Strain identifier

BacDive ID: 132057

Type strain: Yes

Species: Octadecabacter antarcticus

Strain Designation: 307

Strain history: CIP <- 2000, JJ. Gosink, Washington Univ., Seattle, Washington, USA: strain 307

NCBI tax ID(s): 391626 (strain), 1217908 (species)

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General

@ref: 23848

BacDive-ID: 132057

DSM-Number: 28635

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

description: Octadecabacter antarcticus 307 is a psychrophilic, Gram-negative, rod-shaped bacterium that was isolated from polar sea ice, 25 - 50 cm from the bottom of the ice.

NCBI tax id

NCBI tax idMatching level
391626strain
1217908species

strain history

@refhistory
23848<- J. Dodsworth, Dept. of Microbiol., Univ. of Washington, Seattle <- J. J. Gosink; 307
395632000, J.J. Gosink, Univ. Washington, Microbiol., Seattle, USA : Strain 307
116407CIP <- 2000, JJ. Gosink, Washington Univ., Seattle, Washington, USA: strain 307

doi: 10.13145/bacdive132057.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodobacterales
  • family: Roseobacteraceae
  • genus: Octadecabacter
  • species: Octadecabacter antarcticus
  • full scientific name: Octadecabacter antarcticus Gosink et al. 1998

@ref: 23848

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodobacterales

family: Rhodobacteraceae

genus: Octadecabacter

species: Octadecabacter antarcticus

full scientific name: Octadecabacter antarcticus Gosink et al. 1998 emend. Billerbeck et al. 2015

strain designation: 307

type strain: yes

Morphology

cell morphology

  • @ref: 116407
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
23848BACTO 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
39563Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
116407CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
23848positivegrowth4psychrophilic
39563positivegrowth4psychrophilic
116407positivegrowth5psychrophilic
116407nogrowth15psychrophilic
116407nogrowth25mesophilic
116407nogrowth30mesophilic
116407nogrowth37mesophilic
116407nogrowth41thermophilic
116407nogrowth45thermophilic

Physiology and metabolism

halophily

@refsaltgrowthtested relationconcentration
116407NaClnogrowth0 %
116407NaClnogrowth2 %
116407NaClnogrowth4 %
116407NaClnogrowth6 %
116407NaClnogrowth8 %
116407NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836925115malate-assimilation
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836924265gluconate-assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine-assimilation
6836916899D-mannitol-assimilation
6836916024D-mannose-assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose-assimilation
683695291gelatin-hydrolysis
683694853esculin-hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction
11640716947citrate-carbon source
1164074853esculin-hydrolysis
116407606565hippurate-hydrolysis
11640717632nitrate-builds gas from
11640717632nitrate-reduction
11640716301nitrite-builds gas from
11640716301nitrite-reduction
11640715792malonate-assimilation

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
11640735581indoleno

metabolite tests

@refChebi-IDmetaboliteindole testvoges-proskauer-testmethylred-test
6836935581indole-
11640715688acetoin-
11640717234glucose-

enzymes

@refvalueactivityec
68369gelatinase-
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
116407oxidase+
116407beta-galactosidase+3.2.1.23
116407alcohol dehydrogenase-1.1.1.1
116407gelatinase-
116407catalase+1.11.1.6
116407gamma-glutamyltransferase-2.3.2.2
116407lysine decarboxylase-4.1.1.18
116407ornithine decarboxylase-4.1.1.17
116407phenylalanine ammonia-lyase-4.3.1.24
116407tryptophan deaminase-
116407urease-3.5.1.5
68382esterase (C 4)-
68382lipase (C 14)-
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
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
23848-+/-------------------
23848-+-+/--+/-----+---------
23848-+-+/--+/-----+---------
23848--------------------
116407-+-+------++--------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPAC
23848-------+------------
23848-------+------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitudeisolation date
23848polar sea ice, 25 - 50 cm from the bottom of the iceMcMurdo Sound (77° 53' S, 166° 35' E)AntarcticaATAAustralia and Oceania-77.8833166.583
116407Environment, Ice, 25-50 cm from bottom of seaMcMurdo soundAntarcticaATAAntarctica1992

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Ice
#Climate#Cold#Polar

taxonmaps

  • @ref: 69479
  • File name: preview.99_2562.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_19;96_1374;97_1634;98_1985;99_2562&stattab=map
  • Last taxonomy: Octadecabacter
  • 16S sequence: U14583
  • Sequence Identity:
  • Total samples: 6390
  • soil counts: 265
  • aquatic counts: 5836
  • animal counts: 238
  • plant counts: 51

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
238481Risk group (German classification)
1164071Risk group (French classification)

Sequence information

16S sequences

  • @ref: 23848
  • description: Octadecabacter antarcticus 307 16S ribosomal RNA gene, partial sequence
  • accession: U14583
  • length: 1389
  • database: ena
  • NCBI tax ID: 391626

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Octadecabacter antarcticus 307GCA_000155675completencbi391626
66792Octadecabacter antarcticus 307391626.16plasmidpatric391626
66792Octadecabacter antarcticus 3072510461047completeimg391626

GC content

  • @ref: 23848
  • GC-content: 56
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno56.762no
flagellatedno88.821no
gram-positiveno98.076no
anaerobicno98.364no
aerobicyes88.112no
halophileyes68.863no
spore-formingno95.362no
thermophileno96.615no
glucose-utilyes61.443yes
glucose-fermentno90.135yes

External links

@ref: 23848

culture collection no.: DSM 28635, CIP 106731

straininfo link

  • @ref: 90415
  • straininfo: 265615

Reference

@idauthorstitledoi/urlcatalogue
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
23848Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-28635Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 28635)
39563Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18894
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
68369Automatically annotated from API 20NE
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
90415Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID265615.1
116407Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106731Collection of Institut Pasteur (CIP 106731)