Gracilibacillus dipsosauri DD1 is an obligate aerobe, chemoorganotroph, spore-forming prokaryote that forms circular colonies and was isolated from salt glands of nasal cavity of Dipsosaurus dorsalis .
spore-forming Gram-positive motile colony-forming obligate aerobe chemoorganotroph mesophilic genome sequence 16S sequence| @ref 20215 |
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| Domain Bacteria |
| Phylum Bacillota |
| Class Bacilli |
| Order Caryophanales |
| Family Bacillaceae |
| Genus Gracilibacillus |
| Species Gracilibacillus dipsosauri |
| Full scientific name Gracilibacillus dipsosauri (Lawson et al. 1996) Wainø et al. 1999 |
| Synonyms (1) |
| @ref | Name | Growth | Medium link | Composition | |
|---|---|---|---|---|---|
| 4217 | TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) | Medium recipe at MediaDive | Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535; with strain-specific modifications) Composition: Soil extract 500.0 g/l Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water | ||
| 4217 | 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 | ||
| 36591 | MEDIUM 72- for trypto casein soja agar | Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g) | |||
| 118943 | CIP Medium 72 | Medium recipe at CIP |
| @ref | Ability | Type | PH | |
|---|---|---|---|---|
| 118943 | positive | growth | 6 |
| 118943 | Oxygen toleranceobligate aerobe |
| 23041 | Typechemoorganotroph |
| @ref | Murein short key | Type | |
|---|---|---|---|
| 23041 | A31 | A1gamma m-Dpm-direct |
| @ref | Chebi-ID | Metabolite | Utilization activity | Kind of utilization tested | |
|---|---|---|---|---|---|
| 23041 | casein | - | hydrolysis | ||
| 118943 | 16947 ChEBI | citrate | - | carbon source | |
| 23041 | 4853 ChEBI | esculin | + | hydrolysis | |
| 118943 | 4853 ChEBI | esculin | + | hydrolysis | |
| 23041 | 5291 ChEBI | gelatin | + | hydrolysis | |
| 23041 | 17234 ChEBI | glucose | + | growth | |
| 23041 | 29864 ChEBI | mannitol | + | growth | |
| 23041 | 17632 ChEBI | nitrate | + | reduction | |
| 118943 | 17632 ChEBI | nitrate | + | reduction | |
| 118943 | 17632 ChEBI | nitrate | - | respiration | |
| 118943 | 16301 ChEBI | nitrite | - | reduction | |
| 23041 | 28017 ChEBI | starch | + | hydrolysis | |
| 23041 | 17992 ChEBI | sucrose | + | growth | |
| 23041 | yeast extract | + | required for growth |
| @ref | Value | Activity | Ec | |
|---|---|---|---|---|
| 68382 | acid phosphatase | - | 3.1.3.2 | from API zym |
| 118943 | 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 |
| 118943 | amylase | + | ||
| 23041 | arginine dihydrolase | - | 3.5.3.6 | |
| 23041 | beta-galactosidase | + | 3.2.1.23 | |
| 68382 | beta-galactosidase | + | 3.2.1.23 | from API zym |
| 118943 | 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 |
| 118943 | caseinase | - | 3.4.21.50 | |
| 23041 | catalase | + | 1.11.1.6 | |
| 118943 | catalase | + | 1.11.1.6 | |
| 68382 | cystine arylamidase | - | 3.4.11.3 | from API zym |
| 23041 | cytochrome oxidase | + | 1.9.3.1 | |
| 118943 | DNase | - | ||
| 68382 | esterase (C 4) | + | from API zym | |
| 68382 | esterase lipase (C 8) | + | from API zym | |
| 118943 | gamma-glutamyltransferase | - | 2.3.2.2 | |
| 118943 | gelatinase | - | ||
| 68382 | leucine arylamidase | - | 3.4.11.1 | from API zym |
| 68382 | lipase (C 14) | - | from API zym | |
| 23041 | lysine decarboxylase | - | 4.1.1.18 | |
| 118943 | 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 | |
| 23041 | ornithine decarboxylase | - | 4.1.1.17 | |
| 118943 | ornithine decarboxylase | - | 4.1.1.17 | |
| 118943 | oxidase | - | ||
| 68382 | trypsin | - | 3.4.21.4 | from API zym |
| 118943 | tween esterase | - | ||
| 118943 | urease | - | 3.5.1.5 | |
| 68382 | valine arylamidase | - | from API zym |
| @ref | pathway | enzyme coverage | annotated reactions | external links | |
|---|---|---|---|---|---|
| 66794 | cellulose degradation | 100 | 5 of 5 | ||
| 66794 | pentose phosphate pathway | 100 | 11 of 11 | ||
| 66794 | CMP-KDO biosynthesis | 100 | 4 of 4 | ||
| 66794 | adipate degradation | 100 | 2 of 2 | ||
| 66794 | aspartate and asparagine metabolism | 100 | 9 of 9 | ||
| 66794 | enterobactin biosynthesis | 100 | 3 of 3 | ||
| 66794 | acetate fermentation | 100 | 4 of 4 | ||
| 66794 | ppGpp biosynthesis | 100 | 4 of 4 | ||
| 66794 | valine metabolism | 100 | 9 of 9 | ||
| 66794 | lipoate biosynthesis | 100 | 5 of 5 | ||
| 66794 | metabolism of amino sugars and derivatives | 100 | 5 of 5 | ||
| 66794 | chorismate metabolism | 100 | 9 of 9 | ||
| 66794 | ribulose monophosphate pathway | 100 | 2 of 2 | ||
| 66794 | anapleurotic synthesis of oxalacetate | 100 | 1 of 1 | ||
| 66794 | aerobactin biosynthesis | 100 | 1 of 1 | ||
| 66794 | tetrahydrofolate metabolism | 100 | 14 of 14 | ||
| 66794 | folate polyglutamylation | 100 | 1 of 1 | ||
| 66794 | starch degradation | 100 | 10 of 10 | ||
| 66794 | suberin monomers biosynthesis | 100 | 2 of 2 | ||
| 66794 | UDP-GlcNAc biosynthesis | 100 | 3 of 3 | ||
| 66794 | CDP-diacylglycerol biosynthesis | 100 | 2 of 2 | ||
| 66794 | coenzyme A metabolism | 100 | 4 of 4 | ||
| 66794 | formaldehyde oxidation | 100 | 3 of 3 | ||
| 66794 | vitamin K metabolism | 100 | 5 of 5 | ||
| 66794 | palmitate biosynthesis | 95.45 | 21 of 22 | ||
| 66794 | photosynthesis | 92.86 | 13 of 14 | ||
| 66794 | vitamin B1 metabolism | 92.31 | 12 of 13 | ||
| 66794 | threonine metabolism | 90 | 9 of 10 | ||
| 66794 | degradation of sugar alcohols | 87.5 | 14 of 16 | ||
| 66794 | pyrimidine metabolism | 86.67 | 39 of 45 | ||
| 66794 | reductive acetyl coenzyme A pathway | 85.71 | 6 of 7 | ||
| 66794 | glycogen metabolism | 80 | 4 of 5 | ||
| 66794 | 3-chlorocatechol degradation | 80 | 4 of 5 | ||
| 66794 | peptidoglycan biosynthesis | 80 | 12 of 15 | ||
| 66794 | Entner Doudoroff pathway | 80 | 8 of 10 | ||
| 66794 | flavin biosynthesis | 80 | 12 of 15 | ||
| 66794 | purine metabolism | 78.72 | 74 of 94 | ||
| 66794 | heme metabolism | 78.57 | 11 of 14 | ||
| 66794 | molybdenum cofactor biosynthesis | 77.78 | 7 of 9 | ||
| 66794 | CO2 fixation in Crenarchaeota | 77.78 | 7 of 9 | ||
| 66794 | d-mannose degradation | 77.78 | 7 of 9 | ||
| 66794 | degradation of hexoses | 77.78 | 14 of 18 | ||
| 66794 | phenylalanine metabolism | 76.92 | 10 of 13 | ||
| 66794 | butanoate fermentation | 75 | 3 of 4 | ||
| 66794 | C4 and CAM-carbon fixation | 75 | 6 of 8 | ||
| 66794 | ketogluconate metabolism | 75 | 6 of 8 | ||
| 66794 | isoleucine metabolism | 75 | 6 of 8 | ||
| 66794 | glycogen biosynthesis | 75 | 3 of 4 | ||
| 66794 | lactate fermentation | 75 | 3 of 4 | ||
| 66794 | gluconeogenesis | 75 | 6 of 8 | ||
| 66794 | degradation of pentoses | 75 | 21 of 28 | ||
| 66794 | sulfopterin metabolism | 75 | 3 of 4 | ||
| 66794 | vitamin B6 metabolism | 72.73 | 8 of 11 | ||
| 66794 | NAD metabolism | 72.22 | 13 of 18 | ||
| 66794 | degradation of sugar acids | 72 | 18 of 25 | ||
| 66794 | ubiquinone biosynthesis | 71.43 | 5 of 7 | ||
| 66794 | cardiolipin biosynthesis | 71.43 | 5 of 7 | ||
| 66794 | propanol degradation | 71.43 | 5 of 7 | ||
| 66794 | glutamate and glutamine metabolism | 71.43 | 20 of 28 | ||
| 66794 | non-pathway related | 71.05 | 27 of 38 | ||
| 66794 | glycolysis | 70.59 | 12 of 17 | ||
| 66794 | oxidative phosphorylation | 70.33 | 64 of 91 | ||
| 66794 | methionine metabolism | 69.23 | 18 of 26 | ||
| 66794 | urea cycle | 69.23 | 9 of 13 | ||
| 66794 | octane oxidation | 66.67 | 2 of 3 | ||
| 66794 | cyanate degradation | 66.67 | 2 of 3 | ||
| 66794 | acetyl CoA biosynthesis | 66.67 | 2 of 3 | ||
| 66794 | serine metabolism | 66.67 | 6 of 9 | ||
| 66794 | acetoin degradation | 66.67 | 2 of 3 | ||
| 66794 | glycolate and glyoxylate degradation | 66.67 | 4 of 6 | ||
| 66794 | L-lactaldehyde degradation | 66.67 | 2 of 3 | ||
| 66794 | d-xylose degradation | 63.64 | 7 of 11 | ||
| 66794 | arginine metabolism | 62.5 | 15 of 24 | ||
| 66794 | 6-hydroxymethyl-dihydropterin diphosphate biosynthesis | 62.5 | 5 of 8 | ||
| 66794 | leucine metabolism | 61.54 | 8 of 13 | ||
| 66794 | gallate degradation | 60 | 3 of 5 | ||
| 66794 | factor 420 biosynthesis | 60 | 3 of 5 | ||
| 66794 | hydrogen production | 60 | 3 of 5 | ||
| 66794 | methylglyoxal degradation | 60 | 3 of 5 | ||
| 66794 | glycine betaine biosynthesis | 60 | 3 of 5 | ||
| 66794 | myo-inositol biosynthesis | 60 | 6 of 10 | ||
| 66794 | tryptophan metabolism | 57.89 | 22 of 38 | ||
| 66794 | citric acid cycle | 57.14 | 8 of 14 | ||
| 66794 | alanine metabolism | 55.17 | 16 of 29 | ||
| 66794 | sulfate reduction | 53.85 | 7 of 13 | ||
| 66794 | lipid metabolism | 51.61 | 16 of 31 | ||
| 66794 | cis-vaccenate biosynthesis | 50 | 1 of 2 | ||
| 66794 | kanosamine biosynthesis II | 50 | 1 of 2 | ||
| 66794 | coenzyme M biosynthesis | 50 | 5 of 10 | ||
| 66794 | selenocysteine biosynthesis | 50 | 3 of 6 | ||
| 66794 | degradation of aromatic, nitrogen containing compounds | 50 | 6 of 12 | ||
| 66794 | quinate degradation | 50 | 1 of 2 | ||
| 66794 | cysteine metabolism | 50 | 9 of 18 | ||
| 66794 | ethanol fermentation | 50 | 1 of 2 | ||
| 66794 | isoprenoid biosynthesis | 50 | 13 of 26 | ||
| 66794 | phenylpropanoid biosynthesis | 46.15 | 6 of 13 | ||
| 66794 | metabolism of disaccharids | 45.45 | 5 of 11 | ||
| 66794 | proline metabolism | 45.45 | 5 of 11 | ||
| 66794 | lysine metabolism | 45.24 | 19 of 42 | ||
| 66794 | histidine metabolism | 44.83 | 13 of 29 | ||
| 66794 | nitrate assimilation | 44.44 | 4 of 9 | ||
| 66794 | ascorbate metabolism | 40.91 | 9 of 22 | ||
| 66794 | glycine metabolism | 40 | 4 of 10 | ||
| 66794 | creatinine degradation | 40 | 2 of 5 | ||
| 66794 | propionate fermentation | 40 | 4 of 10 | ||
| 66794 | dTDPLrhamnose biosynthesis | 37.5 | 3 of 8 | ||
| 66794 | polyamine pathway | 34.78 | 8 of 23 | ||
| 66794 | pantothenate biosynthesis | 33.33 | 2 of 6 | ||
| 66794 | sphingosine metabolism | 33.33 | 2 of 6 | ||
| 66794 | IAA biosynthesis | 33.33 | 1 of 3 | ||
| 66794 | 3-phenylpropionate degradation | 33.33 | 5 of 15 | ||
| 66794 | lipid A biosynthesis | 33.33 | 3 of 9 | ||
| 66794 | ginsenoside metabolism | 31.25 | 5 of 16 | ||
| 66794 | androgen and estrogen metabolism | 31.25 | 5 of 16 | ||
| 66794 | glutathione metabolism | 28.57 | 4 of 14 | ||
| 66794 | tyrosine metabolism | 28.57 | 4 of 14 | ||
| 66794 | arachidonic acid metabolism | 27.78 | 5 of 18 | ||
| 66794 | vitamin E metabolism | 25 | 1 of 4 | ||
| 66794 | carnitine metabolism | 25 | 2 of 8 | ||
| 66794 | biotin biosynthesis | 25 | 1 of 4 | ||
| 66794 | cyclohexanol degradation | 25 | 1 of 4 | ||
| 66794 | toluene degradation | 25 | 1 of 4 | ||
| 66794 | phenol degradation | 25 | 5 of 20 | ||
| 66794 | 4-hydroxymandelate degradation | 22.22 | 2 of 9 | ||
| 66794 | vitamin B12 metabolism | 20.59 | 7 of 34 |
| Cat1 | Cat2 | |
|---|---|---|
| #Host | #Reptilia | |
| #Host Body-Site | #Oral cavity and airways | |
| #Condition | #Saline |
Global distribution of 16S sequence X82436 (>99% sequence identity) for Gracilibacillus dipsosauri from Microbeatlas ![]()
| @ref | Description | Assembly level | INSDC accession | BV-BRC accession | NCBI tax ID | Score | |
|---|---|---|---|---|---|---|---|
| 66792 | ASM317689v1 assembly for Gracilibacillus dipsosauri DD1 | scaffold | 178340 | 72.6 |
| @ref | Description | Accession | Length | Database | NCBI tax ID | |
|---|---|---|---|---|---|---|
| 20218 | Gracilibacillus dipsosauri 16S rRNA gene | X82436 | 1459 | 178340 | ||
| 20218 | Gracilibacillus dipsosauri gene for 16S rRNA, partial sequence | AB101591 | 1514 | 178340 | ||
| 20218 | Gracilibacillus dipsosauri isolate Gd3 16S ribosomal RNA gene, partial sequence; 16S-23S internal transcribed spacer, complete sequence; and 23S ribosomal RNA gene, partial sequence | EU723654 | 789 | 178340 | ||
| 20218 | Gracilibacillus dipsosauri isolate Gd5 16S ribosomal RNA gene, partial sequence; 16S-23S internal transcribed spacer, complete sequence; and 23S ribosomal RNA gene, partial sequence | EU723655 | 659 | 178340 | ||
| 20218 | Gracilibacillus dipsosauri isolate Gd6 16S ribosomal RNA gene, partial sequence; 16S-23S internal transcribed spacer, complete sequence; and 23S ribosomal RNA gene, partial sequence | EU723656 | 507 | 178340 |
| 4217 | GC-content (mol%)39.4 |
| @ref | Trait | Model | Prediction | Confidence in % | In training data |
|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positiveⓘ | yes | 81.36 | yes |
| 125438 | anaerobic | anaerobicⓘ | no | 94.91 | yes |
| 125438 | aerobic | aerobicⓘ | yes | 75.01 | yes |
| 125438 | spore-forming | spore-formingⓘ | yes | 92.09 | no |
| 125438 | thermophilic | thermophileⓘ | no | 95.11 | no |
| 125438 | flagellated | motile2+ⓘ | yes | 83.28 | no |
| Topic | Title | Authors | Journal | DOI | Year | |
|---|---|---|---|---|---|---|
| Phylogeny | Gracilibacillus ureilyticus sp. nov., a halotolerant bacterium from a saline-alkaline soil. | Huo YY, Xu XW, Cui HL, Wu M | Int J Syst Evol Microbiol | 10.1099/ijs.0.016808-0 | 2009 |
| #4217 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 11125 |
| #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 ) |
| #23041 | Michael Waino,B. J. Tindall,Peter Schumann,Kjeld Ingvorsen: Gracilibacillus gen. nov., with description of Gracilibacillus halotolerans gen. nov., sp. nov.; transfer of Bacillus dipsosauri to Gracilibacillus dipsosauri comb. nov., and Bacillus salexigens to the genus Salibacillus gen. nov., as Salibacillus salexigens comb. nov.. IJSEM 49: 821 - 831 1999 ( DOI 10.1099/00207713-49-2-821 , PubMed 10319508 ) |
| #36591 | ; 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) . |
| #66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 ) |
| #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 . |
| #118943 | Collection of Institut Pasteur ; Curators of the CIP; CIP 105095 |
| #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 ) |
| #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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