Strain identifier

BacDive ID: 13654

Type strain: Yes

Species: Antarctobacter heliothermus

Strain Designation: EL-219

Strain history: CIP <- 2000, P. Hirsch, Kiel Univ., Kiel, Germany: strain EL-219

NCBI tax ID(s): 74033 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 4370

BacDive-ID: 13654

DSM-Number: 11445

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

description: Antarctobacter heliothermus EL-219 is a psychrophilic, Gram-negative, rod-shaped bacterium that was isolated from water sediment.

NCBI tax id

  • NCBI tax id: 74033
  • Matching level: species

strain history

@refhistory
4370<- M. Labrenz <- P. Hirsch, Inst. Allg. Mikrobiol. Univ. Kiel
119859CIP <- 2000, P. Hirsch, Kiel Univ., Kiel, Germany: strain EL-219

doi: 10.13145/bacdive13654.20230509.8.1

Name and taxonomic classification

LPSN

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

@ref: 4370

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodobacterales

family: Rhodobacteraceae

genus: Antarctobacter

species: Antarctobacter heliothermus

full scientific name: Antarctobacter heliothermus Labrenz et al. 1998

strain designation: EL-219

type strain: yes

Morphology

cell morphology

  • @ref: 119859
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
4370BACTO 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
4370EKHO LAKE STRAINS MEDIUM (DSMZ Medium 621a)yeshttps://mediadive.dsmz.de/medium/621aName: EKHO LAKE STRAINS MEDIUM (DSMZ Medium 621a) Composition: NaCl 22.6553 g/l Agar 15.0 g/l MgCl2 x 6 H2O 4.80666 g/l Na2SO4 3.77991 g/l CaCl2 1.06343 g/l KCl 0.64076 g/l MgSO4 x 7 H2O 0.625264 g/l Glucose 0.25 g/l Peptone 0.25 g/l Yeast extract 0.25 g/l Nitrilotriacetic acid 0.210526 g/l NaHCO3 0.18528 g/l CaCl2 x 2 H2O 0.0703158 g/l H3BO3 0.02509 g/l SrCl2 0.02316 g/l KBr 0.00579 g/l NaF 0.002895 g/l FeSO4 x 7 H2O 0.00208422 g/l Na2MoO4 x 2 H2O 0.000266736 g/l Pyridoxine hydrochloride 0.0001 g/l D-Calcium pantothenate 5e-05 g/l Nicotinamide 5e-05 g/l Thiamine-HCl x 2 H2O 5e-05 g/l Riboflavine 5e-05 g/l p-Aminobenzoic acid 5e-05 g/l Folic acid 2e-05 g/l Biotin 2e-05 g/l Vitamin B12 1e-06 g/l Metall salt sol. 44 Distilled water
32962Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
119859CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
4370positivegrowth20psychrophilic
32962positivegrowth22psychrophilic
119859positivegrowth15-30
119859nogrowth5psychrophilic
119859nogrowth37mesophilic
119859nogrowth41thermophilic
119859nogrowth45thermophilic

Physiology and metabolism

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836959640N-acetylglucosamine-assimilation
6836916899D-mannitol+assimilation
683695291gelatin-hydrolysis
683694853esculin+hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate+reduction
1198594853esculin-hydrolysis
119859606565hippurate-hydrolysis
11985917632nitrate-builds gas from
11985917632nitrate+reduction
11985916301nitrite-builds gas from
11985916301nitrite-reduction

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
11985935581indoleno

metabolite tests

@refChebi-IDmetaboliteindole testvoges-proskauer-testmethylred-test
6836935581indole-
11985915688acetoin-
11985917234glucose-

enzymes

@refvalueactivityec
4370catalase+1.11.1.6
4370cytochrome-c oxidase+1.9.3.1
68369gelatinase-
68369beta-glucosidase+3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
119859oxidase+
119859beta-galactosidase+3.2.1.23
119859alcohol dehydrogenase-1.1.1.1
119859gelatinase+/-
119859amylase+
119859caseinase-3.4.21.50
119859catalase-1.11.1.6
119859tween esterase+
119859gamma-glutamyltransferase+2.3.2.2
119859lecithinase-
119859lipase-
119859lysine decarboxylase-4.1.1.18
119859ornithine decarboxylase-4.1.1.17
119859phenylalanine ammonia-lyase+4.3.1.24
119859protease-
119859tryptophan deaminase-
119859urease+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
119859-+++-+-----+--------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPAC
4370+----+-++/-+/-+/-+-+/-+/---+/-++/-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcontinentcountryorigin.country
4370water sedimenteast site of Antarctica, Ekho Lake, Vestfold HillsAustralia and Oceania
119859Environment, Water samplesEkho lakeAntarcticaAntarcticaATA

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #Sediment

taxonmaps

  • @ref: 69479
  • File name: preview.99_9170.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_19;96_4379;97_5332;98_6741;99_9170&stattab=map
  • Last taxonomy: Antarctobacter heliothermus subclade
  • 16S sequence: Y11552
  • Sequence Identity:
  • Total samples: 951
  • soil counts: 41
  • aquatic counts: 847
  • animal counts: 55
  • plant counts: 8

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
43701Risk group (German classification)
1198591Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Antarctobacter heliothermus strain DSM11445 16S ribosomal RNA gene, partial sequenceDQ9156021298ena74033
4370Antarctobacter heliothermus 16S rRNA gene, strain EL-219Y115521400ena74033

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Antarctobacter heliothermus DSM 11445GCA_900188425scaffoldncbi74033
66792Antarctobacter heliothermus strain DSM 1144574033.6wgspatric74033
66792Antarctobacter heliothermus DSM 114452619619037draftimg74033

GC content

  • @ref: 4370
  • GC-content: 63.3-62.8
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno53.679no
flagellatedno79.046no
gram-positiveno98.403no
anaerobicno97.645no
aerobicyes90.612no
halophileyes65.709no
spore-formingno95.433no
thermophileno98.461no
glucose-utilyes85.652no
glucose-fermentno89.43yes

External links

@ref: 4370

culture collection no.: DSM 11445, CIP 106394

straininfo link

  • @ref: 82837
  • straininfo: 49112

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny9828438Antarctobacter heliothermus gen. nov., sp. nov., a budding bacterium from hypersaline and heliothermal Ekho Lake.Labrenz M, Collins MD, Lawson PA, Tindall BJ, Braker G, Hirsch PInt J Syst Bacteriol10.1099/00207713-48-4-13631998Antarctic Regions, Bacteria/classification/*isolation & purification, Bacterial Physiological Phenomena, Culture Media, DNA, Bacterial/chemistry, DNA, Ribosomal/chemistry, Fresh Water/*microbiology, Genes, rRNA, Gram-Negative Aerobic Bacteria/classification/*isolation & purification/physiology, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Terminology as TopicEnzymology
Phylogeny25195066Antarctobacter jejuensis sp. nov., isolated from seawater in Jeju, Korea.Kim H, Lee JB, Oh HW, Lee H, Shin KS, Bae KS, Park DSAntonie Van Leeuwenhoek10.1007/s10482-014-0276-32014Bacterial Typing Techniques, Base Composition, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Hydrogen-Ion Concentration, Korea, Locomotion, Molecular Sequence Data, Phospholipids/analysis, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/*isolation & purification/physiology, Seawater/*microbiology, Sequence Analysis, DNA, Sodium Chloride/metabolism, TemperatureGenetics
Phylogeny25908713Alkalimicrobium pacificum gen. nov., sp. nov., a marine bacterium in the family Rhodobacteraceae.Zhang G, Yang Y, Wang S, Sun Z, Jiao KInt J Syst Evol Microbiol10.1099/ijs.0.0002822015Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Molecular Sequence Data, Pacific Ocean, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/isolation & purification, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/chemistryGenetics
Genetics30310524Whole-Genome Sequence of the Novel Antarctobacter heliothermus Strain SMS3, Found in Association with the Marine Diatom Skeletonema marinoi.Topel M, Pinder MIM, Johansson ON, Kourtchenko O, Godhe A, Clarke AKJ Genomics10.7150/jgen.276372018

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
4370Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 11445)https://www.dsmz.de/collection/catalogue/details/culture/DSM-11445
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
32962Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18519
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
82837Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID49112.1StrainInfo: A central database for resolving microbial strain identifiers
119859Curators of the CIPCollection of Institut Pasteur (CIP 106394)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106394