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Strain identifier

BacDive ID: 8202

Type strain: Yes

Species: Psychrobacter cryohalolentis

Strain Designation: 5, K5

Strain history: <- C. Bakermans, Center for Microbial Ecol. and NASA Astrobiol. Inst., Michigan State Univ., USA; 5

NCBI tax ID(s): 330922 (species)

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General

@ref: 6888

BacDive-ID: 8202

DSM-Number: 17306

keywords: genome sequence, 16S sequence, Bacteria, aerobe, psychrophilic, Gram-negative, ovoid-shaped

description: Psychrobacter cryohalolentis 5 is an aerobe, psychrophilic, Gram-negative bacterium that was isolated from cryopeg within permafrost, highly saline lens of water.

NCBI tax id

  • NCBI tax id: 330922
  • Matching level: species

strain history: <- C. Bakermans, Center for Microbial Ecol. and NASA Astrobiol. Inst., Michigan State Univ., USA; 5

doi: 10.13145/bacdive8202.20221219.7.1

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 cryohalolentis
  • full scientific name: Psychrobacter cryohalolentis Bakermans et al. 2006

@ref: 6888

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Moraxellaceae

genus: Psychrobacter

species: Psychrobacter cryohalolentis

full scientific name: Psychrobacter cryohalolentis Bakermans et al. 2006

strain designation: 5, K5

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
31679negative0.9-1.3 µm0.5-0.8 µmovoid-shapedno
69480negative99.685

pigmentation

  • @ref: 31679
  • production: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6888BACTO 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
41668Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)

culture temp

@refgrowthtypetemperaturerange
6888positivegrowth20psychrophilic
31679positiveoptimum22psychrophilic
41668positivegrowth20psychrophilic

culture pH

@refabilitytypepHPH range
31679positivegrowth6-9.5alkaliphile
31679positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 31679
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
31679no
69480no98.691

halophily

@refsaltgrowthtested relationconcentrationhalophily levelconfidence
31679NaClpositivegrowth0-1.7 %
69480non-halophilic93.969

observation

  • @ref: 31679
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3167930089acetate+carbon source
3167916947citrate+carbon source
3167929987glutamate+carbon source
3167924996lactate+carbon source

enzymes

  • @ref: 31679
  • value: cytochrome oxidase
  • activity: +
  • ec: 1.9.3.1

Isolation, sampling and environmental information

isolation

  • @ref: 6888
  • sample type: cryopeg within permafrost, highly saline (13 %) lens of water
  • geographic location: Siberia, Kolyma lowland
  • country: Russia
  • origin.country: RUS
  • continent: Asia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic
#Environmental#Terrestrial#Permafrost
#Condition#Saline

taxonmaps

  • @ref: 69479
  • File name: preview.99_1368.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_80;96_193;97_209;98_234;99_1368&stattab=map
  • Last taxonomy: Psychrobacter
  • 16S sequence: AY660685
  • Sequence Identity:
  • Total samples: 340
  • soil counts: 12
  • aquatic counts: 125
  • animal counts: 202
  • plant counts: 1

Safety information

risk assessment

  • @ref: 6888
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 6888
  • description: Psychrobacter cryohalolentis K5 16S ribosomal RNA gene, partial sequence
  • accession: AY660685
  • length: 1500
  • database: ena
  • NCBI tax ID: 335284

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Psychrobacter cryohalolentis K5 K5GCA_000013905completencbi335284
66792Psychrobacter cryohalolentis K5335284.6completepatric335284
66792Psychrobacter cryohalolentis K5335284.24plasmidpatric335284
66792Psychrobacter cryohalolentis K5637000227completeimg335284
66792Streptococcus pneumoniae 15BGCA_001164445contigpatric1313
66792Acinetobacter baumannii 4300STDY7045830GCA_900496115scaffoldpatric470

GC content

  • @ref: 6888
  • GC-content: 42.3

External links

@ref: 6888

culture collection no.: DSM 17306, VKM B-2378

straininfo link

@refpassport
20218http://www.straininfo.net/strains/690314
20218http://www.straininfo.net/strains/690315

literature

  • topic: Phylogeny
  • Pubmed-ID: 16738105
  • title: Psychrobacter cryohalolentis sp. nov. and Psychrobacter arcticus sp. nov., isolated from Siberian permafrost.
  • authors: Bakermans C, Ayala-Del-Rio HL, Ponder MA, Vishnivetskaya T, Gilichinsky D, Thomashow MF, Tiedje JM
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.64043-0
  • year: 2006
  • mesh: Cold Climate, DNA, Bacterial/genetics, Fatty Acids/analysis, Ice, Molecular Sequence Data, Phospholipids/analysis, Phylogeny, Psychrobacter/*classification/genetics/isolation & purification, Siberia
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmedID_cross_reference
6888Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17306)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17306
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
2795610.1099/ijs.0.64043-016738105
31679Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2877604127956
41668Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/34597
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)