Strain identifier

BacDive ID: 8208

Type strain: Yes

Species: Psychrobacter lutiphocae

Strain Designation: L-1110

Strain history: CIP <- 2009, CCUG <- A.F. Yassin, Bonn Univ., Bonn, Germany: strain L-1110

NCBI tax ID(s): 1123033 (strain), 540500 (species)

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General

@ref: 15782

BacDive-ID: 8208

DSM-Number: 21542

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

description: Psychrobacter lutiphocae L-1110 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from faeces of a seal.

NCBI tax id

NCBI tax idMatching level
1123033strain
540500species

strain history

@refhistory
15782<- A. F. Yassin, Inst. Med. Mikrobiol., Univ. Bonn, Germany; IMMIB L-1110
120712CIP <- 2009, CCUG <- A.F. Yassin, Bonn Univ., Bonn, Germany: strain L-1110

doi: 10.13145/bacdive8208.20230509.8.1

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 lutiphocae
  • full scientific name: Psychrobacter lutiphocae Yassin and Busse 2009

@ref: 15782

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Moraxellaceae

genus: Psychrobacter

species: Psychrobacter lutiphocae

full scientific name: Psychrobacter lutiphocae Yassin and Busse 2009

strain designation: L-1110

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
29212negativeovoid-shapedno
69480no97.265
69480negative99.983
120712negativeoval-shapedno

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
15782COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://mediadive.dsmz.de/medium/693Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
41770MEDIUM 6 - Columbia agar with 10 % horse bloodyesDistilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml)
120712CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
120712CIP Medium 6yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=6

culture temp

@refgrowthtypetemperaturerange
15782positivegrowth37mesophilic
29212positivegrowth10-37
29212positiveoptimum23.5psychrophilic
41770positivegrowth37mesophilic
61033positivegrowth30-37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
29212aerobe
61033aerobe
120712obligate aerobe

spore formation

@refspore formationconfidence
29212no
69481no100
69480no99.999

halophily

@refsaltgrowthtested relationconcentration
29212NaClpositivegrowth0-6 %
29212NaClpositiveoptimum3 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2921225115malate+carbon source
2921217632nitrate+reduction
12071217632nitrate+reduction
12071216301nitrite-reduction

metabolite production

  • @ref: 120712
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
29212catalase+1.11.1.6
29212cytochrome oxidase+1.9.3.1
29212urease+3.5.1.5
120712oxidase+
120712catalase+1.11.1.6
120712urease+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
120712-+++-+----++--------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
15782faeces of a sealSchleswig-HolsteinGermanyDEUEurope
61033Seal fecesSchleswig-HolsteinGermanyDEUEurope1993
120712Seal fecesSchleswig HolsteinGermanyDEUEurope

isolation source categories

Cat1Cat2Cat3
#Host#Mammals
#Host Body Product#Gastrointestinal tract#Feces (Stool)

taxonmaps

  • @ref: 69479
  • File name: preview.99_2009.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_80;96_193;97_1308;98_1573;99_2009&stattab=map
  • Last taxonomy: Psychrobacter lutiphocae subclade
  • 16S sequence: FM165580
  • Sequence Identity:
  • Total samples: 650
  • soil counts: 28
  • aquatic counts: 286
  • animal counts: 333
  • plant counts: 3

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
157821Risk group (German classification)
1207121Risk group (French classification)

Sequence information

16S sequences

  • @ref: 15782
  • description: Psychrobacter lutiphocae partial 16S rRNA gene, type strain IMMIB L-1110T
  • accession: FM165580
  • length: 1502
  • database: ena
  • NCBI tax ID: 540500

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Psychrobacter lutiphocae DSM 21542GCA_000382145scaffoldncbi1123033
66792Psychrobacter lutiphocae DSM 215421123033.3wgspatric1123033
66792Psychrobacter lutiphocae DSM 215422521172648draftimg1123033

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno92.625no
flagellatedno92.075yes
gram-positiveno97.705no
anaerobicno97.869yes
aerobicyes85.871yes
halophileyes64.583no
spore-formingno96.078yes
thermophileno98.486yes
glucose-utilno68.481no
glucose-fermentno92.135no

External links

@ref: 15782

culture collection no.: DSM 21542, CCUG 56590, IMMIB L-1110, CIP 110018

straininfo link

  • @ref: 77611
  • straininfo: 364176

literature

  • topic: Phylogeny
  • Pubmed-ID: 19605717
  • title: Psychrobacter lutiphocae sp. nov., isolated from the faeces of a seal.
  • authors: Yassin AF, Busse HJ
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.008706-0
  • year: 2009
  • mesh: Animals, Bacterial Typing Techniques, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Feces/*microbiology, Molecular Sequence Data, Phylogeny, Polyamines/analysis, Psychrobacter/*classification/genetics/*isolation & purification/physiology, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Seals, Earless/*microbiology, Sequence Analysis, DNA
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
15782Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21542)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21542
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
29212Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2563328776041
41770Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7829
61033Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 56590)https://www.ccug.se/strain?id=56590
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)
68382Automatically annotated from API zym
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)
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
77611Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID364176.1StrainInfo: A central database for resolving microbial strain identifiers
120712Curators of the CIPCollection of Institut Pasteur (CIP 110018)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110018