outer membrane beta-barrel protein +1.0  
Sodium succinate dibasic hexahydrate TX73_015760 bestrophin family protein -2.0  
Sodium succinate dibasic hexahydrate TX73_016235 HIT family protein -5.7  
aspen wood chips that have been decomposed by a fungus TX73_009850 glycoside hydrolase/phage tail family protein -1.2  
aspen wood chips that have been decomposed by a fungus TX73_014670 ATP-binding protein -1.2  
benzoic acid TX73_003375 cyclohexanecarboxylate-CoA ligase +1.7  
benzoic acid TX73_003380 cyclohexanecarboxyl-CoA dehydrogenase +1.5  
p-Coumaric acid TX73_001910 hypothetical protein -1.5  
p-Coumaric acid TX73_002380 serine hydrolase +2.5  
p-Coumaric acid TX73_002965 ActS/PrrB/RegB family redox-sensitive histidine kinase +2.2  
p-Coumaric acid TX73_003465 bifunctional 4-hydroxybenzoate--CoA/benzoate--CoA ligase -1.4  
p-Coumaric acid TX73_005175 protocatechuate 4,5-dioxygenase subunit alpha +1.1  
p-Coumaric acid TX73_005180 class III extradiol dioxygenase family protein +1.1  
p-Coumaric acid TX73_005185 helix-turn-helix domain-containing protein +1.3 Yes
p-Coumaric acid TX73_005190 cytochrome P450 +1.3  
p-Coumaric acid TX73_008775 SDR family NAD(P)-dependent oxidoreductase -2.4  
p-Coumaric acid TX73_009185 crotonase/enoyl-CoA hydratase family protein +1.0  
p-Coumaric acid TX73_009190 feruloyl-CoA synthase +1.9 Yes
p-Coumaric acid TX73_009195 thioesterase family protein +1.6  
p-Coumaric acid TX73_010075 TetR/AcrR family transcriptional regulator +1.5  
p-Coumaric acid TX73_019255 3-hydroxyacyl-CoA dehydrogenase NAD-binding domain-containing protein +1.5  
p-Coumaric acid TX73_020665 HAD family hydrolase -1.7  
p-Coumaric acid TX73_021510 hypothetical protein -1.8  
p-Coumaric acid TX73_021760 4-hydroxyphenyl-beta-ketoacyl-CoA hydrolase -3.5 Yes