Table 7.
The nap operon gene content and organization in bacteria
| Quinone oxidase | nap Operon | Phylogenic class | Organism |
|---|---|---|---|
| H | AGHBF_LD | ε | Sulfurovum sp. Autotrophic |
| AGHBFLD | Aquificae | Hydrogenivirga sp. 128-5-R1-1 | |
| Persephonella marina EX-H1 | |||
| Sulfurihydrogenibium sp. YO3AOP1 | |||
| Deinococci | Oceanithermus profundus DSM 14977 | ||
| ε | Arcobacter (butzleri RM4018 and Nitrofigilis) Campylobacter species | ||
| (concisis, curvis, hominis, fetus) | |||
| Helicobacter mustelae 1219 | |||
| Nautilla profundicola | |||
| Sulfuricurvum kujiensedum | |||
| Sulfurospirillum (barnesii and deleyianum) | |||
| Wolinella succinogenes | |||
| AGHBFLDS | ε | Nitratiruptor sp. SB155-2 | |
| Caminibacter mediatlanticus | |||
| AGHBFLSD | ε | Thiomicrospira (formerly Sulfurimonas) denitrificans DSM 125 | |
| AGHBLD | ε | Campylobacter (lari, coli, jejuni (8 strains), upsalensis) Helicobacter hepaticus | |
| DAGHB | β. | Burkholderiales bacterium 1_1_47 | |
| γ | Shewanella amazonensis SB2B*, halifaxensis HAW-EB4, loihica PV-4*, oneidensis MR-1, | ||
| pealeana ATCC 700345*, sediminis HAW-EB3*, sp. ANA-3*, MR-4*, MR-7, W3-18-1* | |||
| DAGHB_F< | β | Candidatus Accumulibacter phophatis | |
| DAGHF | δ | Geobacter lovleyi | |
| DGBAH:G | Clostridia | Desulfitobacterium hafniense strains (2 DCB-2 & 2 DCB-1) | |
| FDAGHB | α | Magnetospirillum magnetotacticum AMB-1 | |
| GBAH:G | Clostridia | Desulfitobacterium hafniense Y51 | |
| MADGH | Chrysiogenetes | Desulfurispirillum indicum | |
| Deferribacteres | Calditerrivibrio nitroreducens | ||
| Deferribacter desulfuricans | |||
| Denitrovibrio acetiphilus | |||
| C | ABC | γ | Photobacterium (damselae CIP 102761 and profundum SS9*) |
| AC | Sphingobacteria | Rhodothermus marinus | |
| CDAG | Clostridia | Symbiobacterium thermophilum | |
| DABC | β | Dechloromonas aromatica RCB | |
| γ | Hahella chejuensis KCTC 2396 | ||
| Photobacterium sp. SKA34* | |||
| Shewanella (piezotolerans WP3*, sediminis HAW-EB3*, violacea DSS12) | |||
| Vibrio vulnificus CMCP6 | |||
| DABCF | Flavobacteria | Maribacter Sp. HTCC2170 | |
| EABC | γ | Photobacterium profundum 3TCK* | |
| EDABC | α | Afipia sp. 1NLS | |
| Azospirillum sp. B510 | |||
| Bradyrhizobium japonicum USDA 110 | |||
| Bradyrhizobium sp. BTAi1 | |||
| Bradyrhizobium sp. ORS278 | |||
| Methylobacterium sp. 4-46 | |||
| Paracoccus (denitrificans PD1222 and pantatrophus) Rhodopseudomonas palustris BisB18 | |||
| β | Achromobacter xylosoxidans A8 | ||
| Azoarcus sp. BH72* | |||
| Burkholderia xenovorans LB400 | |||
| Comamonas testosteroni CNB-2 | |||
| Cupriavidus metallidurans CH34, taiwanensis LMG 19424 and necator | |||
| (formerly Ralstonia eutropha H1 6) | |||
| Ralstonia (eutropha JMP134 and pickettii strains 12D & 12J) | |||
| γ | Marine γ proteobacterium HTCC2148 | ||
| Pseudomonas (mendocina ymp, and stutzeri A1501) | |||
| Saccharophagus degradans 2-40 | |||
| Shewanella amazonensis SB2B*, baltica OS155, baltica OS185*, baltica OS195*, | |||
| baltica OS223, denitrificans OS217, frigidimarina NCIMB 40, loihica PV-4*, | |||
| pealeana ATCC 700345*, ANA-3*, MR-4*, W3-18-1*, woodyi ATCC 51908* | |||
| EFDABC | α | Agrobacterium tumefaciens str. C58 | |
| Pseudomonas sp. G-179 | |||
| Rhizobium leguminosarum bv. trifolii WSM2304 | |||
| Rhodobacterales bacterium Y4I | |||
| Rhodospirillum centenum SW | |||
| Sinorhizobium (fredii NGR234, medicae WSM419, meliloti 1021) | |||
| Starkeya novella | |||
| γ | Colwellia psychrerythraea 34H | ||
| Pseudomonas aeruginosa (strains LESB58, UCBPP-PA14, PAO1 & PA7) | |||
| Reinekea sp. MED297 | |||
| FDABC | γ | Pantoea sp. At-9b, Photobacterium (angustum S14, profundum strains (3TCK* & SS9*)) | |
| Psychromonas ingrahamii 37 | |||
| Serratia odorifera 4Rx13, proteamaculans 568, Vibrio (cholerae str. N16961, | |||
| harveyi ATCC BAA-1116,fischeri strains (ES114, MJ11), parahemeolyticus | |||
| RIMD 2210633, vulnificus YJ016) | |||
| Yersinia (pestis (5 strains), enterocolitica) | |||
| FDABC_ABC | γ | Moritella sp. PE36 | |
| KEFDABC | α | Rhodobacter sphaeroides strains (2.4.1 & ATCC 17025*) | |
| HC | CMADGH | Aquificae | Thermovibrio ammonificans |
| δ | Desulfovibrio desulfuricans strain 27774 | ||
| Desulfovibrio sp. 3 1 syn3 | |||
| DAGHBC | β | Leptothrix cholodnii | |
| γ | Aggregatibacter aphrophilus | ||
| Citrobacter (koseri and rodentium) | |||
| Escherichia coli IAI3 | |||
| Salmonella typhimurium | |||
| Shigella flexneri (2 strains) | |||
| FDABGHBC | α | Rhodobacter sphaeroides ATCC 17025 | |
| FDAGHBC | α | Dinoroseobacter shibae DFL 12 | |
| Laribacter hongkongensis | |||
| β | Azoarcus sp. BH72* | ||
| Thauera sp. MZ1T | |||
| γ | Aeromonas hydrophila | ||
| Edwardsiella (ictaluri, tarda) | |||
| Escherichia coli (16 strains), Grimontia hollisae CIP 101886 | |||
| Haemophilus influenza | |||
| Pectobacterium (atrosepticum, carotovorum (2 strains), wasabiae) | |||
| Providencia (alcalifaciens, rettgeri, rustigiianii, stuartii) | |||
| Salmonella enterica | |||
| Serratia odorifera DSM 4582 | |||
| Shigella (boydii (2 strains) and dysenteriae) | |||
| NA | A | γ | Photobacterium sp. SKA34* |
| ε | Helicobacter felis | ||
| AB | δ | Sorangium cellulosum | |
| DAB | γ | Shewanella (baltica OS185*, baltica OS195*, Piezotolerans WP3*, woodyi ATCC 51908*) | |
| MA | δ | Anaeromyxobacter sp. K and dehalogenans strains (2CP-1 & 2CP-C) |
The nap operons categorized into four groups based on the presence or absence of a membrane quinone oxidase (napC or napH). The gene order in each organisms nap operon was provided by the NCBI gene and phenotype mapping database (http://www.ncbi.nlm.nih.gov/gene), and in a few cases the JGI database (http://img.jgi.doe.gov). The identity of each translated Nap protein was confirmed by performing NCBI database blast searches. In each operon the nap genes are listed by the order in which they are found. Organisms that encode two separate nap operons are shown with asterisks (*); fused operons with a colon (:), underscore indicates a gap, and gene encoded on the complementary strand is indicated with an arrow (<). Proteobacteria are denoted as α, β, γ δ, ε.