Table 2.
Overview of gene inventory involved in nitrogen metabolism, transport and regulation of Bacillus licheniformis
| function | protein | gene | locus_tag (gene coordinates) | ||
|---|---|---|---|---|---|
| LMG 6934 | LMG 7559 | LMG 17339 | |||
| dissimilatory nitrate reduction to nitrite | respiratory nitrate reductase subunit alpha | narG1 | LI6934_10240 (contig17_44191_40505) | LI7559_10220 (contig17_109260_112943) | LI17339_03250 (contig01_602796_599110) |
| narG2 | LI6934_11815 (contig19_3766_7449) | LI7559_18375 (contig29_333921_330235) | - | ||
| respiratory nitrate reductase subunit beta | narH1 | LI6934_10235 (contig17_40515_39046) | LI7559_10225 (contig17_112933_114483) | LI17339_03245 (contig01_599120_597651) | |
| narH2 | LI6934_11820 (contig19_7439_8989) | LI7559_18370 (contig29_330245_328776) | - | ||
| respiratory nitrate reductase subunit delta | narJ1 | LI6934_10230 (contig17_39028_38486) | LI7559_10230 (contig17_114470_115018) | LI17339_03240 (contig01_597632_597090) | |
| narJ2 | LI6934_11825 (contig19_8976_9524) | LI7559_18365 (contig29_328758_328216) | - | ||
| respiratory nitrate reductase subunit gamma | narI1 | LI6934_10225 (contig17_38489_37803) | LI7559_10235 (contig17_115039_115740) | LI17339_03235 (contig01_597093_596407) | |
| narI2 | LI6934_11830 (contig19_9545_10246) | LI7559_18360 (contig29_328219_327533) | - | ||
| assimilatory nitrate/nitrite | assimilatory nitrate reductase large subunit | nasC | LI6934_20135 (contig48_34712_36769) | LI7559_01055 (contig02_88956_91013) | LI17339_17560 (contig10_88671_90728) |
| reduction to ammonium | assimilatory nitrite reductase [NAD(P)H] large subunit | nirB | LI6934_20140 (contig48_36883_39303) | LI7559_01060 (contig02_91127_93547) | LI17339_17565 (contig10_90842_93262) |
| assimilatory nitrite reductase [NAD(P)H] small subunit | nirD | LI6934_20145 (contig48_39334_39654) | LI7559_01065 (contig02_93578_93898) | LI17339_17560 (contig10_93293_93613) | |
| transporters | ammonium transport | amt1 | LI6934_11075 (contig18_87147_88526) | LI7559_21025 (contig40_60895_59966) | LI17339_05915 (contig03_429269_428058) |
| amt2 | LI6934_06945 (contig13_69958_71169) | LI7559_12245 (contig20_86027_87406) | LI17339_15165 (contig06_266544_265900) | ||
| nitrate/nitrite transporter (NarK2-type) | narK1 | LI6934_10275 (contig17_50582_49398) | LI7559_10215 (contig17_107711_109207) | LI17339_03285 (contig01_609186_608002) | |
| narK2 | LI6934_11810 (contig19_2217_3713) | LI7559_18410 (contig29_340309_339125) | LI17339_16960 (contig09_16054_161849) | ||
| narK3 | LI6934_04585 (contig09_42906_44111) | LI7559_1255 (contig21_43506_44711) | - | ||
| formate/nitrite transporter | nirC | LI6934_08170 (contig13_306187_306975) | LI7559_03215 (contig06_176423_177211) | LI17339_04610 (contig03_178114_177326) | |
| NO reduction to N2O | NO reductase large subunit-like protein | qnorB | LI6934_10290 (contig17_51910_54264) | LI7559_18425 (contig29_341636_343990) | LI17339_03300 (contig01_610516_612870) |
| NO reductase activation protein | norD1 | LI6934_02700 (contig04_119995_118082) | LI7559_00105 (contig01_24308_22395) | LI17339_13375 (contig04_735870_736760) | |
| norD2 | LI6934_02705 (contig04_120896_120006) | LI7559_00110 (contig01_25209_24319) | LI17339_13380 (contig04_736770_738683) | ||
| detoxification | flavohemoglobin | hmp1 | pLI6934_11805 (contig19_1907_689) | LI7559_10210 (contig17_107401_106181) | LI17339_14225 (contig06_89281_88067) |
| hmp2 | LI6934_03825 (contig07_12629_11415) | LI7559_14100 (contig23_84124_85338) | - | ||
| NO synthase | nos | LI6934_16440 (contig34_14900_15997) | LI7559_14725 (contig27_17226_16129) | LI17339_20905 (contig20_78781_79878) | |
| regulation | PII-type signal transduction protein | glnK1 | LI6934_11070 (contig18_86749_87090) | LI7559_12240 (contig20_85629_85970) | LI17339_05910 (contig03_428039_427689) |
| glnK2 | LI6934_06950 (contig13_71188_71538) | LI7559_21020 (contig40_59850_59500) | LI17339_15170 (contig06_267014_266677) | ||
| global nitrogen regulator | tnrA | LI6934_15560 (contig31_18775_18443) | LI7559_22170 (contig47_44732_45064) | LI17339_00475 (contig01_88311_87979) | |
| NO-dependent regulator DnrN or NorA | dnrN | LI6934_10295 (contig17_55022_54309) | LI7559_18430 (contig29_344748_344035) | LI17339_03305 (contig01_613628_612915) | |
| Nitrite-sensitive transcriptional repressor of NO stress response | nsrR | LI6934_03830 (contig07_12887_13318) | LI7559_14095 (contig23_83866_83432) | LI17339_14220 (contig06_87809_87378) | |
| Nitrate/nitrite sensor protein | narX1 | LI6934_03855 (contig07_16463_15315) | LI7559_14090 (contig23_83082_83402) | LI17339_14195 (contig06_84234_85382) | |
| Nitrate/nitrite response regulator protein | narL1 | LI6934_03850 (contig07_15327_14677) | LI7559_02755 (contig06_92319_91687) | LI17339_14200 (contig06_85379_86023) | |
| narL2 | LI6934_07715 (contig_13_222155_221523) | LI7559_14070 (contig23_80295_81443) | - | ||
| transcriptional regulator Crp/Fnr | fnr1 | LI6934_10270 (contig17_49251_48538) | LI7559_18405 (contig29_338978_338265) | LI17339_03280 (contig01_607856_607143) | |
| fnr2 | LI6934_10285 (contig17_51086_51754) | LI7559_18420 (contig29_340813_341487) | LI17339_03295 (contig01_609691_610359) | ||