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Strain identifier

BacDive ID: 8179

Type strain: Yes

Species: Psychrobacter glacincola

Strain history: <- ACAM <- D. Nichols and J. P. Bowman

NCBI tax ID(s): 56810 (species)

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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: <- ACAM <- D. Nichols and J. P. Bowman

doi: 10.13145/bacdive8179.20221219.7.1

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 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: 69480
  • gram stain: negative
  • confidence: 99.772

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
4640BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)yeshttps://mediadive.dsmz.de/medium/514Name: 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
32939Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)

culture temp

@refgrowthtypetemperaturerange
4640positivegrowth15psychrophilic
32939positivegrowth15psychrophilic
52376positivegrowth10-15psychrophilic
52376positivegrowth20-22psychrophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 52376
  • oxygen tolerance: aerobe

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 98.177

halophily

  • @ref: 69480
  • halophily level: non-halophilic
  • confidence: 97.05

fatty acid profile

  • @reffatty acidpercentageECL
    52376C10:05.810
    52376C16:01.216
    52376C18:00.818
    52376C11:0 iso0.410.605
    52376C12:0 2OH0.213.178
    52376C12:0 3OH6.513.455
    52376C14:0 3OH/C16:1 ISO I0.215.485
    52376C14:1 ω5c0.313.899
    52376C16:1 ω7c3715.819
    52376C16:1 ω9c1.115.774
    52376C17:0 iso1.416.629
    52376C17:1 ω8c2.516.792
    52376C18:1 ω9c39.817.769
    52376C18:2 ω6,9c/C18:0 ANTE1.517.724
    52376TBSA 10Me18:00.218.392
    52376Unidentified0.811.96
    52376unknown 12.4860.512.486
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG
  • @reffatty acidpercentageECL
    52376C10:09.210
    52376C16:00.816
    52376C18:00.518
    52376C11:0 iso110.605
    52376C12:0 3OH8.513.455
    52376C15:0 ISO 3OH3.516.135
    52376C16:1 ω11c1.115.757
    52376C16:1 ω7c29.615.819
    52376C17:0 iso1.516.629
    52376C17:1 ω9c1.716.773
    52376C18:1 ω9c29.917.769
    52376C18:2 ω6,9c/C18:0 ANTE2.817.724
    52376Unidentified0.49.24
    52376Unidentified310.246
    52376Unidentified111.943
    52376Unidentified2.512.674
    52376Unidentified2.118.091
    52376unknown 12.486112.486
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG
  • @reffatty acidpercentageECL
    52376C10:010.310
    52376C16:00.916
    52376C11:0 iso1.210.605
    52376C12:0 3OH9.713.455
    52376C16:1 ω7c32.315.819
    52376C16:1 ω9c1.215.774
    52376C17:0 iso216.629
    52376C17:1 ω8c1.816.792
    52376C18:1 ω9c33.217.769
    52376C18:2 ω6,9c/C18:0 ANTE3.217.724
    52376Unidentified3.410.259
    52376unknown 12.4860.912.486
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcontinentlatitudelongitudecountryorigin.country
4640ice core (-350m)Amery Ice Shelf, S69°29', E71°38'Australia and Oceania-69.483371.6333
52376Sea iceAnery Ice shelfAustralia and OceaniaAntarcticaATA

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: AJ312213
  • Sequence Identity:
  • Total samples: 7634
  • soil counts: 925
  • aquatic counts: 3187
  • animal counts: 3350
  • plant counts: 172

Safety information

risk assessment

  • @ref: 4640
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Psychrobacter glacincola ACAM 483T 16S ribosomal RNA geneU461451467ena56810
20218Psychrobacter glacincola 16S rRNA gene, strain DSM 12194TAJ3122131515ena56810

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Psychrobacter glacincola Psychrobacter glacincola ACAM483GCA_904846215contigncbi56810
66792Psychrobacter glacincola strain Psychrobacter glacincola ACAM48356810.15wgspatric56810
66792Escherichia coli CoR-14GCA_002223855scaffoldpatric562

External links

@ref: 4640

culture collection no.: CCUG 34874, DSM 12194, ACAM 483

straininfo link

@refpassport
20218http://www.straininfo.net/strains/118443
20218http://www.straininfo.net/strains/118440

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

@idauthorscataloguedoi/urltitlejournalpubmed
4640Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 12194)https://www.dsmz.de/collection/catalogue/details/culture/DSM-12194
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
32939Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/17319
52376Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 34874)https://www.ccug.se/strain?id=34874
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)