Strain identifier
BacDive ID: 1902
Type strain:
Species: Pseudochrobactrum kiredjianiae
Strain Designation: SS5
Strain history: CIP <- 2006, CCUG <- E. Maas, Kilbirnie, Welllington, New-Zealand: strain SS5
NCBI tax ID(s): 386305 (species)
General
@ref: 8302
BacDive-ID: 1902
DSM-Number: 19762
keywords: 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, rod-shaped, colony-forming
description: Pseudochrobactrum kiredjianiae SS5 is an aerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from stainless-steel vent cover from a seafood processing plant.
NCBI tax id
- NCBI tax id: 386305
- Matching level: species
strain history
@ref | history |
---|---|
8302 | <- CIP <- E. W. Maas; SS5 <- P. Bremer |
120415 | CIP <- 2006, CCUG <- E. Maas, Kilbirnie, Welllington, New-Zealand: strain SS5 |
doi: 10.13145/bacdive1902.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Hyphomicrobiales
- family: Brucellaceae
- genus: Pseudochrobactrum
- species: Pseudochrobactrum kiredjianiae
- full scientific name: Pseudochrobactrum kiredjianiae Kämpfer et al. 2007
@ref: 8302
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Brucellaceae
genus: Pseudochrobactrum
species: Pseudochrobactrum kiredjianiae
full scientific name: Pseudochrobactrum kiredjianiae Kämpfer et al. 2007
strain designation: SS5
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell shape | motility |
---|---|---|---|
23347 | negative | rod-shaped | no |
120415 | negative | rod-shaped | no |
colony morphology
@ref | colony size | colony color | colony shape | incubation period | hemolysis ability |
---|---|---|---|---|---|
23347 | 2 mm | beige, translucent | circular | 1 day | |
120415 | 1 |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
8302 | TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) | yes | https://mediadive.dsmz.de/medium/535 | Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water |
23347 | MacConkey | yes | ||
23347 | Nutrient agar (NA) | yes | ||
23347 | Reasoner's 2A agar (R2A) | yes | ||
23347 | Trypticase Soy Agar (TSA) | yes | ||
37480 | MEDIUM 72- for trypto casein soja agar | yes | Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g) | |
120415 | CIP Medium 72 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
8302 | positive | growth | 28 | mesophilic |
23347 | positive | growth | 15-45 | |
23347 | no | growth | 10 | psychrophilic |
23347 | no | growth | 45 | thermophilic |
37480 | positive | growth | 25 | mesophilic |
58619 | positive | growth | 30 | mesophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
58619 | aerobe |
120415 | obligate aerobe |
spore formation
- @ref: 23347
- spore formation: no
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
23347 | 17879 | 4-hydroxybenzoate | - | assimilation |
23347 | 15963 | ribitol | - | assimilation |
23347 | 16383 | cis-aconitate | - | assimilation |
23347 | 16947 | citrate | - | assimilation |
23347 | 17057 | cellobiose | - | assimilation |
23347 | 15824 | D-fructose | - | assimilation |
23347 | 17306 | maltose | - | assimilation |
23347 | 16899 | D-mannitol | - | assimilation |
23347 | 16024 | D-mannose | - | assimilation |
23347 | 17924 | D-sorbitol | - | assimilation |
23347 | 16551 | D-trehalose | - | assimilation |
23347 | 65327 | D-xylose | - | assimilation |
23347 | 37054 | 3-hydroxybutyrate | - | assimilation |
23347 | 24265 | gluconate | - | assimilation |
23347 | 17268 | myo-inositol | - | assimilation |
23347 | 30849 | L-arabinose | - | assimilation |
23347 | 15971 | L-histidine | - | assimilation |
23347 | 15603 | L-leucine | - | assimilation |
23347 | 68428 | maltitol | - | assimilation |
23347 | 28037 | N-acetylgalactosamine | - | assimilation |
23347 | 18257 | ornithine | - | assimilation |
23347 | 9300 | suberic acid | - | assimilation |
23347 | 17992 | sucrose | - | assimilation |
23347 | 15708 | trans-aconitate | - | assimilation |
23347 | gamma-L-glutamate-4-nitroanilide | - | hydrolysis | |
23347 | 91050 | p-nitrophenyl phenyl phosphonate | - | hydrolysis |
23347 | 15361 | pyruvate | - | |
23347 | 16865 | gamma-aminobutyric acid | + | assimilation |
23347 | 16958 | beta-alanine | + | assimilation |
23347 | 17634 | D-glucose | + | assimilation |
23347 | 16988 | D-ribose | + | assimilation |
23347 | 24996 | lactate | + | assimilation |
23347 | 29806 | fumarate | + | assimilation |
23347 | 17859 | glutaric acid | + | assimilation |
23347 | 15589 | L-malate | + | assimilation |
23347 | 62345 | L-rhamnose | + | assimilation |
23347 | 17272 | propionate | + | assimilation |
23347 | L-proline-4-nitroanilide | + | hydrolysis | |
23347 | 12936 | D-galactose | +/- | assimilation |
23347 | 29991 | L-aspartate | +/- | assimilation |
23347 | 506227 | N-acetylglucosamine | +/- | assimilation |
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 | 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 |
120415 | 17632 | nitrate | - | reduction |
120415 | 16301 | nitrite | - | reduction |
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
68369 | 35581 | indole | no |
120415 | 35581 | indole | no |
metabolite tests
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- indole test: -
enzymes
@ref | value | activity | ec |
---|---|---|---|
23347 | cytochrome oxidase | + | 1.9.3.1 |
68382 | alpha-fucosidase | - | 3.2.1.51 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | beta-glucosidase | - | 3.2.1.21 |
68382 | alpha-glucosidase | - | 3.2.1.20 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | beta-galactosidase | - | 3.2.1.23 |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | naphthol-AS-BI-phosphohydrolase | + | |
68382 | acid phosphatase | + | 3.1.3.2 |
68382 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | trypsin | + | 3.4.21.4 |
68382 | cystine arylamidase | + | 3.4.11.3 |
68382 | valine arylamidase | - | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | lipase (C 14) | - | |
68382 | esterase lipase (C 8) | + | |
68382 | esterase (C 4) | + | |
68382 | alkaline phosphatase | + | 3.1.3.1 |
68369 | cytochrome oxidase | + | 1.9.3.1 |
68369 | gelatinase | - | |
68369 | beta-glucosidase | - | 3.2.1.21 |
68369 | urease | - | 3.5.1.5 |
68369 | arginine dihydrolase | - | 3.5.3.6 |
120415 | oxidase | + | |
120415 | alcohol dehydrogenase | - | 1.1.1.1 |
120415 | catalase | + | 1.11.1.6 |
120415 | lysine decarboxylase | - | 4.1.1.18 |
120415 | ornithine decarboxylase | - | 4.1.1.17 |
120415 | urease | - | 3.5.1.5 |
API zym
@ref | Control | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- Fucosidase |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
120415 | - | + | + | + | - | + | - | + | + | - | + | + | - | - | - | - | - | - | - | - |
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 | OX |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
8302 | - | - | - | - | - | - | - | - | +/- | - | - | - | + | - | - | - | - | + | - | + | + |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | sampling date | enrichment culture | enrichment culture temperature |
---|---|---|---|---|---|---|---|---|
8302 | stainless-steel vent cover from a seafood processing plant | Nelson | New Zealand | NZL | Australia and Oceania | |||
23347 | 1995 | standard plate count agar (Oxoid) | 30 | |||||
58619 | Stainless steel vent cover,seafood processing plan | Nelson | New Zealand | NZL | Australia and Oceania | 1995 | ||
120415 | Environment, Stainless steel vent cover, seafood processing plan | Nelson | New Zealand | NZL | Australia and Oceania |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Engineered | #Food production | |
#Engineered | #Industrial | #Engineered product |
#Engineered | #Industrial | #Plant (Factory) |
taxonmaps
- @ref: 69479
- File name: preview.99_3029.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5;96_1591;97_1899;98_2331;99_3029&stattab=map
- Last taxonomy: Pseudochrobactrum
- 16S sequence: AM263420
- Sequence Identity:
- Total samples: 1773
- soil counts: 281
- aquatic counts: 437
- animal counts: 988
- plant counts: 67
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
8302 | 1 | Risk group (German classification) |
120415 | 1 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 8302
- description: Pseudochrobactrum kiredjianiae partial 16S rRNA gene, type strain CCUG 49584T
- accession: AM263420
- length: 1387
- database: ena
- NCBI tax ID: 386305
External links
@ref: 8302
culture collection no.: DSM 19762, CCUG 49584, CIP 109227
straininfo link
- @ref: 71546
- straininfo: 293620
literature
- topic: Phylogeny
- Pubmed-ID: 17392201
- title: Description of Pseudochrobactrum kiredjianiae sp. nov.
- authors: Kampfer P, Scholz H, Huber B, Thummes K, Busse HJ, Maas EW, Falsen E
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.64714-0
- year: 2007
- mesh: Brucellaceae/*classification/genetics/isolation & purification/physiology, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Food-Processing Industry, Molecular Sequence Data, New Zealand, Phylogeny, RNA, Ribosomal, 16S/genetics, Seafood/*microbiology
- topic2: Genetics
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
8302 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19762) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-19762 | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
23347 | Peter Kämpfer, Holger Scholz, Birgit Huber, Kathrin Thummes, Hans-Jürgen Busse, Elizabeth W. Maas, Enevold Falsen | 10.1099/ijs.0.64714-0 | Description of Pseudochrobactrum kiredjianiae sp. nov. | IJSEM 57: 755-760 2007 | 17392201 | |
37480 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/6945 | ||||
58619 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 49584) | https://www.ccug.se/strain?id=49584 | |||
68369 | Automatically annotated from API 20NE | |||||
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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
71546 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID293620.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
120415 | Curators of the CIP | Collection of Institut Pasteur (CIP 109227) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109227 |