Strain identifier

BacDive ID: 8176

Type strain: Yes

Species: Psychrobacter immobilis

Strain Designation: 14, Lautrop A351, MJT/F5/153, A 351

Strain history: CIP <- 1986, S.D. Henriksen <- H. Lautrop: strain A 351 <- M.J. Thornley: strain MJT/F5/153

NCBI tax ID(s): 498 (species)

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General

@ref: 3064

BacDive-ID: 8176

DSM-Number: 7229

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, psychrophilic, human pathogen

description: Psychrobacter immobilis 14 is an obligate aerobe, psychrophilic human pathogen that was isolated from poultry carcass.

NCBI tax id

  • NCBI tax id: 498
  • Matching level: species

strain history

@refhistory
3064<- LMG <- E. Juni, strain 14 <- S. Hendriksen <- H. Lautrop, A351 <- M. Thornley
67770IAM 12280 <-- H. Ito A351.
120056CIP <- 1986, S.D. Henriksen <- H. Lautrop: strain A 351 <- M.J. Thornley: strain MJT/F5/153

doi: 10.13145/bacdive8176.20230509.8.1

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 immobilis
  • full scientific name: Psychrobacter immobilis Juni and Heym 1986

@ref: 3064

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Moraxellaceae

genus: Psychrobacter

species: Psychrobacter immobilis

full scientific name: Psychrobacter immobilis Juni and Heym 1986

strain designation: 14, Lautrop A351, MJT/F5/153, A 351

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no90.12
6948099.997negative
120056nonegativeoval-shaped

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
3064NUTRIENT AGAR (DSMZ Medium 1)yeshttps://mediadive.dsmz.de/medium/1Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
38100MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
120056CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
3064positivegrowth20psychrophilic
38100positivegrowth25mesophilic
45227positivegrowth22-30
67770positivegrowth25mesophilic
120056positivegrowth5-30
120056nogrowth37mesophilic
120056nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 120056
  • oxygen tolerance: obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.999

halophily

  • @ref: 120056
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-10 %

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate+builds acid from
68371Potassium 2-ketogluconate-builds acid from
68371gluconate-builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose+builds acid from32528
68371gentiobiose-builds acid from28066
68371xylitol-builds acid from17151
68371glycogen+builds acid from28087
68371raffinose-builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371sucrose-builds acid from17992
68371melibiose-builds acid from28053
68371lactose-builds acid from17716
68371maltose+builds acid from17306
68371esculin+builds acid from4853
68371arbutin+builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine+builds acid from59640
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371D-mannitol-builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose+builds acid from16024
68371D-fructose+builds acid from15824
68371D-glucose+builds acid from17634
68371D-galactose-builds acid from12936
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose-builds acid from65327
68371L-arabinose-builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol-builds acid from17754
120056citrate-carbon source16947
120056esculin-hydrolysis4853
120056glucose-fermentation17234
120056lactose-fermentation17716
120056nitrate+reduction17632
120056nitrite-reduction16301
120056sodium thiosulfate+builds gas from132112
120056glucose+/-degradation17234
120056nitrate-respiration17632

antibiotic resistance

  • @ref: 120056
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 120056
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
12005615688acetoin-
12005617234glucose-

enzymes

@refvalueactivityec
120056oxidase+
120056beta-galactosidase-3.2.1.23
120056alcohol dehydrogenase-1.1.1.1
120056gelatinase-
120056amylase-
120056DNase-
120056caseinase-3.4.21.50
120056catalase+1.11.1.6
120056tween esterase+
120056gamma-glutamyltransferase+2.3.2.2
120056lecithinase+
120056lipase+
120056lysine decarboxylase-4.1.1.18
120056ornithine decarboxylase-4.1.1.17
120056phenylalanine ammonia-lyase-4.3.1.24
120056protease+
120056tryptophan deaminase-
120056urease+3.5.1.5
68382alkaline phosphatase-3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase-3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase-3.1.3.2
68382naphthol-AS-BI-phosphohydrolase-
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase-3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
120056--++----------------

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
120056----+/------+++--------+-+++/-+/-+---+/----+/-+--+--------+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
120056------------------------------------------------++----------------------++-+--++++-++---+-+++++-+++

Isolation, sampling and environmental information

isolation

@refsample type
3064poultry carcass
45227Poultry carcass
67770Poultry
120056Animal, Poultry

isolation source categories

Cat1Cat2Cat3
#Engineered#Waste
#Host#Birds
#Host#Other#Decomposing animal

Safety information

risk assessment

@refpathogenicity humanbiosafety levelbiosafety level comment
3064yes, in single cases1Risk group (German classification)
1200561Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Psychrobacter immobilis partial 16S rRNA gene, strain CECT 5008FR7172791545ena498
20218Psychrobacter immobilis 16S rRNA gene, strain DSM 7229TAJ3099421492ena498
3064Psychrobacter immobilis gene for 16S rRNA, partial sequence, strain: NBRC 15733AB6809541464ena498
3064Psychrobacter immobilis strain ATCC 43116 16S ribosomal RNA gene, partial sequenceHQ6985891398ena498
3064Psychrobacter immobilis 16S rRNA gene, partialAJ247264451ena498
3064Psychrobacter immobilis 16S ribosomal RNA gene, partial sequenceU393991477ena498

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Psychrobacter immobilis strain DSM 7229498.5wgspatric498
66792Psychrobacter immobilis DSM 72292756170258draftimg498
67770Psychrobacter immobilis DSM 7229GCA_003148585scaffoldncbi498

GC content

  • @ref: 67770
  • GC-content: 45
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
gram-positiveno98.041no
anaerobicno98.969no
halophileyes84.155no
spore-formingno97.003no
glucose-utilno52.54no
aerobicyes89.678no
thermophileno99.441no
motileno86.785no
flagellatedno90.817no
glucose-fermentno93.933no

External links

@ref: 3064

culture collection no.: DSM 7229, ATCC 43116, CCUG 9708, LMG 7091, LMG 7203, NCIB 12350, CCM 4776, JCM 20442, CIP 102557, IAM 12280, IFO 15733, NBRC 15733, NCIMB 12350

straininfo link

  • @ref: 77579
  • straininfo: 4727

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny12624070Paracoccus yeeii sp. nov. (formerly CDC group EO-2), a novel bacterial species associated with human infection.Daneshvar MI, Hollis DG, Weyant RS, Steigerwalt AG, Whitney AM, Douglas MP, Macgregor JP, Jordan JG, Mayer LW, Rassouli SM, Barchet W, Munro C, Shuttleworth L, Bernard KJ Clin Microbiol10.1128/JCM.41.3.1289-1294.20032003DNA, Bacterial/analysis, Gram-Negative Bacterial Infections/*microbiology, Humans, Molecular Sequence Data, Paracoccus/*classification/genetics, Phenotype, Phylogeny, RNA, Ribosomal, 16S/*analysis/geneticsPathogenicity
Phylogeny12892132Characterization of several Psychrobacter strains isolated from Antarctic environments and description of Psychrobacter luti sp. nov. and Psychrobacter fozii sp. nov.Bozal N, Montes MJ, Tudela E, Guinea JInt J Syst Evol Microbiol10.1099/ijs.0.02457-02003Antarctic Regions, Base Composition, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Gammaproteobacteria/*classification/genetics/*isolation & purification/metabolism, Microscopy, Electron, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/geneticsMetabolism
Phylogeny14657134Psychrobacter okhotskensis sp. nov., a lipase-producing facultative psychrophile isolated from the coast of the Okhotsk Sea.Yumoto I, Hirota K, Sogabe Y, Nodasaka Y, Yokota Y, Hoshino TInt J Syst Evol Microbiol10.1099/ijs.0.02686-02003Base Composition, Base Sequence, DNA, Bacterial/chemistry, Japan, Molecular Sequence Data, Moraxellaceae/*classification/enzymology/genetics/isolation & purification, *Phylogeny, Seawater/microbiology, TemperatureGenetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
3064Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 7229)https://www.dsmz.de/collection/catalogue/details/culture/DSM-7229
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
38100Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/14257
45227Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 9708)https://www.ccug.se/strain?id=9708
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
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)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
77579Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID4727.1StrainInfo: A central database for resolving microbial strain identifiers
120056Curators of the CIPCollection of Institut Pasteur (CIP 102557)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20102557