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Strain identifier

BacDive ID: 139044

Type strain: Yes

Species: Psychrobacter glaciei

Strain history: 2016, KCTC

NCBI tax ID(s): 619771 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 41068

BacDive-ID: 139044

keywords: genome sequence, 16S sequence, Bacteria, aerobe, chemoheterotroph, psychrophilic, Gram-negative, coccus-shaped, colony-forming

description: Psychrobacter glaciei CIP 111025 is an aerobe, chemoheterotroph, psychrophilic bacterium that forms circular colonies.

NCBI tax id

  • NCBI tax id: 619771
  • Matching level: species

strain history: 2016, KCTC

doi: 10.13145/bacdive139044.20221219.7.1

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 glaciei
  • full scientific name: Psychrobacter glaciei Zeng et al. 2016

@ref: 41068

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Moraxellaceae

genus: Psychrobacter

species: Psychrobacter glaciei

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
43689negative0.7-1.3 µm0.5-0.8 µmcoccus-shapedno
69480negative99.697

colony morphology

  • @ref: 43689
  • colony size: 1-2 mm
  • colony color: Cream-coloured
  • colony shape: circular
  • incubation period: 2 days
  • medium used: Luria Bertani agar

Culture and growth conditions

culture medium

@refnamegrowthcomposition
41068Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
43689LB (Luria-Bertani) MEDIUMyes

culture temp

@refgrowthtypetemperaturerange
41068positivegrowth20psychrophilic
43689positivegrowth4-34
43689positiveoptimum25-29mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 43689
  • oxygen tolerance: aerobe

nutrition type

  • @ref: 43689
  • type: chemoheterotroph

spore formation

@refspore formationconfidence
43689no
69480no98.739

halophily

@refsaltgrowthtested relationconcentrationhalophily levelconfidence
43689NaClpositivegrowth0-8 %(w/v)
43689NaClpositiveoptimum2-4 %(w/v)
43689NaClnogrowth9 %(w/v)
69480non-halophilic93.942

observation

  • @ref: 43689
  • observation: Surrounded by a thick capsule

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4368915588D-malate-assimilation
4368916651(S)-lactate-assimilation
4368915589L-malate-assimilation
43689167632-oxobutanoate-assimilation
43689739183-O-methyl-D-glucose-assimilation
4368930089acetate-assimilation
4368913705acetoacetate-assimilation
4368917128adipate-assimilation
43689645522-hydroxybutyrate-assimilation
4368936219alpha-lactose-assimilation
4368973706bromosuccinate-assimilation
4368927689decanoate-assimilation
4368917057cellobiose-assimilation
4368916947citrate-assimilation
4368918333D-arabitol-assimilation
4368929990D-aspartate-assimilation
4368915824D-fructose-assimilation
4368978697D-fructose 6-phosphate-assimilation
4368928847D-fucose-assimilation
4368912936D-galactose-assimilation
4368918024D-galacturonic acid-assimilation
436898391D-gluconate-assimilation
4368917634D-glucose-assimilation
4368914314D-glucose 6-phosphate-assimilation
4368915748D-glucuronate-assimilation
4368916899D-mannitol-assimilation
4368916024D-mannose-assimilation
4368963150D-rhamnose-assimilation
4368933801D-saccharate-assimilation
4368916523D-serine-assimilation
4368917924D-sorbitol-assimilation
4368923652dextrin-assimilation
4368915740formate-assimilation
4368916537galactarate-assimilation
4368928066gentiobiose-assimilation
4368932323glucuronamide-assimilation
4368917754glycerol-assimilation
4368917596inosine-assimilation
4368930849L-arabinose-assimilation
4368918287L-fucose-assimilation
4368953071L-galactonate-assimilation
4368915971L-histidine-assimilation
4368918183L-pyroglutamic acid-assimilation
4368917306maltose-assimilation
4368928053melibiose-assimilation
4368974611methyl (R)-lactate-assimilation
43689320055methyl beta-D-glucopyranoside-assimilation
4368951850methyl pyruvate-assimilation
4368917268myo-inositol-assimilation
4368963154N-acetyl-beta-D-mannosamine-assimilation
4368928037N-acetylgalactosamine-assimilation
43689506227N-acetylglucosamine-assimilation
4368935418n-acetylneuraminate-assimilation
4368917309pectin-assimilation
4368918401phenylacetate-assimilation
4368932032potassium gluconate-assimilation
4368917272propionate-assimilation
4368926490quinate-assimilation
4368916634raffinose-assimilation
4368917814salicin-assimilation
4368964103sodium butyrate-assimilation
4368953258sodium citrate-assimilation
4368975228sodium lactate-assimilation
4368917164stachyose-assimilation
4368917992sucrose-assimilation
4368927082trehalose-assimilation
4368932528turanose-assimilation
4368927613amygdalin-builds acid from
4368915824D-fructose-builds acid from
4368917634D-glucose-builds acid from
4368916899D-mannitol-builds acid from
4368930849L-arabinose-builds acid from
4368962345L-rhamnose-builds acid from
4368917306maltose-builds acid from
4368928053melibiose-builds acid from
4368917268myo-inositol-builds acid from
4368930911sorbitol-builds acid from
4368917992sucrose-builds acid from
43689casein-hydrolysis
436894853esculin-hydrolysis
436895291gelatin-hydrolysis
4368917632nitrate-reduction
43689309162-oxoglutarate+assimilation
43689286442-oxopentanoate+assimilation
436898295beta-hydroxybutyrate+assimilation
4368915570D-alanine+assimilation
4368916865gamma-aminobutyric acid+assimilation
4368970744glycine-proline+assimilation
4368928087glycogen+assimilation
4368916977L-alanine+assimilation
4368916467L-arginine+assimilation
4368929991L-aspartate+assimilation
4368929985L-glutamate+assimilation
4368915603L-leucine+assimilation
4368917115L-serine+assimilation
4368951850methyl pyruvate+assimilation
4368975146monomethyl succinate+assimilation
4368973784glycyl-l-glutamate+assimilation
4368930031succinate+assimilation
4368953423tween 40+assimilation
4368953426tween 80+assimilation

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitive
43689161680aztreonamyesyes
4368971321fusidateyesyes
4368932735guanidinium chlorideyesyes
436896472lincomycinyesyes
4368948607lithium chlorideyesyes
4368950694minocyclineyesyes
43689100147nalidixic acidyesyes
4368975273niaproofyesyes
4368975248potassium telluriteyesyes
4368929673rifamycin svyesyes
4368975198tetrazolium blueyesyes
4368975193tetrazolium violetyesyes
4368945735troleandomycinyesyes
4368928001vancomycinyesyes

metabolite production

@refChebi-IDmetaboliteproduction
4368916136hydrogen sulfideno
4368935581indoleno
4368915688acetoinyes

metabolite tests

  • @ref: 43689
  • Chebi-ID: 15688
  • metabolite: acetoin
  • voges-proskauer-test: +

enzymes

@refvalueactivityec
43689acid phosphatase+3.1.3.2
43689alkaline phosphatase+3.1.3.1
43689catalase+1.11.1.6
43689esterase (C 4)+
43689esterase Lipase (C 8)+
43689leucine arylamidase+3.4.11.1
43689naphthol-AS-BI-phosphohydrolase+
43689cytochrome oxidase+1.9.3.1
43689urease-3.5.1.5
43689lipase (C 14)-
43689arginine dihydrolase-3.5.3.6
43689lysine decarboxylase-4.1.1.18
43689ornithine decarboxylase-4.1.1.17
43689cystine arylamidase-3.4.11.3
43689valine arylamidase-
43689tryptophan deaminase-4.1.99.1
43689trypsin-3.4.21.4
43689alpha-chymotrypsin-3.4.21.1
43689alpha-fucosidase-3.2.1.51
43689alpha-galactosidase-3.2.1.22
43689beta-galactosidase-3.2.1.23
43689beta-glucuronidase-3.2.1.31
43689alpha-glucosidase-3.2.1.20
43689beta-glucosidase-3.2.1.21
43689N-acetyl-beta-glucosaminidase-3.2.1.52
43689alpha-mannosidase-3.2.1.24

Isolation, sampling and environmental information

isolation

@refcountryorigin.countrycontinentsample typegeographic locationlatitudelongitude
41068NorwayNOREurope
43689NorwayNOREuropeAn ice core collected from Austre Lovénbreen in Ny-AlesundSvalbard78.88312.15

isolation source categories

Cat1Cat2Cat3
#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: FJ748508
  • Sequence Identity:
  • Total samples: 7634
  • soil counts: 925
  • aquatic counts: 3187
  • animal counts: 3350
  • plant counts: 172

Sequence information

16S sequences

  • @ref: 43689
  • description: partial 16S rRNA gene sequence
  • accession: FJ748508
  • database: nuccore

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Psychrobacter glaciei KCTC 42280GCA_014652895scaffoldncbi619771
66792Psychrobacter glaciei strain KCTC 42280619771.6wgspatric619771
66792Klebsiella pneumoniae SCPM-O-B-9259 (F27-3Kp/19)GCA_016916625contigpatric573

GC content

  • @ref: 43689
  • GC-content: 46.3
  • method: thermal denaturation, midpoint method (Tm)

External links

@ref: 41068

culture collection no.: CIP 111025, KCTC 42280, CCTCC AB 2014019

literature

  • topic: Phylogeny
  • Pubmed-ID: 26827927
  • title: Psychrobacter glaciei sp. nov., isolated from the ice core of an Arctic glacier.
  • authors: Zeng YX, Yu Y, Liu Y, Li HR
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.000939
  • year: 2016
  • mesh: Arctic Regions, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Ice Cover/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Psychrobacter/*classification/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Svalbard, Ubiquinone/chemistry
  • topic2: Genetics

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
20215Parte, 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 DSMZ10.1099/ijsem.0.004332
41068Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/34637 Collection of Institut Pasteur (CIP 111025)
43689Yin-Xin Zeng, Yong Yu, Yang Liu, Hui-Rong LiPsychrobacter glaciei sp. nov., isolated from the ice core of an Arctic glacier10.1099/ijsem.0.000939IJSEM 66: 1792-1798 201626827927
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69479João 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 betahttps://microbeatlas.org/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes