Strain identifier
BacDive ID: 132257
Type strain:
Species: Ursidibacter maritimus
Strain Designation: PB43106
Strain history: <- M.J. Hansen, Fac. of Health and Med. Scs., Univ. Copenhagen, Frederiksberg, Denmark; PB43106
NCBI tax ID(s): 1331689 (species)
General
@ref: 24046
BacDive-ID: 132257
DSM-Number: 28137
keywords: genome sequence, 16S sequence, Bacteria, microaerophile, mesophilic
description: Ursidibacter maritimus PB43106 is a microaerophile, mesophilic bacterium that was isolated from oral cavity of a healthy wild polar bear.
NCBI tax id
- NCBI tax id: 1331689
- Matching level: species
strain history
- @ref: 24046
- history: <- M.J. Hansen, Fac. of Health and Med. Scs., Univ. Copenhagen, Frederiksberg, Denmark; PB43106
doi: 10.13145/bacdive132257.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Pasteurellales
- family: Pasteurellaceae
- genus: Ursidibacter
- species: Ursidibacter maritimus
- full scientific name: Ursidibacter maritimus Hansen et al. 2015
@ref: 24046
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Pasteurellales
family: Pasteurellaceae
genus: Ursidibacter
species: Ursidibacter maritimus
full scientific name: Ursidibacter maritimus Hansen et al. 2015
strain designation: PB43106
type strain: yes
Morphology
colony morphology
- @ref: 63202
- incubation period: 1 day
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
24046 | COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) | yes | https://mediadive.dsmz.de/medium/693 | Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base |
24046 | BHI MEDIUM (DSMZ Medium 215) | yes | https://mediadive.dsmz.de/medium/215 | Name: BHI MEDIUM (DSMZ Medium 215) Composition: Brain heart infusion 37.0 g/l Distilled water |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
63202 | positive | growth | 37 | mesophilic |
24046 | positive | growth | 37 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 63202
- oxygen tolerance: microaerophile
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
68369 | 25115 | malate | - | assimilation |
68369 | 17128 | adipate | - | assimilation |
68369 | 27689 | decanoate | - | assimilation |
68369 | 24265 | gluconate | - | assimilation |
68369 | 17306 | maltose | - | assimilation |
68369 | 59640 | N-acetylglucosamine | - | assimilation |
68369 | 16899 | D-mannitol | - | assimilation |
68369 | 16024 | D-mannose | - | assimilation |
68369 | 30849 | L-arabinose | - | assimilation |
68369 | 17634 | D-glucose | - | assimilation |
68369 | 5291 | gelatin | - | hydrolysis |
68369 | 4853 | esculin | - | hydrolysis |
68369 | 16199 | urea | - | hydrolysis |
68369 | 29016 | arginine | - | hydrolysis |
68369 | 17634 | D-glucose | - | fermentation |
68369 | 27897 | tryptophan | + | energy source |
68369 | 17632 | nitrate | - | reduction |
68381 | 29016 | arginine | - | hydrolysis |
68381 | 16899 | D-mannitol | - | builds acid from |
68381 | 30911 | sorbitol | - | builds acid from |
68381 | 17716 | lactose | - | builds acid from |
68381 | 27082 | trehalose | + | builds acid from |
68381 | 16634 | raffinose | - | builds acid from |
68381 | 17992 | sucrose | - | builds acid from |
68381 | 30849 | L-arabinose | - | builds acid from |
68381 | 18333 | D-arabitol | - | builds acid from |
68381 | 40585 | alpha-cyclodextrin | - | builds acid from |
68381 | 606565 | hippurate | - | hydrolysis |
68381 | 28087 | glycogen | - | builds acid from |
68381 | 27941 | pullulan | - | builds acid from |
68381 | 17306 | maltose | + | builds acid from |
68381 | 28053 | melibiose | - | builds acid from |
68381 | 6731 | melezitose | - | builds acid from |
68381 | 320055 | methyl beta-D-glucopyranoside | - | builds acid from |
68381 | 16443 | D-tagatose | - | builds acid from |
68381 | 16199 | urea | - | hydrolysis |
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
68369 | 35581 | indole | yes |
68381 | 15688 | acetoin | no |
metabolite tests
@ref | Chebi-ID | metabolite | voges-proskauer-test | indole test |
---|---|---|---|---|
68381 | 15688 | acetoin | - | |
68369 | 35581 | indole | + |
enzymes
@ref | value | activity | ec |
---|---|---|---|
68381 | urease | - | 3.5.1.5 |
68381 | beta-mannosidase | - | 3.2.1.25 |
68381 | glycyl tryptophan arylamidase | - | |
68381 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68381 | pyrrolidonyl arylamidase | - | 3.4.19.3 |
68381 | beta-galactosidase | - | 3.2.1.23 |
68381 | Alanyl-Phenylalanyl-Proline arylamidase | - | |
68381 | alkaline phosphatase | + | 3.1.3.1 |
68381 | alpha-galactosidase | - | 3.2.1.22 |
68381 | beta-glucuronidase | - | 3.2.1.31 |
68381 | beta-glucosidase | - | 3.2.1.21 |
68381 | arginine dihydrolase | - | 3.5.3.6 |
68369 | gelatinase | - | |
68369 | beta-glucosidase | - | 3.2.1.21 |
68369 | urease | - | 3.5.1.5 |
68369 | arginine dihydrolase | - | 3.5.3.6 |
API 20NE
@ref | NO3 | TRP | GLU_ Ferm | ADH Arg | URE | ESC | GEL | PNPG | GLU_ Assim | ARA | MNE | MAN | NAG | MAL | GNT | CAP | ADI | MLT | CIT | PAC |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
24046 | - | + | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - | - | - | - |
API rID32STR
@ref | ADH Arg | beta GLU | beta GAR | beta GUR | alpha GAL | PAL | RIB | MAN | SOR | LAC | TRE | RAF | SAC | LARA | DARL | CDEX | VP | APPA | beta GAL | PyrA | beta NAG | GTA | HIP | GLYG | PUL | MAL | MEL | MLZ | Mbeta DG | TAG | beta MAN | URE |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
24046 | - | - | + | - | - | + | +/- | - | - | - | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | sampling date |
---|---|---|---|---|---|---|
24046 | oral cavity of a healthy wild polar bear | Central East Greenland, Scoresbysound, Kap Tobin | Greenland | GRL | North America | |
63202 | Oral cavity of a wild polar bear | 69°00'N and 74°00'N | Greenland | GRL | North America | 2011-02-01 |
isolation source categories
Cat1 | Cat2 |
---|---|
#Host | #Mammals |
#Host Body-Site | #Oral cavity and airways |
taxonmaps
- @ref: 69479
- File name: preview.99_173945.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_18;96_64752;97_84002;98_113892;99_173945&stattab=map
- Last taxonomy: Ursidibacter maritimus subclade
- 16S sequence: KJ632968
- Sequence Identity:
- Total samples: 260
- soil counts: 4
- aquatic counts: 18
- animal counts: 237
- plant counts: 1
Sequence information
16S sequences
- @ref: 24046
- description: Ursidibacter maritimus strain Pb43106 16S ribosomal RNA gene, partial sequence
- accession: KJ632968
- length: 1358
- database: ena
- NCBI tax ID: 1331689
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Ursidibacter maritimus Pb43106 | GCA_009761395 | contig | ncbi | 1331689 |
66792 | Ursidibacter maritimus Pb43106 | GCA_019188485 | scaffold | ncbi | 1331689 |
66792 | Ursidibacter maritimus Pb43106 | 2887071027 | draft | img | 1331689 |
GC content
- @ref: 24046
- GC-content: 39.3
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
flagellated | no | 95.67 | no |
gram-positive | no | 98.529 | no |
anaerobic | no | 98.804 | yes |
aerobic | no | 92.909 | yes |
halophile | yes | 51.292 | no |
spore-forming | no | 98.505 | no |
motile | no | 89.26 | no |
thermophile | no | 98.733 | no |
glucose-util | no | 71.141 | yes |
glucose-ferment | no | 68.851 | yes |
External links
@ref: 24046
culture collection no.: DSM 28137, CCUG 65144
straininfo link
- @ref: 90606
- straininfo: 405717
literature
- topic: Phylogeny
- Pubmed-ID: 26220443
- title: Ursidibacter maritimus gen. nov., sp. nov. and Ursidibacter arcticus sp. nov., two new members of the family Pasteurellaceae isolated from the oral cavity of bears.
- authors: Johanne Hansen M, Strom Braaten M, Miki Bojesen A, Christensen H, Sonne C, Dietz R, Frost Bertelsen M
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.000476
- year: 2015
- mesh: Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Molecular Sequence Data, Mouth/*microbiology, Pasteurellaceae/*classification/genetics/isolation & purification, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Ubiquinone/chemistry, Ursidae/*microbiology
- topic2: Genetics
Reference
@id | authors | title | doi/url | catalogue |
---|---|---|---|---|
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 | 10.1099/ijsem.0.004332 | |
24046 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-28137 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 28137) | |
63202 | Curators of the CCUG | https://www.ccug.se/strain?id=65144 | Culture Collection University of Gothenburg (CCUG) (CCUG 65144) | |
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) | https://diaspora-project.de/progress.html#genomes | |
68369 | Automatically annotated from API 20NE | |||
68381 | Automatically annotated from API rID32STR | |||
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 | https://microbeatlas.org/ | |
90606 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | StrainInfo: A central database for resolving microbial strain identifiers | 10.60712/SI-ID405717.1 |