Paenibacillus odorifer TOD45 is a facultative anaerobe, mesophilic, Gram-negative prokaryote that was isolated from wheat roots.
Gram-negative motile rod-shaped facultative anaerobe mesophilic genome sequence 16S sequence| @ref 20215 |
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| Domain Bacillati |
| Phylum Bacillota |
| Class Bacilli |
| Order Caryophanales |
| Family Paenibacillaceae |
| Genus Paenibacillus |
| Species Paenibacillus odorifer |
| Full scientific name Paenibacillus odorifer Berge et al. 2002 |
| BacDive ID | Other strains from Paenibacillus odorifer (1) | Type strain |
|---|---|---|
| 161342 | P. odorifer JCM 13339 |
| @ref | Gram stain | Cell shape | Motility | |
|---|---|---|---|---|
| 121394 | negative | rod-shaped |
| @ref | Name | Growth | Medium link | Composition | |
|---|---|---|---|---|---|
| 5891 | CASO AGAR (MERCK 105458) (DSMZ Medium 220) | Medium recipe at MediaDive | Name: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled water | ||
| 33157 | MEDIUM 72- for trypto casein soja agar | Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g) | |||
| 121394 | CIP Medium 72 | Medium recipe at CIP |
| @ref | Ability | Type | PH | |
|---|---|---|---|---|
| 121394 | positive | growth | 6 |
| @ref | Chebi-ID | Metabolite | Utilization activity | Kind of utilization tested | |
|---|---|---|---|---|---|
| 68371 | 27613 ChEBI | amygdalin | + | builds acid from | from API 50CH acid |
| 68371 | 17057 ChEBI | cellobiose | + | builds acid from | from API 50CH acid |
| 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 | 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 | 17113 ChEBI | erythritol | - | builds acid from | from API 50CH acid |
| 121394 | 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 | 28087 ChEBI | glycogen | + | builds acid from | from API 50CH acid |
| 68371 | 15443 ChEBI | inulin | - | 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 | 28053 ChEBI | melibiose | + | 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 |
| 121394 | 17632 ChEBI | nitrate | + | reduction | |
| 121394 | 17632 ChEBI | nitrate | + | respiration | |
| 121394 | 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 | |
| 121394 | 45285 ChEBI | pyrazinamide | - | hydrolysis | |
| 68371 | 16634 ChEBI | raffinose | + | builds acid from | from API 50CH acid |
| 68371 | 15963 ChEBI | ribitol | - | 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 | Value | Activity | Ec | |
|---|---|---|---|---|
| 68382 | acid phosphatase | - | 3.1.3.2 | from API zym |
| 121394 | 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 |
| 121394 | amylase | + | ||
| 68382 | beta-galactosidase | - | 3.2.1.23 | from API zym |
| 121394 | 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 |
| 121394 | caseinase | - | 3.4.21.50 | |
| 121394 | catalase | + | 1.11.1.6 | |
| 68382 | cystine arylamidase | - | 3.4.11.3 | from API zym |
| 121394 | DNase | + | ||
| 68382 | esterase (C 4) | + | from API zym | |
| 68382 | esterase lipase (C 8) | + | from API zym | |
| 121394 | gamma-glutamyltransferase | - | 2.3.2.2 | |
| 121394 | gelatinase | - | ||
| 121394 | lecithinase | - | ||
| 68382 | leucine arylamidase | + | 3.4.11.1 | from API zym |
| 121394 | lipase | - | ||
| 68382 | lipase (C 14) | - | from API zym | |
| 121394 | 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 | |
| 121394 | ornithine decarboxylase | - | 4.1.1.17 | |
| 121394 | oxidase | - | ||
| 68382 | trypsin | - | 3.4.21.4 | from API zym |
| 121394 | tween esterase | + | ||
| 121394 | 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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 121394 | not determinedn.d. | +/- | - | - | +/- | - | +/- | - | - | + | - | + | + | + | - | - | - | - | +/- | - | - | +/- | +/- | + | +/- | + | +/- | + | - | - | + | + | + | - | +/- | + | + | + | - | + | + | - | - | - | - | - | - | +/- | - | - |
| Cat1 | Cat2 | Cat3 | |
|---|---|---|---|
| #Host | #Plants | #Herbaceous plants (Grass,Crops) | |
| #Host Body-Site | #Plant | #Root (Rhizome) |
Global distribution of 16S sequence AJ223990 (>99% sequence identity) for Paenibacillus from Microbeatlas ![]()
| @ref | Description | Assembly level | INSDC accession | BV-BRC accession | IMG accession | NCBI tax ID | Score | |
|---|---|---|---|---|---|---|---|---|
| 66792 | ASM75872v1 assembly for Paenibacillus odorifer DSM 15391 | complete | 189426 | 98.78 |
| @ref | Trait | Model | Prediction | Confidence in % | In training data |
|---|---|---|---|---|---|
| 125439 | spore_formation | BacteriaNetⓘ | yes | 95.90 | no |
| 125439 | motility | BacteriaNetⓘ | yes | 87.60 | no |
| 125439 | gram_stain | BacteriaNetⓘ | variable | 73.30 | no |
| 125439 | oxygen_tolerance | BacteriaNetⓘ | obligate aerobe | 90.10 | no |
| @ref | Trait | Model | Prediction | Confidence in % | In training data |
|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positiveⓘ | yes | 64.84 | no |
| 125438 | anaerobic | anaerobicⓘ | no | 93.05 | yes |
| 125438 | aerobic | aerobicⓘ | no | 58.35 | yes |
| 125438 | spore-forming | spore-formingⓘ | yes | 92.89 | no |
| 125438 | thermophilic | thermophileⓘ | no | 95.96 | yes |
| 125438 | flagellated | motile2+ⓘ | yes | 85.55 | no |
| Topic | Title | Authors | Journal | DOI | Year | |
|---|---|---|---|---|---|---|
| Harnessing beneficial soil bacteria to promote sustainable agriculture and food security: a one health perspective. | Sabater C, Neacsu M, Duncan SH. | Front Microbiol | 10.3389/fmicb.2025.1638553 | 2025 | ||
| Draft Genome Sequence of Paenibacillus odorifer V, Isolated from the Fecal Material of a Rabbit. | Perez V, Haywood ZR, McLaughlin RW. | Microbiol Resour Announc | 10.1128/mra.00405-22 | 2022 | ||
| Phylogeny | Diversity of Culturable Bacteria Isolated from Highland Barley Cultivation Soil in Qamdo, Tibet Autonomous Region. | Pan HU, Zhou J, Dawa Z, Dai Y, Zhang Y, Yang H, Wang C, Liu H, Zhou H, Lu X, Tian Y. | Pol J Microbiol | 10.33073/pjm-2021-008 | 2021 | |
| Complete Genome Sequence of Paenibacillus strain Y4.12MC10, a Novel Paenibacillus lautus strain Isolated from Obsidian Hot Spring in Yellowstone National Park. | Mead DA, Lucas S, Copeland A, Lapidus A, Cheng JF, Bruce DC, Goodwin LA, Pitluck S, Chertkov O, Zhang X, Detter JC, Han CS, Tapia R, Land M, Hauser LJ, Chang YJ, Kyrpides NC, Ivanova NN, Ovchinnikova G, Woyke T, Brumm C, Hochstein R, Schoenfeld T, Brumm P. | Stand Genomic Sci | 10.4056/sigs.2605792 | 2012 | ||
| Bacterial transfer from Pristionchus entomophagus nematodes to the invasive ant Myrmica rubra and the potential for colony mortality in coastal Maine. | Ishaq SL, Hotopp A, Silverbrand S, Dumont JE, Michaud A, MacRae JD, Stock SP, Groden E. | iScience | 10.1016/j.isci.2021.102663 | 2021 | ||
| Enzymology | Diversity of anaerobic microbes in spacecraft assembly clean rooms. | Probst A, Vaishampayan P, Osman S, Moissl-Eichinger C, Andersen GL, Venkateswaran K. | Appl Environ Microbiol | 10.1128/aem.02167-09 | 2010 | |
| Specificity of the AMP-6000 Method for Enumerating Clostridium Endospores in Milk. | Burtscher J, Rudavsky T, Zitz U, Domig KJ. | Foods | 10.3390/foods13081192 | 2024 | ||
| Metabolism | Paenibacillus taohuashanense sp. nov., a nitrogen-fixing species isolated from rhizosphere soil of the root of Caragana kansuensis Pojark. | Xie JB, Zhang LH, Zhou YG, Liu HC, Chen SF. | Antonie Van Leeuwenhoek | 10.1007/s10482-012-9773-4 | 2012 | |
| Phylogeny | Paenibacillus tianjinensis sp. nov., isolated from corridor air. | Liu H, Lu L, Wang S, Yu M, Cao X, Tang S, Bai H, Ma S, Liu R, Liu R, Jiang X, Yao S, Shao J | Int J Syst Evol Microbiol | 10.1099/ijsem.0.005158 | 2021 | |
| Phylogeny | Paenibacillus bryophyllum sp. nov., a nitrogen-fixing species isolated from Bryophyllum pinnatum. | Liu L, Yuan T, Yang F, Liu Z, Yang M, Peng G, Tan Z | Antonie Van Leeuwenhoek | 10.1007/s10482-018-1117-6 | 2018 | |
| Phylogeny | Paenibacillus albidus sp. nov., isolated from grassland soil. | Zhuang J, Xin D, Zhang YQ, Guo J, Zhang J | Int J Syst Evol Microbiol | 10.1099/ijsem.0.002356 | 2017 | |
| Phylogeny | Paenibacillus etheri sp. nov., able to grow on media supplemented with methyl tert-butyl ether (MTBE) and isolated from hydrocarbon-contaminated soil. | Guisado IM, Purswani J, Gonzalez-Lopez J, Pozo C | Int J Syst Evol Microbiol | 10.1099/ijsem.0.000802 | 2015 | |
| Phylogeny | Paenibacillus riograndensis sp. nov., a nitrogen-fixing species isolated from the rhizosphere of Triticum aestivum. | Beneduzi A, Costa PB, Parma M, Melo IS, Bodanese-Zanettini MH, Passaglia LMP | Int J Syst Evol Microbiol | 10.1099/ijs.0.011973-0 | 2009 | |
| Phylogeny | Paenibacillus graminis sp. nov. and Paenibacillus odorifer sp. nov., isolated from plant roots, soil and food. | Berge O, Guinebretiere MH, Achouak W, Normand P, Heulin T | Int J Syst Evol Microbiol | 10.1099/00207713-52-2-607 | 2002 |
| #5891 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 15391 |
| #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 ) |
| #33157 | ; Curators of the CIP; |
| #66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) . |
| #67770 | Japan Collection of Microorganism (JCM) ; Curators of the JCM; |
| #68371 | Automatically annotated from API 50CH acid . |
| #68382 | Automatically annotated from API zym . |
| #69479 | João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.: MicrobeAtlas 1.0 beta . |
| #121394 | Collection of Institut Pasteur ; Curators of the CIP; CIP 107685 |
| #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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