| Organism | Ratio1 | Gene1 | Name1 | Description1 | Ratio2 | Gene2 | Name2 | Description2 | Cofit | Rank |
|---|
| Agrobacterium fabrum C58 | 1.0 | Atu3296 | | two component response regulator for C4-dicarboxylate transport | 1.0 | Atu2758 | | ammonium transporter | 0.26 | 14 |
| Sinorhizobium meliloti 1021 | 0.70 | SM_b20613 | | C4-dicarboxylate transport transcriptional regulator | 0.82 | SMc03807 | | ammonium transporter | low | > 103 |
| Rhizobium sp. OAE497 | 0.67 | ABIE40_RS26335 | | sigma-54 dependent transcriptional regulator | 0.83 | ABIE40_RS18420 | | ammonium transporter | low | > 107 |
| Xanthobacter sp. DMC5 | 0.61 | GFF3675 | | C4-dicarboxylate transport transcriptional regulatory protein DctD | 0.58 | GFF3985 | | Ammonia channel | — | — |
| Rhodospirillum rubrum S1H | 0.56 | Rru_A1435 | | Two Component, Sigma54 Specific, Transcriptional Regulator, Fis family (NCBI) | 0.49 | Rru_A1129 | | Ammonium transporter (NCBI) | low | > 58 |
| Castellaniella sp019104865 MT123 | 0.55 | ABCV34_RS02725 | | sigma-54 dependent transcriptional regulator | 0.42 | ABCV34_RS04770 | | ammonium transporter | low | > 48 |
| Azospirillum sp. SherDot2 | 0.55 | MPMX19_04251 | | C4-dicarboxylate transport transcriptional regulatory protein DctD | 0.49 | MPMX19_02223 | | Ammonia channel | low | > 112 |
| Azospirillum brasilense Sp245 | 0.53 | AZOBR_RS21130 | | Fis family transcriptional regulator | 0.48 | AZOBR_RS00845 | | ammonia channel protein | low | > 97 |
| Pseudomonas stutzeri RCH2 | 0.52 | Psest_4132 | | alpha-ketoglutarate DNA-binding response regulator (mifR) (from data) | 0.51 | Psest_3772 | | ammonium transporter | low | > 67 |
| Brevundimonas sp. GW460-12-10-14-LB2 | 0.51 | A4249_RS04415 | | sigma-54 dependent transcriptional regulator | 0.41 | A4249_RS09990 | | ammonium transporter | low | > 48 |
| Herbaspirillum seropedicae SmR1 | 0.51 | HSERO_RS16810 | | Fis family transcriptional regulator | 0.60 | HSERO_RS00425 | | ammonia channel protein | low | > 78 |
| Pseudomonas segetis P6 | 0.50 | MPMX49_00215 | | C4-dicarboxylate transport transcriptional regulatory protein DctD | 0.51 | MPMX49_04540 | | Ammonia channel | low | > 75 |
| Pseudomonas fluorescens FW300-N2E3 | 0.50 | AO353_03805 | | C4-dicarboxylate ABC transporter | 0.48 | AO353_09070 | | ammonia channel protein | low | > 101 |
| Pseudomonas lactucae CFBP13502 | 0.49 | GEMAOFIL_04682 | | C4-dicarboxylate transport transcriptional regulatory protein DctD | 0.49 | GEMAOFIL_05661 | | Ammonia channel | low | > 96 |
| Ralstonia sp. UNC404CL21Col | 0.49 | ABZR87_RS16305 | | sigma-54 dependent transcriptional regulator | 0.62 | ABZR87_RS06700 | | ammonium transporter | low | > 80 |
| Pseudomonas aeruginosa PUPa3 | 0.49 | DQ20_RS58285 | | sigma-54 dependent transcriptional regulator | 0.48 | DQ20_RS49805 | | ammonium transporter | low | > 101 |
| Pseudomonas aeruginosa MRSN321 | 0.49 | DY961_RS25855 | | sigma-54 dependent transcriptional regulator | 0.48 | DY961_RS12325 | | ammonium transporter | low | > 100 |
| Pseudomonas aeruginosa PA14 | 0.49 | IKLFDK_25855 | | DNA-binding response regulator | 0.48 | IKLFDK_27015 | | ammonia channel protein | low | > 98 |
| Pseudomonas fluorescens FW300-N1B4 | 0.49 | Pf1N1B4_685 | | Nitrogen regulation protein NR(I) | 0.51 | Pf1N1B4_2167 | | Ammonium transporter | — | — |
| Marinobacter adhaerens HP15 | 0.49 | HP15_725 | | two component, sigma54 specific, transcriptional regulator, Fis family | 0.17 | HP15_274 | | ammonium/methylammonium permease | low | > 73 |
| Pseudomonas fluorescens GW456-L13 | 0.49 | PfGW456L13_1806 | | Nitrogen regulation protein NR(I) | 0.50 | PfGW456L13_838 | | Ammonium transporter | low | > 87 |
| Pseudomonas sp. DMC3 | 0.49 | GFF5041 | | C4-dicarboxylate transport transcriptional regulatory protein DctD | 0.51 | GFF374 | | Ammonia channel | low | > 89 |
| Pseudomonas simiae WCS417 | 0.48 | PS417_22645 | | C4-dicarboxylate ABC transporter | 0.48 | PS417_27615 | | ammonia channel protein | low | > 88 |
| Pseudomonas orientalis W4I3 | 0.48 | QF045_RS24815 | | sigma-54 dependent transcriptional regulator | 0.51 | QF045_RS01980 | | ammonium transporter | low | > 93 |
| Dechlorosoma suillum PS | 0.48 | Dsui_3486 | | response regulator with CheY-like receiver, AAA-type ATPase, and DNA-binding domains | 0.52 | Dsui_0763 | | ammonium transporter | low | > 51 |
| Vibrio cholerae E7946 ATCC 55056 | 0.48 | CSW01_09635 | | sigma-54-dependent Fis family transcriptional regulator | 0.14 | CSW01_03200 | | ammonium transporter | low | > 62 |
| Escherichia coli Nissle 1917 | 0.48 | ECOLIN_RS23460 | | sigma-54 dependent transcriptional regulator | 0.49 | ECOLIN_RS02700 | | ammonium transporter AmtB | low | > 55 |
| Escherichia fergusonii Becca | 0.48 | EFB2_04538 | | C4-dicarboxylate transport transcriptional regulatory protein DctD | 0.49 | EFB2_03606 | | Ammonia channel | low | > 86 |
| Pseudomonas fluorescens FW300-N2C3 | 0.48 | AO356_17800 | | C4-dicarboxylate ABC transporter | 0.54 | AO356_12705 | | ammonia channel protein | low | > 104 |
| Pseudomonas fluorescens SBW25 | 0.48 | PFLU_RS24280 | | sigma-54-dependent Fis family transcriptional regulator | 0.51 | PFLU_RS29300 | | ammonium transporter | low | > 109 |
| Pseudomonas fluorescens SBW25-INTG | 0.48 | PFLU_RS24280 | | sigma-54-dependent Fis family transcriptional regulator | 0.51 | PFLU_RS29300 | | ammonium transporter | low | > 109 |
| Cupriavidus basilensis FW507-4G11 | 0.48 | RR42_RS01705 | | Fis family transcriptional regulator | 0.60 | RR42_RS01760 | | ammonia channel protein | low | > 128 |
| Pseudomonas sp. RS175 | 0.48 | PFR28_03462 | | C4-dicarboxylate transport transcriptional regulatory protein DctD | 0.54 | PFR28_04382 | | Ammonia channel | low | > 88 |
| Ralstonia solanacearum GMI1000 | 0.48 | RS_RS01635 | | sigma-54-dependent Fis family transcriptional regulator | 0.62 | RS_RS01690 | | ammonium transporter | low | > 80 |
| Pseudomonas fluorescens FW300-N2E2 | 0.48 | Pf6N2E2_5487 | | Nitrogen regulation protein NR(I) | 0.54 | Pf6N2E2_4412 | | Ammonium transporter | low | > 103 |
| Ralstonia solanacearum PSI07 | 0.47 | RPSI07_RS22520 | | sigma-54-dependent Fis family transcriptional regulator | 0.62 | RPSI07_RS22460 | | ammonia channel protein | low | > 81 |
| Ralstonia solanacearum UW163 | 0.47 | UW163_RS02785 | | sigma-54-dependent Fis family transcriptional regulator | 0.62 | UW163_RS02730 | | ammonia channel protein | — | — |
| Ralstonia solanacearum IBSBF1503 | 0.47 | RALBFv3_RS10795 | | sigma-54-dependent Fis family transcriptional regulator | 0.62 | RALBFv3_RS10850 | | ammonia channel protein | low | > 76 |
| Pseudomonas sp. S08-1 | 0.47 | OH686_13325 | | Two component, Sigma-54 Specific, central transcriptional regulator of acidic amino acid uptake | 0.50 | OH686_13760 | | Ammonium transporter | low | > 80 |
| Pseudomonas sp. SVBP6 | 0.47 | COO64_RS16760 | | sigma-54 dependent transcriptional regulator | 0.49 | COO64_RS01285 | | ammonium transporter | low | > 93 |
| Pseudomonas putida KT2440 | 0.47 | PP_1066 | | C4-dicarboxylate transport transcriptional regulatory protein | 0.48 | PP_5233 | | ammonium transporter AmtB | low | > 96 |
| Pseudomonas sp. BP01 | 0.47 | JOY50_RS14825 | | sigma-54 dependent transcriptional regulator | 0.48 | JOY50_RS22625 | | ammonium transporter | low | > 84 |
| Pseudomonas syringae pv. syringae B728a ΔmexB | 0.47 | Psyr_3995 | | Helix-turn-helix, Fis-type | 0.48 | Psyr_0189 | | ammonium transporter | low | > 86 |
| Pseudomonas syringae pv. syringae B728a | 0.47 | Psyr_3995 | | Helix-turn-helix, Fis-type | 0.48 | Psyr_0189 | | ammonium transporter | low | > 86 |
| Shewanella amazonensis SB2B | 0.46 | Sama_2213 | | response regulator receiver protein (RefSeq) | 0.15 | Sama_0651 | | Rh-like protein/ammonium transporter (RefSeq) | low | > 62 |
| Sphingomonas koreensis DSMZ 15582 | 0.46 | Ga0059261_0619 | | Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains | 0.56 | Ga0059261_2256 | | ammonium transporter | low | > 68 |
| Shewanella loihica PV-4 | 0.45 | Shew_1442 | | two component, sigma54 specific, Fis family transcriptional regulator (RefSeq) | 0.16 | Shew_0847 | | Rh family protein/ammonium transporter (RefSeq) | low | > 60 |
| Shewanella oneidensis MR-1 | 0.45 | SO3138 | dctD | C4-dicarboxylate transport transcriptional regulatory protein (NCBI ptt file) | 0.17 | SO0760 | amt | ammonium transporter (NCBI ptt file) | low | > 76 |
| Shewanella sp. ANA-3 | 0.45 | Shewana3_1412 | | two component, sigma54 specific, Fis family transcriptional regulator (RefSeq) | 0.44 | Shewana3_0778 | | ammonium transporter (RefSeq) | low | > 73 |
| Variovorax sp. OAS795 | 0.43 | ABID97_RS26605 | | sigma-54 dependent transcriptional regulator | 0.53 | ABID97_RS03635 | | ammonium transporter | low | > 91 |
| Variovorax sp. SCN45 | 0.42 | GFF1691 | | Two component, Sigma-54 Specific, central transcriptional regulator of acidic amino acid uptake | 0.55 | GFF5119 | | Ammonium transporter | low | > 127 |
| Sphingobium sp. HT1-2 | 0.38 | GFF159 | | hypothetical protein | 0.53 | GFF785 | | Ammonium transporter | low | > 95 |
| Klebsiella michiganensis M5al | 0.35 | BWI76_RS21250 | | two-component system response regulator GlrR | 0.49 | BWI76_RS06605 | | ammonium transporter | low | > 92 |
| Desulfovibrio vulgaris Miyazaki F | 0.34 | DvMF_0823 | | two component, sigma54 specific, transcriptional regulator, Fis family (RefSeq) | 0.40 | DvMF_0866 | | ammonium transporter (RefSeq) | low | > 51 |
| Klebsiella pneumoniae MKP103 | 0.34 | KDGMDA_28370 | | two-component system response regulator QseF/GlrR | 0.49 | KDGMDA_14685 | | ammonium transporter AmtB | low | > 95 |
| Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868 | 0.34 | GFF2455 | | Putative sensory histidine kinase YfhA | 0.50 | GFF4368 | | Ammonium transporter | low | > 78 |
| Rahnella sp. WP5 | 0.34 | EX31_RS20615 | | two-component system response regulator GlrR | 0.52 | EX31_RS22320 | | ammonium transporter AmtB | low | > 89 |
| Serratia liquefaciens MT49 | 0.34 | IAI46_19460 | | two-component system response regulator GlrR | 0.52 | IAI46_05085 | | ammonium transporter AmtB | low | > 87 |
| Erwinia amylovora T8 | 0.34 | OLJFJH_10330 | | two-component system response regulator QseF/GlrR | 0.50 | OLJFJH_17905 | | ammonium transporter AmtB | low | > 58 |
| Pectobacterium carotovorum WPP14 | 0.34 | HER17_RS05925 | | two-component system response regulator GlrR | 0.51 | HER17_RS15785 | | ammonium transporter AmtB | low | > 75 |
| Erwinia tracheiphila HP pepo 2.2 | 0.34 | IJEDHG_02930 | qseF | two-component system response regulator QseF/GlrR | 0.49 | IJEDHG_16515 | amtB | ammonium transporter AmtB | low | > 61 |
| Erwinia tracheiphila SCR3 | 0.34 | LU632_RS17930 | glrR | two-component system response regulator GlrR | 0.49 | LU632_RS18270 | amtB | ammonium transporter AmtB | low | > 73 |
| Dickeya dadantii 3937 | 0.34 | DDA3937_RS15640 | | two-component system response regulator GlrR | 0.45 | DDA3937_RS05700 | | ammonium transporter AmtB | low | > 74 |
| Dickeya dianthicola ME23 | 0.34 | DZA65_RS16815 | | two-component system response regulator GlrR | 0.47 | DZA65_RS06070 | | ammonium transporter AmtB | low | > 75 |
| Pantoea agglomerans CFBP13505 P0401 | 0.33 | PagCFBP13505_RS14835 | | two-component system response regulator GlrR | 0.49 | PagCFBP13505_RS10615 | | ammonium transporter AmtB | low | > 74 |
| Dickeya dianthicola 67-19 | 0.33 | HGI48_RS15735 | | two-component system response regulator GlrR | 0.47 | HGI48_RS05745 | | ammonium transporter AmtB | low | > 71 |
| Escherichia coli ECRC62 | 0.33 | BNILDI_11970 | qseF | two-component system response regulator QseF/GlrR | 0.50 | BNILDI_22610 | amtB | ammonium transporter AmtB | low | > 75 |
| Escherichia coli ECOR27 | 0.33 | NOLOHH_13170 | qseF | two-component system response regulator QseF/GlrR | 0.50 | NOLOHH_01195 | amtB | ammonium transporter AmtB | low | > 76 |
| Enterobacter sp. TBS_079 | 0.33 | MPMX20_03423 | | Transcriptional regulatory protein QseF | 0.50 | MPMX20_01043 | | Ammonia channel | low | > 85 |
| Pantoea sp. MT58 | 0.33 | IAI47_04945 | | two-component system response regulator GlrR | 0.49 | IAI47_14580 | | ammonium transporter AmtB | low | > 76 |
| Escherichia coli ECRC101 | 0.33 | MCAODC_12025 | qseF | two-component system response regulator QseF/GlrR | 0.50 | MCAODC_27485 | amtB | ammonium transporter AmtB | low | > 87 |
| Escherichia coli ECRC102 | 0.33 | NIAGMN_19265 | qseF | two-component system response regulator QseF/GlrR | 0.50 | NIAGMN_06315 | amtB | ammonium transporter AmtB | low | > 80 |
| Escherichia coli ECRC98 | 0.33 | JDDGAC_25160 | qseF | two-component system response regulator QseF/GlrR | 0.50 | JDDGAC_11915 | amtB | ammonium transporter AmtB | low | > 87 |
| Escherichia coli ECRC99 | 0.33 | KEDOAH_06725 | qseF | two-component system response regulator QseF/GlrR | 0.50 | KEDOAH_19705 | amtB | ammonium transporter AmtB | — | — |
| Enterobacter asburiae PDN3 | 0.33 | EX28DRAFT_0096 | | Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains | 0.49 | EX28DRAFT_2518 | | ammonium transporter | low | > 76 |
| Escherichia coli ECRC100 | 0.33 | OKFHMN_21495 | qseF | two-component system response regulator QseF/GlrR | 0.50 | OKFHMN_08260 | amtB | ammonium transporter AmtB | low | > 79 |
| Bacteroides ovatus ATCC 8483 | 0.32 | BACOVA_04200 | | Sigma-54 interaction domain protein | 0.46 | BACOVA_03766 | | ammonium transporter | low | > 96 |
| Echinicola vietnamensis KMM 6221, DSM 17526 | 0.32 | Echvi_2422 | | Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains | 0.30 | Echvi_3535 | | ammonium transporter | low | > 79 |
| Bacteroides thetaiotaomicron VPI-5482 | 0.32 | BT1469 | | two-component system response regulator (NCBI ptt file) | 0.23 | BT0544 | | ammonium transporter (NCBI ptt file) | low | > 81 |
| Rhodanobacter denitrificans FW104-10B01 | 0.32 | LRK54_RS12105 | | sigma-54 dependent transcriptional regulator | 0.54 | LRK54_RS08110 | | ammonium transporter | low | > 59 |
| Phocaeicola dorei CL03T12C01 | 0.32 | ABI39_RS17680 | | sigma-54-dependent Fis family transcriptional regulator | 0.24 | ABI39_RS14275 | | ammonium transporter | low | > 72 |
| Phocaeicola vulgatus CL09T03C04 | 0.32 | HMPREF1058_RS03345 | | sigma-54-dependent Fis family transcriptional regulator | 0.25 | HMPREF1058_RS06895 | | ammonium transporter | low | > 67 |
| Rhodanobacter denitrificans MT42 | 0.32 | LRK55_RS11840 | | sigma-54 dependent transcriptional regulator | 0.54 | LRK55_RS07860 | | ammonium transporter | low | > 63 |
| Dyella japonica UNC79MFTsu3.2 | 0.31 | ABZR86_RS04010 | | sigma-54 dependent transcriptional regulator | 0.51 | ABZR86_RS09495 | | ammonium transporter | low | > 74 |
Not shown: 6 genomes with orthologs for Atu3296 only; 32 genomes with orthologs for Atu2758 only