Strain identifier

BacDive ID: 8202

Type strain: Yes

Species: Psychrobacter cryohalolentis

Strain Designation: 5, K5

Strain history: CIP <- 2015, DSMZ <- C. Bakermans, Michigan State Univ., USA strain:5, K5

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

@refhistory
6888<- C. Bakermans, Center for Microbial Ecol. and NASA Astrobiol. Inst., Michigan State Univ., USA; 5
118800CIP <- 2015, DSMZ <- C. Bakermans, Michigan State Univ., USA strain:5, K5

doi: 10.13145/bacdive8202.20230509.8.1

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 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 shapemotility
31679negative0.9-1.3 µm0.5-0.8 µmovoid-shapedno
118800rod-shapedno

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)
118800CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

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

  • @ref: 31679
  • spore formation: no

halophily

  • @ref: 31679
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-1.7 %

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

@refsample typegeographic locationcountryorigin.countrycontinent
6888cryopeg within permafrost, highly saline (13 %) lens of waterSiberia, Kolyma lowlandRussiaRUSAsia
118800Environment, Cryopeg within permafrost, highly saline (13%) lens of waterKolyma lowland , SiberiaRussian FederationRUSEurope

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

@refbiosafety levelbiosafety level comment
68881Risk group (German classification)
1188001Risk group (French 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 K5GCA_000013905completencbi335284
66792Psychrobacter cryohalolentis K5335284.6completepatric335284
66792Psychrobacter cryohalolentis K5335284.24plasmidpatric335284
66792Psychrobacter cryohalolentis K5637000227completeimg335284

GC content

  • @ref: 6888
  • GC-content: 42.3

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno87.519yes
flagellatedno89.671no
gram-positiveno98.078yes
anaerobicno98.684yes
halophileyes72.714no
spore-formingno96.709yes
thermophileno99.28yes
glucose-utilno51.739no
aerobicyes89.272yes
glucose-fermentno93.323no

External links

@ref: 6888

culture collection no.: DSM 17306, VKM B-2378, CIP 110990

straininfo link

  • @ref: 77605
  • straininfo: 297303

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/urltitleID_cross_referencepubmed
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
31679Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2795628776041
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
77605Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID297303.1StrainInfo: A central database for resolving microbial strain identifiers
118800Curators of the CIPCollection of Institut Pasteur (CIP 110990)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110990