Strain identifier
BacDive ID: 8179
Type strain:
Species: Psychrobacter glacincola
Strain history: CIP <- 1997, ACAM <- D. Nichols, Tasmania Univ., Australia
NCBI tax ID(s): 56810 (species)
General
@ref: 4640
BacDive-ID: 8179
DSM-Number: 12194
keywords: genome sequence, 16S sequence, Bacteria, aerobe, psychrophilic
description: Psychrobacter glacincola CCUG 34874 is an aerobe, psychrophilic bacterium that was isolated from ice core .
NCBI tax id
- NCBI tax id: 56810
- Matching level: species
strain history
@ref | history |
---|---|
4640 | <- ACAM <- D. Nichols and J. P. Bowman |
119634 | CIP <- 1997, ACAM <- D. Nichols, Tasmania Univ., Australia |
doi: 10.13145/bacdive8179.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Pseudomonadales
- family: Moraxellaceae
- genus: Psychrobacter
- species: Psychrobacter glacincola
- full scientific name: Psychrobacter glacincola Bowman et al. 1997
@ref: 4640
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Pseudomonadales
family: Moraxellaceae
genus: Psychrobacter
species: Psychrobacter glacincola
full scientific name: Psychrobacter glacincola Bowman et al. 1997
type strain: yes
Morphology
cell morphology
@ref | motility | confidence | gram stain | cell shape |
---|---|---|---|---|
69480 | no | 92.446 | ||
69480 | 99.999 | negative | ||
119634 | no | negative | coccus-shaped |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
4640 | BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) | yes | https://mediadive.dsmz.de/medium/514 | Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water |
32939 | Marine agar (MA) | yes | Distilled water make up to (1000.000 ml);Marine agar (55.100 g) | |
119634 | CIP Medium 13 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
4640 | positive | growth | 15 | psychrophilic |
32939 | positive | growth | 15 | psychrophilic |
52376 | positive | growth | 10-15 | psychrophilic |
52376 | positive | growth | 20-22 | psychrophilic |
119634 | positive | growth | 5-22 | psychrophilic |
119634 | no | growth | 30 | mesophilic |
119634 | no | growth | 37 | mesophilic |
119634 | no | growth | 41 | thermophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
52376 | aerobe |
119634 | obligate aerobe |
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.992 |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
119634 | NaCl | positive | growth | 0-8 % |
119634 | NaCl | no | growth | 10 % |
metabolite utilization
@ref | metabolite | utilization activity | kind of utilization tested | Chebi-ID |
---|---|---|---|---|
68371 | Potassium 5-ketogluconate | - | builds acid from | |
68371 | Potassium 2-ketogluconate | - | builds acid from | |
68371 | gluconate | - | builds acid from | 24265 |
68371 | L-arabitol | - | builds acid from | 18403 |
68371 | D-arabitol | - | builds acid from | 18333 |
68371 | L-fucose | - | builds acid from | 18287 |
68371 | D-fucose | - | builds acid from | 28847 |
68371 | D-tagatose | - | builds acid from | 16443 |
68371 | D-lyxose | - | builds acid from | 62318 |
68371 | turanose | - | builds acid from | 32528 |
68371 | gentiobiose | - | builds acid from | 28066 |
68371 | xylitol | - | builds acid from | 17151 |
68371 | glycogen | - | builds acid from | 28087 |
68371 | starch | - | builds acid from | 28017 |
68371 | raffinose | - | builds acid from | 16634 |
68371 | melezitose | - | builds acid from | 6731 |
68371 | inulin | - | builds acid from | 15443 |
68371 | trehalose | - | builds acid from | 27082 |
68371 | sucrose | - | builds acid from | 17992 |
68371 | melibiose | - | builds acid from | 28053 |
68371 | lactose | - | builds acid from | 17716 |
68371 | maltose | - | builds acid from | 17306 |
68371 | cellobiose | - | builds acid from | 17057 |
68371 | salicin | - | builds acid from | 17814 |
68371 | esculin | - | builds acid from | 4853 |
68371 | arbutin | - | builds acid from | 18305 |
68371 | amygdalin | - | builds acid from | 27613 |
68371 | N-acetylglucosamine | - | builds acid from | 59640 |
68371 | methyl alpha-D-glucopyranoside | - | builds acid from | 320061 |
68371 | methyl alpha-D-mannoside | - | builds acid from | 43943 |
68371 | D-sorbitol | - | builds acid from | 17924 |
68371 | D-mannitol | - | builds acid from | 16899 |
68371 | myo-inositol | - | builds acid from | 17268 |
68371 | galactitol | - | builds acid from | 16813 |
68371 | L-rhamnose | - | builds acid from | 62345 |
68371 | L-sorbose | - | builds acid from | 17266 |
68371 | D-mannose | - | builds acid from | 16024 |
68371 | D-fructose | - | builds acid from | 15824 |
68371 | D-glucose | - | builds acid from | 17634 |
68371 | D-galactose | - | builds acid from | 12936 |
68371 | methyl beta-D-xylopyranoside | - | builds acid from | 74863 |
68371 | ribitol | - | builds acid from | 15963 |
68371 | L-xylose | - | builds acid from | 65328 |
68371 | D-xylose | - | builds acid from | 65327 |
68371 | D-ribose | - | builds acid from | 16988 |
68371 | L-arabinose | - | builds acid from | 30849 |
68371 | D-arabinose | - | builds acid from | 17108 |
68371 | erythritol | - | builds acid from | 17113 |
68371 | glycerol | - | builds acid from | 17754 |
119634 | esculin | - | hydrolysis | 4853 |
119634 | glucose | - | fermentation | 17234 |
119634 | lactose | - | fermentation | 17716 |
119634 | nitrate | + | reduction | 17632 |
119634 | nitrite | - | reduction | 16301 |
119634 | sodium thiosulfate | - | builds gas from | 132112 |
119634 | glucose | - | degradation | 17234 |
antibiotic resistance
- @ref: 119634
- metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
- is antibiotic: yes
- is sensitive: yes
- is resistant: no
metabolite production
- @ref: 119634
- Chebi-ID: 35581
- metabolite: indole
- production: no
metabolite tests
@ref | Chebi-ID | metabolite | voges-proskauer-test | methylred-test |
---|---|---|---|---|
119634 | 15688 | acetoin | - | |
119634 | 17234 | glucose | + |
enzymes
@ref | value | activity | ec |
---|---|---|---|
119634 | oxidase | + | |
119634 | beta-galactosidase | - | 3.2.1.23 |
119634 | alcohol dehydrogenase | - | 1.1.1.1 |
119634 | gelatinase | - | |
119634 | amylase | - | |
119634 | DNase | - | |
119634 | caseinase | - | 3.4.21.50 |
119634 | catalase | + | 1.11.1.6 |
119634 | tween esterase | - | |
119634 | gamma-glutamyltransferase | + | 2.3.2.2 |
119634 | lecithinase | - | |
119634 | lipase | - | |
119634 | lysine decarboxylase | - | 4.1.1.18 |
119634 | ornithine decarboxylase | - | 4.1.1.17 |
119634 | tryptophan deaminase | - | |
119634 | urease | + | 3.5.1.5 |
68382 | alkaline phosphatase | + | 3.1.3.1 |
68382 | esterase (C 4) | + | |
68382 | esterase lipase (C 8) | + | |
68382 | lipase (C 14) | + | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | valine arylamidase | - | |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | trypsin | - | 3.4.21.4 |
68382 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | acid phosphatase | - | 3.1.3.2 |
68382 | naphthol-AS-BI-phosphohydrolase | + | |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | beta-galactosidase | - | 3.2.1.23 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | alpha-glucosidase | - | 3.2.1.20 |
68382 | beta-glucosidase | - | 3.2.1.21 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | alpha-fucosidase | - | 3.2.1.51 |
fatty acid profile
@ref fatty acid percentage ECL 52376 C10:0 5.8 10 52376 C16:0 1.2 16 52376 C18:0 0.8 18 52376 C11:0 iso 0.4 10.605 52376 C12:0 2OH 0.2 13.178 52376 C12:0 3OH 6.5 13.455 52376 C14:0 3OH/C16:1 ISO I 0.2 15.485 52376 C14:1 ω5c 0.3 13.899 52376 C16:1 ω7c 37 15.819 52376 C16:1 ω9c 1.1 15.774 52376 C17:0 iso 1.4 16.629 52376 C17:1 ω8c 2.5 16.792 52376 C18:1 ω9c 39.8 17.769 52376 C18:2 ω6,9c/C18:0 ANTE 1.5 17.724 52376 TBSA 10Me18:0 0.2 18.392 52376 Unidentified 0.8 11.96 52376 unknown 12.486 0.5 12.486 - type of FA analysis: whole cell analysis
- method/protocol: CCUG
@ref fatty acid percentage ECL 52376 C10:0 9.2 10 52376 C16:0 0.8 16 52376 C18:0 0.5 18 52376 C11:0 iso 1 10.605 52376 C12:0 3OH 8.5 13.455 52376 C15:0 ISO 3OH 3.5 16.135 52376 C16:1 ω11c 1.1 15.757 52376 C16:1 ω7c 29.6 15.819 52376 C17:0 iso 1.5 16.629 52376 C17:1 ω9c 1.7 16.773 52376 C18:1 ω9c 29.9 17.769 52376 C18:2 ω6,9c/C18:0 ANTE 2.8 17.724 52376 Unidentified 0.4 9.24 52376 Unidentified 3 10.246 52376 Unidentified 1 11.943 52376 Unidentified 2.5 12.674 52376 Unidentified 2.1 18.091 52376 unknown 12.486 1 12.486 - type of FA analysis: whole cell analysis
- method/protocol: CCUG
@ref fatty acid percentage ECL 52376 C10:0 10.3 10 52376 C16:0 0.9 16 52376 C11:0 iso 1.2 10.605 52376 C12:0 3OH 9.7 13.455 52376 C16:1 ω7c 32.3 15.819 52376 C16:1 ω9c 1.2 15.774 52376 C17:0 iso 2 16.629 52376 C17:1 ω8c 1.8 16.792 52376 C18:1 ω9c 33.2 17.769 52376 C18:2 ω6,9c/C18:0 ANTE 3.2 17.724 52376 Unidentified 3.4 10.259 52376 unknown 12.486 0.9 12.486 - type of FA analysis: whole cell analysis
- method/protocol: CCUG
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
119634 | - | + | + | + | + | + | - | - | - | - | - | + | - | - | - | - | - | - | - | - |
API 50CHac
@ref | 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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
119634 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
API biotype100
@ref | GLU | FRU | GAL | TRE | MNE | SBE | MEL | SAC | RAF | MTE | MAL | LAC | LTE | MbGa | MaGa | CEL | GEN | MbGu | ESC | RIB | ARA | XYL | PLE | RHA | FUC | MLZ | DARL | LARL | XLT | DUL | TAG | GLY | INO | MAN | MTL | TUR | SOR | ADO | HBG | LYX | ERY | MDG | 3MDG | SAT | MUC | LTAT | DTAT | MTAT | DMLT | LMLT | CATE | TATE | TTE | CIT | GRT | GAT | 2KG | 5KG | TRY | NAG | GNT | PAC | PAT | pOBE | QAT | GTE | mOBE | BAT | PPAT | CMT | TGE | BET | PCE | ABT | HIN | LAT | CAP | CYT | HIS | SUC | FUM | GRE | GYT | AVT | ETN | TTN | GLN | ITA | 3OBU | APT | GTT | PRO | DALA | LALA | SER | MNT | PROP | TYR | 2KT |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
119634 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | - | + | - | - | - | - | - | - | + | - | + | - | - | - | + | - | + | + | + |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | continent | latitude | longitude | country | origin.country | isolation date |
---|---|---|---|---|---|---|---|---|
4640 | ice core (-350m) | Amery Ice Shelf, S69°29', E71°38' | Australia and Oceania | -69.4833 | 71.6333 | |||
52376 | Sea ice | Anery Ice shelf | Australia and Oceania | Antarctica | ATA | |||
119634 | Environment, Shelf sea ice | Antarctica | Antarctica | ATA | 1993 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Ice |
#Environmental | #Terrestrial | #Core sample |
taxonmaps
- @ref: 69479
- File name: preview.99_279.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_80;96_193;97_209;98_234;99_279&stattab=map
- Last taxonomy: Psychrobacter
- 16S sequence: AJ312213
- Sequence Identity:
- Total samples: 7634
- soil counts: 925
- aquatic counts: 3187
- animal counts: 3350
- plant counts: 172
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
4640 | 1 | Risk group (German classification) |
119634 | 1 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Psychrobacter glacincola ACAM 483T 16S ribosomal RNA gene | U46145 | 1467 | ena | 56810 |
20218 | Psychrobacter glacincola 16S rRNA gene, strain DSM 12194T | AJ312213 | 1515 | ena | 56810 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Psychrobacter glacincola Psychrobacter glacincola ACAM483 | GCA_904846215 | contig | ncbi | 56810 |
66792 | Psychrobacter glacincola strain Psychrobacter glacincola ACAM483 | 56810.15 | wgs | patric | 56810 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
gram-positive | no | 98.229 | no |
anaerobic | no | 98.964 | no |
halophile | yes | 69.822 | no |
spore-forming | no | 96.74 | no |
glucose-util | no | 63.571 | no |
thermophile | no | 99.414 | yes |
flagellated | no | 93.117 | no |
motile | no | 89.829 | no |
aerobic | yes | 86.366 | no |
glucose-ferment | no | 94.434 | no |
External links
@ref: 4640
culture collection no.: CCUG 34874, DSM 12194, ACAM 483, CIP 105313
straininfo link
- @ref: 77582
- straininfo: 44118
literature
- topic: Phylogeny
- Pubmed-ID: 14657134
- title: Psychrobacter okhotskensis sp. nov., a lipase-producing facultative psychrophile isolated from the coast of the Okhotsk Sea.
- authors: Yumoto I, Hirota K, Sogabe Y, Nodasaka Y, Yokota Y, Hoshino T
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.02686-0
- year: 2003
- mesh: Base Composition, Base Sequence, DNA, Bacterial/chemistry, Japan, Molecular Sequence Data, Moraxellaceae/*classification/enzymology/genetics/isolation & purification, *Phylogeny, Seawater/microbiology, Temperature
- topic2: Genetics
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
4640 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 12194) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-12194 | |||
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 | |||
20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
32939 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/17319 | ||||
52376 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 34874) | https://www.ccug.se/strain?id=34874 | |||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
77582 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID44118.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
119634 | Curators of the CIP | Collection of Institut Pasteur (CIP 105313) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105313 |