| Organism | Ratio1 | Gene1 | Name1 | Description1 | Ratio2 | Gene2 | Name2 | Description2 | Cofit | Rank |
|---|
| Agrobacterium fabrum C58 | 1.0 | Atu0332 | | RNA polymerase sigma-54 factor | 1.0 | Atu2758 | | ammonium transporter | 0.45 | 8 |
| Rhizobium sp. OAE497 | 0.69 | ABIE40_RS01860 | | RNA polymerase factor sigma-54 | 0.83 | ABIE40_RS18420 | | ammonium transporter | low | > 107 |
| Sinorhizobium meliloti 1021 | 0.64 | SMc01139 | | RNA polymerase factor sigma-54 | 0.82 | SMc03807 | | ammonium transporter | low | > 103 |
| Rhodopseudomonas palustris CGA009 | 0.51 | TX73_000260 | | RNA polymerase factor sigma-54 | 0.59 | TX73_001435 | | ammonium transporter | low | > 86 |
| Bosea sp. OAE506 | 0.48 | ABIE41_RS00125 | | RNA polymerase factor sigma-54 | 0.60 | ABIE41_RS04755 | | ammonium transporter | low | > 77 |
| Magnetospirillum magneticum AMB-1 | 0.47 | AMB_RS19925 | | RNA polymerase sigma-54 factor | 0.45 | AMB_RS00080 | | ammonium transporter | — | — |
| Rhodospirillum rubrum S1H | 0.46 | Rru_A0010 | | Sigma-54 (RpoN) (NCBI) | 0.49 | Rru_A1129 | | Ammonium transporter (NCBI) | low | > 58 |
| Caulobacter crescentus NA1000 Δfur | 0.46 | CCNA_03713 | | RNA polymerase sigma-54 factor rpoN | 0.56 | CCNA_01399 | | ammonium transporter/methylammonium transporter | low | > 67 |
| Caulobacter crescentus NA1000 | 0.46 | CCNA_03713 | | RNA polymerase sigma-54 factor rpoN | 0.56 | CCNA_01399 | | ammonium transporter/methylammonium transporter | low | > 66 |
| Azospirillum sp. SherDot2 | 0.45 | MPMX19_02668 | | RNA polymerase sigma-54 factor 2 | 0.49 | MPMX19_02223 | | Ammonia channel | low | > 112 |
| Azospirillum brasilense Sp245 | 0.42 | AZOBR_RS18870 | | RNA polymerase sigma54 factor | 0.48 | AZOBR_RS00845 | | ammonia channel protein | 0.41 | 92 |
| Brevundimonas sp. GW460-12-10-14-LB2 | 0.42 | A4249_RS16075 | | RNA polymerase factor sigma-54 | 0.41 | A4249_RS09990 | | ammonium transporter | low | > 48 |
| Sphingomonas koreensis DSMZ 15582 | 0.39 | Ga0059261_2543 | | RNA polymerase, sigma 54 subunit, RpoN/SigL | 0.56 | Ga0059261_2256 | | ammonium transporter | low | > 68 |
| Marinobacter adhaerens HP15 | 0.31 | HP15_2442 | | RNA polymerase, sigma 54 subunit, RpoN | 0.17 | HP15_274 | | ammonium/methylammonium permease | 0.40 | 65 |
| Pseudomonas putida KT2440 | 0.29 | PP_0952 | | RNA polymerase sigma-54 factor | 0.48 | PP_5233 | | ammonium transporter AmtB | — | — |
| Pseudomonas simiae WCS417 | 0.29 | PS417_04345 | | RNA polymerase factor sigma-54 | 0.48 | PS417_27615 | | ammonia channel protein | — | — |
| Pseudomonas fluorescens FW300-N2E3 | 0.29 | AO353_05180 | | RNA polymerase sigma-54 factor | 0.48 | AO353_09070 | | ammonia channel protein | — | — |
| Pseudomonas stutzeri RCH2 | 0.29 | Psest_3313 | | RNA polymerase sigma-54 factor | 0.51 | Psest_3772 | | ammonium transporter | — | — |
| Pseudomonas fluorescens SBW25-INTG | 0.29 | PFLU_RS04400 | | RNA polymerase factor sigma-54 | 0.51 | PFLU_RS29300 | | ammonium transporter | — | — |
| Pseudomonas fluorescens SBW25 | 0.29 | PFLU_RS04400 | | RNA polymerase factor sigma-54 | 0.51 | PFLU_RS29300 | | ammonium transporter | — | — |
| Pseudomonas fluorescens FW300-N2C3 | 0.29 | AO356_07035 | | RNA polymerase sigma-54 factor | 0.54 | AO356_12705 | | ammonia channel protein | — | — |
| Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868 | 0.29 | GFF2946 | | RNA polymerase sigma-54 factor RpoN | 0.50 | GFF4368 | | Ammonium transporter | low | > 78 |
| Pseudomonas syringae pv. syringae B728a | 0.29 | Psyr_4147 | | RNA polymerase, sigma 54 subunit, RpoN/SigL | 0.48 | Psyr_0189 | | ammonium transporter | — | — |
| Pseudomonas syringae pv. syringae B728a ΔmexB | 0.29 | Psyr_4147 | | RNA polymerase, sigma 54 subunit, RpoN/SigL | 0.48 | Psyr_0189 | | ammonium transporter | — | — |
| Pseudomonas sp. S08-1 | 0.29 | OH686_08540 | | RNA polymerase sigma-54 factor | 0.50 | OH686_13760 | | Ammonium transporter | — | — |
| Escherichia coli ECOR27 | 0.28 | NOLOHH_09740 | rpoN | RNA polymerase factor sigma-54 | 0.50 | NOLOHH_01195 | amtB | ammonium transporter AmtB | — | — |
| Escherichia coli BW25113 | 0.28 | b3202 | rpoN | DNA-directed RNA polymerase subunit N (NCBI) | 0.50 | b0451 | amtB | ammonium transporter (NCBI) | — | — |
| Dickeya dianthicola 67-19 | 0.28 | HGI48_RS01445 | | RNA polymerase factor sigma-54 | 0.47 | HGI48_RS05745 | | ammonium transporter AmtB | low | > 71 |
| Escherichia coli ECRC102 | 0.28 | NIAGMN_15700 | rpoN | RNA polymerase factor sigma-54 | 0.50 | NIAGMN_06315 | amtB | ammonium transporter AmtB | — | — |
| Escherichia coli ECRC101 | 0.28 | MCAODC_08460 | rpoN | RNA polymerase factor sigma-54 | 0.50 | MCAODC_27485 | amtB | ammonium transporter AmtB | — | — |
| Escherichia coli ECRC98 | 0.28 | JDDGAC_21565 | rpoN | RNA polymerase factor sigma-54 | 0.50 | JDDGAC_11915 | amtB | ammonium transporter AmtB | — | — |
| Escherichia coli HS(pFamp)R (ATCC 700891) | 0.28 | OHPLBJKB_00498 | | RNA polymerase sigma-54 factor | 0.50 | OHPLBJKB_03222 | | Ammonia channel | — | — |
| Escherichia fergusonii Becca | 0.28 | EFB2_00621 | | RNA polymerase sigma-54 factor | 0.49 | EFB2_03606 | | Ammonia channel | — | — |
| Escherichia coli Nissle 1917 | 0.28 | ECOLIN_RS18425 | | RNA polymerase factor sigma-54 | 0.49 | ECOLIN_RS02700 | | ammonium transporter AmtB | — | — |
| Dickeya dianthicola ME23 | 0.28 | DZA65_RS01510 | | RNA polymerase factor sigma-54 | 0.47 | DZA65_RS06070 | | ammonium transporter AmtB | low | > 75 |
| Pseudomonas fluorescens GW456-L13 | 0.28 | PfGW456L13_5014 | | RNA polymerase sigma-54 factor RpoN | 0.50 | PfGW456L13_838 | | Ammonium transporter | — | — |
| Escherichia coli BL21 | 0.28 | ECD_03067 | | RNA polymerase, sigma 54 (sigma N) factor | 0.49 | ECD_00403 | | ammonium transporter | low | > 60 |
| Escherichia coli ECRC62 | 0.28 | BNILDI_01795 | rpoN | RNA polymerase factor sigma-54 | 0.50 | BNILDI_22610 | amtB | ammonium transporter AmtB | — | — |
| Escherichia coli ECOR38 | 0.28 | HEPCGN_16815 | rpoN | RNA polymerase factor sigma-54 | 0.50 | HEPCGN_06875 | amtB | ammonium transporter AmtB | — | — |
| Escherichia coli ECRC101 | 0.28 | OKFHMN_17940 | rpoN | RNA polymerase factor sigma-54 | 0.50 | OKFHMN_08260 | amtB | ammonium transporter AmtB | — | — |
| Escherichia coli ECRC99 | 0.28 | KEDOAH_10210 | rpoN | RNA polymerase factor sigma-54 | 0.50 | KEDOAH_19705 | amtB | ammonium transporter AmtB | — | — |
| Enterobacter asburiae PDN3 | 0.28 | EX28DRAFT_3256 | | RNA polymerase, sigma 54 subunit, RpoN/SigL | 0.49 | EX28DRAFT_2518 | | ammonium transporter | — | — |
| Pseudomonas fluorescens FW300-N2E2 | 0.28 | Pf6N2E2_3267 | | RNA polymerase sigma-54 factor RpoN | 0.54 | Pf6N2E2_4412 | | Ammonium transporter | — | — |
| Pseudomonas fluorescens FW300-N1B4 | 0.28 | Pf1N1B4_1080 | | RNA polymerase sigma-54 factor RpoN | 0.51 | Pf1N1B4_2167 | | Ammonium transporter | — | — |
| Alteromonas macleodii MIT1002 | 0.28 | MIT1002_00827 | | RNA polymerase sigma-54 factor 2 | 0.15 | MIT1002_00417 | | Ammonia transporter | low | > 70 |
| Pseudomonas sp. RS175 | 0.28 | PFR28_00173 | | RNA polymerase sigma-54 factor | 0.54 | PFR28_04382 | | Ammonia channel | — | — |
| Klebsiella michiganensis M5al | 0.28 | BWI76_RS25265 | | RNA polymerase factor sigma-54 | 0.49 | BWI76_RS06605 | | ammonium transporter | — | — |
| Dickeya dadantii 3937 | 0.28 | DDA3937_RS01530 | | RNA polymerase factor sigma-54 | 0.45 | DDA3937_RS05700 | | ammonium transporter AmtB | low | > 74 |
| Enterobacter sp. TBS_079 | 0.28 | MPMX20_04108 | | RNA polymerase sigma-54 factor | 0.50 | MPMX20_01043 | | Ammonia channel | — | — |
| Erwinia tracheiphila SCR3 | 0.27 | LU632_RS21280 | rpoN | RNA polymerase factor sigma-54 | 0.49 | LU632_RS18270 | amtB | ammonium transporter AmtB | — | — |
| Pectobacterium carotovorum WPP14 | 0.27 | HER17_RS20060 | | RNA polymerase factor sigma-54 | 0.51 | HER17_RS15785 | | ammonium transporter AmtB | low | > 75 |
| Rahnella sp. WP5 | 0.27 | EX31_RS12400 | | RNA polymerase factor sigma-54 | 0.52 | EX31_RS22320 | | ammonium transporter AmtB | low | > 89 |
| Dechlorosoma suillum PS | 0.27 | Dsui_0704 | | RNA polymerase sigma-54 factor | 0.52 | Dsui_0763 | | ammonium transporter | low | > 51 |
| Pantoea sp. MT58 | 0.27 | IAI47_17185 | | RNA polymerase factor sigma-54 | 0.49 | IAI47_14580 | | ammonium transporter AmtB | low | > 76 |
| Cupriavidus basilensis FW507-4G11 | 0.27 | RR42_RS02085 | | RNA polymerase subunit sigma-54 | 0.60 | RR42_RS01760 | | ammonia channel protein | 0.30 | 103 |
| Shewanella amazonensis SB2B | 0.27 | Sama_3088 | | RNA polymerase factor sigma-54 (RefSeq) | 0.15 | Sama_0651 | | Rh-like protein/ammonium transporter (RefSeq) | low | > 62 |
| Ralstonia sp. UNC404CL21Col | 0.27 | ABZR87_RS07060 | | RNA polymerase factor sigma-54 | 0.62 | ABZR87_RS06700 | | ammonium transporter | 0.34 | 68 |
| Shewanella oneidensis MR-1 | 0.27 | SO3961 | rpoN | RNA polymerase sigma-54 factor (NCBI ptt file) | 0.17 | SO0760 | amt | ammonium transporter (NCBI ptt file) | low | > 76 |
| Shewanella sp. ANA-3 | 0.27 | Shewana3_0672 | | RNA polymerase factor sigma-54 (RefSeq) | 0.44 | Shewana3_0778 | | ammonium transporter (RefSeq) | low | > 73 |
| Serratia liquefaciens MT49 | 0.26 | IAI46_22470 | | RNA polymerase factor sigma-54 | 0.52 | IAI46_05085 | | ammonium transporter AmtB | — | — |
| Vibrio cholerae E7946 ATCC 55056 | 0.26 | CSW01_12815 | | RNA polymerase sigma-54 factor | 0.14 | CSW01_03200 | | ammonium transporter | low | > 62 |
| Dyella japonica UNC79MFTsu3.2 | 0.26 | ABZR86_RS19815 | | RNA polymerase factor sigma-54 | 0.51 | ABZR86_RS09495 | | ammonium transporter | 0.57 | 37 |
| Shewanella loihica PV-4 | 0.26 | Shew_3311 | | RNA polymerase factor sigma-54 (RefSeq) | 0.16 | Shew_0847 | | Rh family protein/ammonium transporter (RefSeq) | low | > 60 |
| Herbaspirillum seropedicae SmR1 | 0.26 | HSERO_RS19855 | | RNA polymerase subunit sigma-54 | 0.60 | HSERO_RS00425 | | ammonia channel protein | — | — |
| Desulfovibrio vulgaris Miyazaki F | 0.26 | DvMF_0427 | | RNA polymerase, sigma 54 subunit, RpoN (RefSeq) | 0.40 | DvMF_0866 | | ammonium transporter (RefSeq) | — | — |
| Desulfovibrio vulgaris Hildenborough JW710 | 0.26 | DVU1628 | rpoN | RNA polymerase sigma-54 factor (TIGR) | 0.42 | DVU1231 | amt | ammonium transporter (TIGR) | — | — |
| Rhodanobacter denitrificans FW104-10B01 | 0.26 | LRK54_RS12875 | | RNA polymerase factor sigma-54 | 0.54 | LRK54_RS08110 | | ammonium transporter | low | > 59 |
| Rhodanobacter denitrificans MT42 | 0.26 | LRK55_RS12575 | | RNA polymerase factor sigma-54 | 0.54 | LRK55_RS07860 | | ammonium transporter | low | > 63 |
| Ralstonia solanacearum GMI1000 | 0.26 | RS_RS02020 | | RNA polymerase sigma-54 factor | 0.62 | RS_RS01690 | | ammonium transporter | low | > 80 |
| Rhodanobacter sp. FW510-T8 | 0.25 | OKGIIK_02265 | | RNA polymerase factor sigma-54 | 0.54 | OKGIIK_14925 | | Ammonium transporter | low | > 52 |
| Ralstonia solanacearum PSI07 | 0.25 | RPSI07_RS22130 | | RNA polymerase factor sigma-54 | 0.62 | RPSI07_RS22460 | | ammonia channel protein | low | > 81 |
| Ralstonia solanacearum IBSBF1503 | 0.25 | RALBFv3_RS11170 | | RNA polymerase sigma-54 factor | 0.62 | RALBFv3_RS10850 | | ammonia channel protein | low | > 76 |
| Ralstonia solanacearum UW163 | 0.25 | UW163_RS02410 | | RNA polymerase sigma-54 factor | 0.62 | UW163_RS02730 | | ammonia channel protein | — | — |
| Acidovorax sp. GW101-3H11 | 0.24 | Ac3H11_727 | | RNA polymerase sigma-54 factor RpoN | 0.55 | Ac3H11_3401 | | Ammonium transporter | low | > 79 |
| Variovorax sp. OAS795 | 0.24 | ABID97_RS04780 | | RNA polymerase factor sigma-54 | 0.53 | ABID97_RS03635 | | ammonium transporter | — | — |
| Lysobacter sp. OAE881 | 0.24 | ABIE51_RS15955 | | RNA polymerase factor sigma-54 | 0.52 | ABIE51_RS01435 | | ammonium transporter | low | > 62 |
| Hydrogenophaga sp. GW460-11-11-14-LB1 | 0.23 | GFF3068 | | RNA polymerase sigma-54 factor RpoN | 0.52 | GFF1922 | | Ammonium transporter | low | > 90 |
| Acinetobacter radioresistens SK82 | 0.23 | MPMX26_02592 | | RNA polymerase sigma-54 factor | 0.45 | MPMX26_00150 | | Ammonia channel | 0.71 | 13 |
| Variovorax sp. SCN45 | 0.23 | GFF6290 | | RNA polymerase sigma-54 factor RpoN | 0.55 | GFF5119 | | Ammonium transporter | low | > 127 |
| Xanthomonas campestris pv. campestris strain 8004 | 0.23 | Xcc-8004.1662.1 | | RNA polymerase sigma-54 factor RpoN | 0.58 | Xcc-8004.249.1 | | Ammonium transporter | low | > 74 |
| Echinicola vietnamensis KMM 6221, DSM 17526 | 0.20 | Echvi_0071 | | RNA polymerase sigma-54 factor | 0.30 | Echvi_3535 | | ammonium transporter | — | — |
| Castellaniella sp019104865 MT123 | 0.20 | ABCV34_RS12430 | | RNA polymerase factor sigma-54 | 0.42 | ABCV34_RS04770 | | ammonium transporter | low | > 48 |
| Mucilaginibacter yixingensis YX-36 DSM 26809 | 0.19 | ABZR88_RS14570 | | RNA polymerase factor sigma-54 | 0.32 | ABZR88_RS18240 | | ammonium transporter | — | — |
| Pedobacter sp. GW460-11-11-14-LB5 | 0.19 | CA265_RS11005 | | RNA polymerase sigma-54 factor | 0.33 | CA265_RS14975 | | ammonia channel protein | — | — |
| Pontibacter actiniarum KMM 6156, DSM 19842 | 0.19 | CA264_18070 | | RNA polymerase sigma-54 factor | 0.30 | CA264_09145 | | ammonia channel protein | — | — |
| Bacteroides stercoris CC31F | 0.17 | HMPREF1181_RS00925 | | RNA polymerase factor sigma-54 | 0.23 | HMPREF1181_RS16015 | | ammonium transporter | — | — |
| Bacteroides ovatus ATCC 8483 | 0.16 | BACOVA_01616 | | RNA polymerase sigma-54 factor | 0.46 | BACOVA_03766 | | ammonium transporter | — | — |
| Phocaeicola dorei CL03T12C01 | 0.16 | ABI39_RS04230 | | RNA polymerase factor sigma-54 | 0.24 | ABI39_RS14275 | | ammonium transporter | low | > 72 |
| Bacteroides thetaiotaomicron VPI-5482 | 0.16 | BT2521 | | RNA polymerase sigma-54 (NCBI ptt file) | 0.23 | BT0544 | | ammonium transporter (NCBI ptt file) | — | — |
| Phocaeicola vulgatus CL09T03C04 | 0.16 | HMPREF1058_RS12505 | | RNA polymerase factor sigma-54 | 0.25 | HMPREF1058_RS06895 | | ammonium transporter | low | > 67 |
Not shown: 6 genomes with orthologs for Atu0332 only; 7 genomes with orthologs for Atu2758 only