Rheinheimera pacifica DSM 17616 is an aerobe, mesophilic, Gram-negative prokaryote that was isolated from sea-water sample that was obtained from a depth of 5000 m in the northwestern part of the Pacific Ocean.
Gram-negative motile rod-shaped aerobe mesophilic genome sequence 16S sequence| @ref 20215 |
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| Domain Pseudomonadati |
| Phylum Pseudomonadota |
| Class Gammaproteobacteria |
| Order Chromatiales |
| Family Chromatiaceae |
| Genus Rheinheimera |
| Species Rheinheimera pacifica |
| Full scientific name Rheinheimera pacifica Romanenko et al. 2003 |
| @ref | Name | Growth | Medium link | Composition | |
|---|---|---|---|---|---|
| 7089 | NUTRIENT AGAR (DSMZ Medium 1) | Medium recipe at MediaDive | Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water | ||
| 37417 | MEDIUM 72- for trypto casein soja agar | Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g) | |||
| 121499 | CIP Medium 328 | Medium recipe at CIP | |||
| 121499 | CIP Medium 72 | Medium recipe at CIP |
| @ref | Spore formation | Confidence | |
|---|---|---|---|
| 125439 | 98.7 |
| @ref | Chebi-ID | Metabolite | Utilization activity | Kind of utilization tested | |
|---|---|---|---|---|---|
| 68371 | 27613 ChEBI | amygdalin | - | builds acid from | from API 50CH acid |
| 68371 | 18305 ChEBI | arbutin | - | builds acid from | from API 50CH acid |
| 68371 | 17057 ChEBI | cellobiose | - | builds acid from | from API 50CH acid |
| 121499 | 16947 ChEBI | citrate | - | carbon source | |
| 68371 | 17108 ChEBI | D-arabinose | - | builds acid from | from API 50CH acid |
| 68371 | 18333 ChEBI | D-arabitol | - | builds acid from | from API 50CH acid |
| 68371 | 15824 ChEBI | D-fructose | - | builds acid from | from API 50CH acid |
| 68371 | 28847 ChEBI | D-fucose | - | builds acid from | from API 50CH acid |
| 68371 | 12936 ChEBI | D-galactose | - | builds acid from | from API 50CH acid |
| 68371 | 17634 ChEBI | D-glucose | - | builds acid from | from API 50CH acid |
| 68371 | 62318 ChEBI | D-lyxose | - | builds acid from | from API 50CH acid |
| 68371 | 16899 ChEBI | D-mannitol | - | builds acid from | from API 50CH acid |
| 68371 | 16024 ChEBI | D-mannose | - | builds acid from | from API 50CH acid |
| 68371 | 16988 ChEBI | D-ribose | - | builds acid from | from API 50CH acid |
| 68371 | 17924 ChEBI | D-sorbitol | - | builds acid from | from API 50CH acid |
| 68371 | 16443 ChEBI | D-tagatose | - | builds acid from | from API 50CH acid |
| 68371 | 65327 ChEBI | D-xylose | - | builds acid from | from API 50CH acid |
| 68371 | 17113 ChEBI | erythritol | - | builds acid from | from API 50CH acid |
| 121499 | 4853 ChEBI | esculin | + | hydrolysis | |
| 68371 | 4853 ChEBI | esculin | + | builds acid from | from API 50CH acid |
| 68371 | 16813 ChEBI | galactitol | - | builds acid from | from API 50CH acid |
| 68371 | 28066 ChEBI | gentiobiose | - | builds acid from | from API 50CH acid |
| 68371 | 24265 ChEBI | gluconate | - | builds acid from | from API 50CH acid |
| 68371 | 17754 ChEBI | glycerol | - | builds acid from | from API 50CH acid |
| 68371 | 28087 ChEBI | glycogen | - | builds acid from | from API 50CH acid |
| 68371 | 15443 ChEBI | inulin | - | builds acid from | from API 50CH acid |
| 68371 | 30849 ChEBI | L-arabinose | - | builds acid from | from API 50CH acid |
| 68371 | 18403 ChEBI | L-arabitol | - | builds acid from | from API 50CH acid |
| 68371 | 18287 ChEBI | L-fucose | - | builds acid from | from API 50CH acid |
| 68371 | 62345 ChEBI | L-rhamnose | - | builds acid from | from API 50CH acid |
| 68371 | 17266 ChEBI | L-sorbose | - | builds acid from | from API 50CH acid |
| 68371 | 65328 ChEBI | L-xylose | - | builds acid from | from API 50CH acid |
| 68371 | 17716 ChEBI | lactose | - | builds acid from | from API 50CH acid |
| 68371 | 17306 ChEBI | maltose | - | builds acid from | from API 50CH acid |
| 68371 | 6731 ChEBI | melezitose | - | builds acid from | from API 50CH acid |
| 68371 | 28053 ChEBI | melibiose | - | builds acid from | from API 50CH acid |
| 68371 | 320061 ChEBI | methyl alpha-D-glucopyranoside | - | builds acid from | from API 50CH acid |
| 68371 | 43943 ChEBI | methyl alpha-D-mannoside | - | builds acid from | from API 50CH acid |
| 68371 | 74863 ChEBI | methyl beta-D-xylopyranoside | - | builds acid from | from API 50CH acid |
| 68371 | 17268 ChEBI | myo-inositol | - | builds acid from | from API 50CH acid |
| 68371 | 59640 ChEBI | N-acetylglucosamine | - | builds acid from | from API 50CH acid |
| 121499 | 17632 ChEBI | nitrate | - | reduction | |
| 121499 | 17632 ChEBI | nitrate | - | respiration | |
| 121499 | 16301 ChEBI | nitrite | - | reduction | |
| 68371 | Potassium 2-ketogluconate | - | builds acid from | from API 50CH acid | |
| 68371 | Potassium 5-ketogluconate | - | builds acid from | from API 50CH acid | |
| 68371 | 16634 ChEBI | raffinose | - | builds acid from | from API 50CH acid |
| 68371 | 15963 ChEBI | ribitol | - | builds acid from | from API 50CH acid |
| 68371 | 17814 ChEBI | salicin | - | builds acid from | from API 50CH acid |
| 68371 | 28017 ChEBI | starch | - | builds acid from | from API 50CH acid |
| 68371 | 17992 ChEBI | sucrose | - | builds acid from | from API 50CH acid |
| 68371 | 27082 ChEBI | trehalose | - | builds acid from | from API 50CH acid |
| 68371 | 32528 ChEBI | turanose | - | builds acid from | from API 50CH acid |
| 68371 | 17151 ChEBI | xylitol | - | builds acid from | from API 50CH acid |
| @ref | Metabolite | Is antibiotic | Is sensitive | Is resistant | |
|---|---|---|---|---|---|
| 121499 | 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate) |
| @ref | Value | Activity | Ec | |
|---|---|---|---|---|
| 68382 | acid phosphatase | - | 3.1.3.2 | from API zym |
| 121499 | alcohol dehydrogenase | + | 1.1.1.1 | |
| 68382 | alkaline phosphatase | + | 3.1.3.1 | from API zym |
| 68382 | alpha-chymotrypsin | + | 3.4.21.1 | from API zym |
| 68382 | alpha-fucosidase | - | 3.2.1.51 | from API zym |
| 68382 | alpha-galactosidase | - | 3.2.1.22 | from API zym |
| 68382 | alpha-glucosidase | - | 3.2.1.20 | from API zym |
| 68382 | alpha-mannosidase | - | 3.2.1.24 | from API zym |
| 121499 | amylase | + | ||
| 68382 | beta-galactosidase | - | 3.2.1.23 | from API zym |
| 121499 | beta-galactosidase | + | 3.2.1.23 | |
| 68382 | beta-glucosidase | - | 3.2.1.21 | from API zym |
| 68382 | beta-glucuronidase | - | 3.2.1.31 | from API zym |
| 121499 | caseinase | + | 3.4.21.50 | |
| 121499 | catalase | - | 1.11.1.6 | |
| 68382 | cystine arylamidase | - | 3.4.11.3 | from API zym |
| 121499 | DNase | + | ||
| 68382 | esterase (C 4) | + | from API zym | |
| 68382 | esterase lipase (C 8) | + | from API zym | |
| 121499 | gelatinase | +/- | ||
| 121499 | lecithinase | - | ||
| 68382 | leucine arylamidase | + | 3.4.11.1 | from API zym |
| 121499 | lipase | - | ||
| 68382 | lipase (C 14) | - | from API zym | |
| 121499 | lysine decarboxylase | - | 4.1.1.18 | |
| 68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 | from API zym |
| 68382 | naphthol-AS-BI-phosphohydrolase | + | from API zym | |
| 121499 | ornithine decarboxylase | - | 4.1.1.17 | |
| 121499 | oxidase | + | ||
| 121499 | phenylalanine ammonia-lyase | - | 4.3.1.24 | |
| 68382 | trypsin | + | 3.4.21.4 | from API zym |
| 121499 | tryptophan deaminase | - | ||
| 121499 | tween esterase | - | ||
| 121499 | urease | - | 3.5.1.5 | |
| 68382 | valine arylamidase | + | from API zym |
| @ref | ControlQ | GLY | ERY | DARA | LARA | RIB | DXYL | LXYL | ADO | MDX | GAL | GLU | FRU | MNE | SBE | RHA | DUL | INO | MAN | SOR | MDM | MDG | NAG | AMY | ARB | ESC | SAL | CEL | MAL | LAC | MEL | SAC | TRE | INU | MLZ | RAF | AMD | GLYG | XLT | GEN | TUR | LYX | TAG | DFUC | LFUC | DARL | LARL | GNT | 2KG | 5KG | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 121499 | not determinedn.d. | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
| @ref | Description | Assembly level | INSDC accession | BV-BRC accession | IMG accession | NCBI tax ID | Score | |
|---|---|---|---|---|---|---|---|---|
| 67770 | IMG-taxon 2599185208 annotated assembly for Rheinheimera pacifica DSM 17616 | scaffold | 173990 | 67.64 |
| @ref | Description | Accession | Length | Database | NCBI tax ID | |
|---|---|---|---|---|---|---|
| 20218 | Rheinheimera pacifica gene for 16S rRNA, partial sequence, strain: NBRC 103167 | AB681974 | 1450 | 173990 | ||
| 7089 | Rheinheimera pacifica gene for 16S rRNA, partial sequence | AB073132 | 1402 | 173990 | ||
| 124043 | Rheinheimera pacifica strain KMM 1406 16S ribosomal RNA gene, partial sequence. | MW111160 | 599 | 173990 |
| @ref | Trait | Model | Prediction | Confidence in % | In training data |
|---|---|---|---|---|---|
| 125439 | spore_formation | BacteriaNetⓘ | no | 98.70 | no |
| 125439 | motility | BacteriaNetⓘ | yes | 86.60 | no |
| 125439 | gram_stain | BacteriaNetⓘ | negative | 99.20 | no |
| 125439 | oxygen_tolerance | BacteriaNetⓘ | obligate aerobe | 97.60 | no |
| @ref | Trait | Model | Prediction | Confidence in % | In training data |
|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positiveⓘ | no | 99.50 | no |
| 125438 | anaerobic | anaerobicⓘ | no | 93.77 | yes |
| 125438 | spore-forming | spore-formingⓘ | no | 86.86 | no |
| 125438 | aerobic | aerobicⓘ | yes | 69.98 | yes |
| 125438 | thermophilic | thermophileⓘ | no | 98.36 | yes |
| 125438 | flagellated | motile2+ⓘ | yes | 86.41 | no |
| Title | Authors | Journal | DOI | Year | |
|---|---|---|---|---|---|
| Disassembly activates Retron-Septu for antiphage defense. | Wang C, Rish AD, Armbruster EG, Xie J, Loveland AB, Shen Z, Gu B, Korostelev AA, Pogliano J, Fu TM. | Science | 10.1126/science.adv3344 | 2025 | |
| Co-occurrence of enzyme domains guides the discovery of an oxazolone synthetase. | de Rond T, Asay JE, Moore BS. | Nat Chem Biol | 10.1038/s41589-021-00808-4 | 2021 | |
| Study of Bacterial Community Composition and Correlation of Environmental Variables in Rambla Salada, a Hypersaline Environment in South-Eastern Spain. | Oueriaghli N, Castro DJ, Llamas I, Bejar V, Martinez-Checa F. | Front Microbiol | 10.3389/fmicb.2018.01377 | 2018 | |
| Rheinheimera oceanensis sp. nov., a novel member of the genus Rheinheimera, isolated from the West Pacific Ocean. | Ren WT, Guo LL, Bu YX, Han CH, Zhou P, Wu YH. | Int J Syst Evol Microbiol | 10.1099/ijsem.0.006054 | 2023 | |
| Rheinheimera maricola sp. nov., isolated from seawater of the Yellow Sea. | Kim KH, Baek JH, Wenting R, Jeon CO | Int J Syst Evol Microbiol | 10.1099/ijsem.0.005423 | 2022 | |
| Rheinheimera lutimaris sp. nov., a marine bacterium isolated from coastal sediment. | Yu Q, Qi Y, Pu J | Int J Syst Evol Microbiol | 10.1099/ijsem.0.005143 | 2021 | |
| Rheinheimera salexigens sp. nov., isolated from a fishing hook, and emended description of the genus Rheinheimera. | Hayashi K, Busse HJ, Golke J, Anderson J, Wan X, Hou S, Chain PSG, Prescott RD, Donachie SP | Int J Syst Evol Microbiol | 10.1099/ijsem.0.002412 | 2017 | |
| Rheinheimera aestuari sp. nov., a marine bacterium isolated from coastal sediment. | Baek K, Jeon CO | Int J Syst Evol Microbiol | 10.1099/ijs.0.000312 | 2015 | |
| Rheinheimera japonica sp. nov., a novel bacterium with antimicrobial activity from seashore sediments of the Sea of Japan. | Romanenko LA, Tanaka N, Svetashev VI, Kalinovskaya NI, Mikhailov VV | Arch Microbiol | 10.1007/s00203-015-1095-2 | 2015 | |
| Rheinheimera hassiensis sp. nov. and Rheinheimera muenzenbergensis sp. nov., two species from the rhizosphere of Hordeum secalinum. | Suarez C, Ratering S, Geissler-Plaum R, Schnell S | Int J Syst Evol Microbiol | 10.1099/ijs.0.061200-0 | 2014 | |
| Rheinheimera tuosuensis sp. nov., isolated from a saline lake. | Zhong ZP, Liu Y, Liu LZ, Wang F, Zhou YG, Liu ZP | Int J Syst Evol Microbiol | 10.1099/ijs.0.056473-0 | 2014 | |
| Rheinheimera longhuensis sp. nov., isolated from a slightly alkaline lake, and emended description of genus Rheinheimera Brettar et al. 2002. | Liu Y, Jiang JT, Xu CJ, Liu YH, Song XF, Li H, Liu ZP | Int J Syst Evol Microbiol | 10.1099/ijs.0.036020-0 | 2012 | |
| Rheinheimera nanhaiensis sp. nov., isolated from marine sediments, and emended description of the genus Rheinheimera Brettar et al. 2002 emend. Merchant et al. 2007. | Li HJ, Zhang XY, Zhang YJ, Zhou MY, Gao ZM, Chen XL, Dang HY, Zhang YZ | Int J Syst Evol Microbiol | 10.1099/ijs.0.019281-0 | 2010 | |
| Rheinheimera chironomi sp. nov., isolated from a chironomid (Diptera; Chironomidae) egg mass. | Halpern M, Senderovich Y, Snir S | Int J Syst Evol Microbiol | 10.1099/ijs.0.64927-0 | 2007 | |
| Rheinheimera pacifica sp. nov., a novel halotolerant bacterium isolated from deep sea water of the Pacific. | Romanenko LA, Uchino M, Falsen E, Zhukova NV, Mikhailov VV, Uchimura T | Int J Syst Evol Microbiol | 10.1099/ijs.0.02252-0 | 2003 |
| #7089 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17616 |
| #20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.: List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 ) |
| #20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 ) |
| #37417 | ; Curators of the CIP; |
| #57258 | Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 46544 |
| #67770 | Japan Collection of Microorganism (JCM) ; Curators of the JCM; |
| #68371 | Automatically annotated from API 50CH acid . |
| #68382 | Automatically annotated from API zym . |
| #121499 | Collection of Institut Pasteur ; Curators of the CIP; CIP 108198 |
| #124043 | Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy . |
| #125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 ) |
| #125439 | Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 . |
| #126262 | A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 ) |
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