Specific Phenotypes for Rhodanobacter denitrificans FW104-10B01 in carbon source experiments

Condition Gene Description Fitness Cons.
D-Glucosamine Hydrochloride LRK54_RS00650 L-threonine 3-dehydrogenase -1.5  
D-Glucosamine Hydrochloride LRK54_RS00660 glycine C-acetyltransferase -1.5  
D-Glucosamine Hydrochloride LRK54_RS07690 heparan-alpha-glucosaminide N-acetyltransferase domain-containing protein -1.1 Yes
D-Glucosamine Hydrochloride LRK54_RS07705 glucokinase -1.0  
D-Glucosamine Hydrochloride LRK54_RS07710 sugar MFS transporter -1.4 Yes
D-Glucosamine Hydrochloride LRK54_RS14545 formate-dependent phosphoribosylglycinamide formyltransferase +1.2  
D-Glucose LRK54_RS00920 phosphoadenylyl-sulfate reductase -1.1  
D-Glucose LRK54_RS05055 L-fucose:H+ symporter permease -1.4 Yes
D-Glucose LRK54_RS10875 HAD family hydrolase variable  
D-Glucose-6-Phosphate sodium salt LRK54_RS00980 DnaJ domain-containing protein -2.2  
D-Glucose-6-Phosphate sodium salt LRK54_RS01795 hypothetical protein +1.7  
D-Glucose-6-Phosphate sodium salt LRK54_RS03180 FAD-binding oxidoreductase -1.5  
D-Glucose-6-Phosphate sodium salt LRK54_RS04765 LysR substrate-binding domain-containing protein -3.1  
D-Glucose-6-Phosphate sodium salt LRK54_RS04955 ATP-dependent chaperone ClpB -2.7  
D-Glucose-6-Phosphate sodium salt LRK54_RS05055 L-fucose:H+ symporter permease -2.4  
D-Glucose-6-Phosphate sodium salt LRK54_RS08015 4,5-DOPA dioxygenase extradiol +1.4  
D-Glucose-6-Phosphate sodium salt LRK54_RS08020 aldehyde dehydrogenase family protein +1.8  
D-Glucose-6-Phosphate sodium salt LRK54_RS09330 RNA pyrophosphohydrolase +1.7  
D-Glucose-6-Phosphate sodium salt LRK54_RS10735 acid phosphatase -1.3 Yes
D-Glucose-6-Phosphate sodium salt LRK54_RS13700 magnesium and cobalt transport protein CorA -2.2  
D-Glucose-6-Phosphate sodium salt LRK54_RS14100 cytochrome b +1.6  
D-Maltose monohydrate LRK54_RS02115 homocysteine S-methyltransferase family protein -1.5  
D-Maltose monohydrate LRK54_RS03180 FAD-binding oxidoreductase -2.0  
D-Raffinose pentahydrate LRK54_RS04765 LysR substrate-binding domain-containing protein -2.2  
D-Raffinose pentahydrate LRK54_RS04955 ATP-dependent chaperone ClpB -1.6  
D-Raffinose pentahydrate LRK54_RS05000 beta-phosphoglucomutase -2.0  
D-Raffinose pentahydrate LRK54_RS05005 TonB-dependent receptor -1.2 Yes
D-Raffinose pentahydrate LRK54_RS05010 MFS transporter -2.0 Yes
D-Trehalose dihydrate LRK54_RS05000 beta-phosphoglucomutase -2.6  
D-Trehalose dihydrate LRK54_RS05010 MFS transporter -2.2  
D-Trehalose dihydrate LRK54_RS13415 flagellar hook capping protein +1.1  
D-Trehalose dihydrate LRK54_RS13420 flagellar hook protein FlgE +1.2  
D-Trehalose dihydrate LRK54_RS13430 flagellar basal-body rod protein FlgG +1.4  
D-Trehalose dihydrate LRK54_RS13525 flagellar basal body-associated FliL family protein +1.1 Yes
D-Trehalose dihydrate LRK54_RS13530 flagellar motor switch protein FliM +1.2  
D-Trehalose dihydrate LRK54_RS13550 flagellar biosynthesis protein FliQ +1.1  
D-Trehalose dihydrate LRK54_RS13565 flagellar biosynthesis protein FlhA +1.1  
D-Trehalose dihydrate LRK54_RS13580 RNA polymerase sigma factor FliA +1.2  
Gly-Glu LRK54_RS01415 DUF3772 domain-containing protein -1.3  
Gly-Glu LRK54_RS01525 amino acid permease -1.2  
Gly-Glu LRK54_RS02785 PqiC family protein +1.6  
Gly-Glu LRK54_RS02790 MlaD family protein +1.7  
Gly-Glu LRK54_RS02795 paraquat-inducible protein A +1.5  
Gly-Glu LRK54_RS02800 paraquat-inducible protein A +1.6  
Gly-Glu LRK54_RS02910 M20 family metallopeptidase -1.4  
Gly-Glu LRK54_RS03670 acyl-CoA thioesterase -3.1  
Gly-Glu LRK54_RS03875 pilin -1.2  
Gly-Glu LRK54_RS05505 glycine cleavage system protein GcvH -1.5  
Gly-Glu LRK54_RS05510 glycine cleavage system aminomethyltransferase GcvT -1.4 Yes
Gly-Glu LRK54_RS07645 alpha/beta hydrolase +1.0  
Gly-Glu LRK54_RS08425 response regulator transcription factor +1.3  
Gly-Glu LRK54_RS08430 hybrid sensor histidine kinase/response regulator +1.2 Yes
Gly-Glu LRK54_RS09820 cell division protein ZapE -2.0  
Gly-Glu LRK54_RS09930 LysR substrate-binding domain-containing protein -1.3  
Gly-Glu LRK54_RS10300 threonine ammonia-lyase, biosynthetic -1.1  
Gly-Glu LRK54_RS10365 homoserine dehydrogenase -3.5  
Gly-Glu LRK54_RS10685 aspartate/tyrosine/aromatic aminotransferase -2.4  
Gly-Glu LRK54_RS10865 DEAD/DEAH box helicase -1.5  
Gly-Glu LRK54_RS11120 tetratricopeptide repeat-containing sulfotransferase family protein +1.4  
Gly-Glu LRK54_RS11505 SH3 domain-containing protein -1.1  
Gly-Glu LRK54_RS12940 phosphoribosylglycinamide formyltransferase +1.7  
Gly-Glu LRK54_RS13700 magnesium and cobalt transport protein CorA -2.4  
Gly-Glu LRK54_RS13840 lysophospholipid acyltransferase family protein -1.0  
Gly-Glu LRK54_RS15920 oligopeptide transporter, OPT family +2.2  
Gly-Glu LRK54_RS16535 VIT family protein -1.2  
Gly-Glu LRK54_RS16765 hydroxyacylglutathione hydrolase +1.1  
Gly-Glu LRK54_RS16995 YdbL family protein -1.3  
Gly-Glu LRK54_RS17965 heat-inducible transcriptional repressor HrcA -1.2  
L-Glutamic acid monopotassium salt monohydrate LRK54_RS02115 homocysteine S-methyltransferase family protein -1.1  
L-Glutamic acid monopotassium salt monohydrate LRK54_RS14545 formate-dependent phosphoribosylglycinamide formyltransferase +1.2  
N-Acetyl-D-Glucosamine LRK54_RS02115 homocysteine S-methyltransferase family protein -1.4  
N-Acetyl-D-Glucosamine LRK54_RS02120 methionine synthase -1.4  
N-Acetyl-D-Glucosamine LRK54_RS10365 homoserine dehydrogenase -1.5  
Potassium acetate LRK54_RS00055 3-hydroxyacyl-CoA dehydrogenase/enoyl-CoA hydratase family protein -1.0  
Potassium acetate LRK54_RS00910 siroheme synthase CysG -1.5  
Potassium acetate LRK54_RS00920 phosphoadenylyl-sulfate reductase -1.3  
Potassium acetate LRK54_RS00925 assimilatory sulfite reductase (NADPH) hemoprotein subunit -1.2  
Potassium acetate LRK54_RS00930 assimilatory sulfite reductase (NADPH) flavoprotein subunit -1.2  
Potassium acetate LRK54_RS02195 pilus assembly protein PilY +1.7  
Potassium acetate LRK54_RS04765 LysR substrate-binding domain-containing protein -3.1  
Potassium acetate LRK54_RS04955 ATP-dependent chaperone ClpB -2.5  
Potassium acetate LRK54_RS05505 glycine cleavage system protein GcvH -1.7  
Potassium acetate LRK54_RS08015 4,5-DOPA dioxygenase extradiol +1.0  
Potassium acetate LRK54_RS08020 aldehyde dehydrogenase family protein +1.2  
Potassium acetate LRK54_RS08420 acetate--CoA ligase -1.4 Yes
Potassium acetate LRK54_RS08425 response regulator transcription factor -1.6  
Potassium acetate LRK54_RS08430 hybrid sensor histidine kinase/response regulator -1.6 Yes
Potassium acetate LRK54_RS10585 isocitrate lyase -4.2 Yes
Potassium acetate LRK54_RS10590 malate synthase A -3.9 Yes
Potassium acetate LRK54_RS10595 LysR family transcriptional regulator -3.7 Yes
Potassium acetate LRK54_RS11985 tRNA (guanosine(46)-N7)-methyltransferase TrmB -1.3  
Potassium acetate LRK54_RS12660 translocation/assembly module TamB domain-containing protein -1.6  
Potassium acetate LRK54_RS12665 autotransporter assembly complex protein TamA -1.8  
Potassium acetate LRK54_RS16140 glycine zipper 2TM domain-containing protein -1.8  
Potassium acetate LRK54_RS16145 glycine zipper 2TM domain-containing protein -1.3  
Potassium acetate LRK54_RS16995 YdbL family protein -1.1  
Sodium pyruvate LRK54_RS00910 siroheme synthase CysG -1.6  
Sodium pyruvate LRK54_RS00920 phosphoadenylyl-sulfate reductase -1.1  
Sodium pyruvate LRK54_RS00925 assimilatory sulfite reductase (NADPH) hemoprotein subunit -1.3  
Sodium pyruvate LRK54_RS00930 assimilatory sulfite reductase (NADPH) flavoprotein subunit -1.2  
Sodium pyruvate LRK54_RS03180 FAD-binding oxidoreductase -1.6  
Sodium pyruvate LRK54_RS04665 carbon starvation protein A -1.5 Yes
Sodium pyruvate LRK54_RS04670 YbdD/YjiX family protein -1.3 Yes
Sodium pyruvate LRK54_RS08425 response regulator transcription factor -2.3 Yes
Sodium pyruvate LRK54_RS08430 hybrid sensor histidine kinase/response regulator -2.0 Yes
Sodium pyruvate LRK54_RS09820 cell division protein ZapE -1.5  
a-Cyclodextrin LRK54_RS00795 long-chain-fatty-acid--CoA ligase -2.8  
a-Cyclodextrin LRK54_RS00910 siroheme synthase CysG -1.7  
a-Cyclodextrin LRK54_RS00980 DnaJ domain-containing protein -1.8  
a-Cyclodextrin LRK54_RS01795 hypothetical protein +2.2  
a-Cyclodextrin LRK54_RS02120 methionine synthase -1.4  
a-Cyclodextrin LRK54_RS02560 MalM family protein -3.3  
a-Cyclodextrin LRK54_RS02785 PqiC family protein -3.8  
a-Cyclodextrin LRK54_RS02790 MlaD family protein -3.9  
a-Cyclodextrin LRK54_RS02795 paraquat-inducible protein A -3.6  
a-Cyclodextrin LRK54_RS02800 paraquat-inducible protein A -3.7  
a-Cyclodextrin LRK54_RS03180 FAD-binding oxidoreductase -1.5  
a-Cyclodextrin LRK54_RS04180 methyl-accepting chemotaxis protein +1.2  
a-Cyclodextrin LRK54_RS04765 LysR substrate-binding domain-containing protein -2.0  
a-Cyclodextrin LRK54_RS04865 tol-pal system protein YbgF -1.5  
a-Cyclodextrin LRK54_RS04955 ATP-dependent chaperone ClpB -1.9  
a-Cyclodextrin LRK54_RS05385 CPBP family intramembrane metalloprotease +1.5  
a-Cyclodextrin LRK54_RS05600 hypothetical protein -1.6  
a-Cyclodextrin LRK54_RS06500 lytic murein transglycosylase B -1.4  
a-Cyclodextrin LRK54_RS06715 O-antigen ligase family protein -1.4  
a-Cyclodextrin LRK54_RS07110 cytochrome c oxidase subunit 3 +1.7  
a-Cyclodextrin LRK54_RS07145 OmpP1/FadL family transporter -2.6  
a-Cyclodextrin LRK54_RS07245 transglycosylase SLT domain-containing protein -1.3  
a-Cyclodextrin LRK54_RS08015 4,5-DOPA dioxygenase extradiol +1.2  
a-Cyclodextrin LRK54_RS08020 aldehyde dehydrogenase family protein +1.4  
a-Cyclodextrin LRK54_RS08340 DUF885 family protein +1.4  
a-Cyclodextrin LRK54_RS08465 tetratricopeptide repeat protein +2.4  
a-Cyclodextrin LRK54_RS08730 DUF481 domain-containing protein -3.0  
a-Cyclodextrin LRK54_RS09330 RNA pyrophosphohydrolase +1.4  
a-Cyclodextrin LRK54_RS09415 FecR family protein +1.2  
a-Cyclodextrin LRK54_RS09440 FecR domain-containing protein +1.6  
a-Cyclodextrin LRK54_RS09755 3-oxoacyl-ACP reductase +1.2  
a-Cyclodextrin LRK54_RS09770 glycosyltransferase family 2 protein +1.3  
a-Cyclodextrin LRK54_RS09955 TatD family hydrolase -1.4  
a-Cyclodextrin LRK54_RS10175 autotransporter domain-containing protein -2.8  
a-Cyclodextrin LRK54_RS11825 hypothetical protein -1.1  
a-Cyclodextrin LRK54_RS12950 DUF2066 domain-containing protein -2.7  
a-Cyclodextrin LRK54_RS13005 sugar porter family MFS transporter +1.6  
a-Cyclodextrin LRK54_RS13050 hypothetical protein +1.1  
a-Cyclodextrin LRK54_RS13070 alpha-amylase family glycosyl hydrolase -1.4 Yes
a-Cyclodextrin LRK54_RS13080 TonB-dependent receptor +4.4  
a-Cyclodextrin LRK54_RS13805 hypothetical protein +1.7  
a-Cyclodextrin LRK54_RS14775 cold-shock protein -2.4  
a-Cyclodextrin LRK54_RS16000 polyphosphate kinase 1 +1.2  
a-Cyclodextrin LRK54_RS16245 ABC transporter ATP-binding protein +2.1  
a-Cyclodextrin LRK54_RS17955 response regulator transcription factor +1.5  
casamino acids LRK54_RS04765 LysR substrate-binding domain-containing protein -1.8  
casamino acids LRK54_RS05285 APC family permease -1.7  
casamino acids LRK54_RS08365 class 1 fructose-bisphosphatase -1.5 Yes