Strain identifier

BacDive ID: 6045

Type strain: Yes

Species: Halomonas taeanensis

Strain Designation: BH539, 29.101

Strain history: CIP <- 2005, DSMZ <- C.J. Kim, KRIBB <- 2003, J.C. Lee, KRIBB: strain BH539

NCBI tax ID(s): 284577 (species)

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General

@ref: 6454

BacDive-ID: 6045

DSM-Number: 16463

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

description: Halomonas taeanensis BH539 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from solar saltern.

NCBI tax id

  • NCBI tax id: 284577
  • Matching level: species

strain history

@refhistory
6454<- C.-J. Kim <- J.-C. Lee; BH539 {2003}
67771<- CJ Kim, KRIBB
123410CIP <- 2005, DSMZ <- C.J. Kim, KRIBB <- 2003, J.C. Lee, KRIBB: strain BH539

doi: 10.13145/bacdive6045.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Oceanospirillales
  • family: Halomonadaceae
  • genus: Halomonas
  • species: Halomonas taeanensis
  • full scientific name: Halomonas taeanensis Lee et al. 2005

  • synonyms

    • @ref: 20215
    • synonym: Onishia taeanensis

@ref: 6454

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Oceanospirillales

family: Halomonadaceae

genus: Halomonas

species: Halomonas taeanensis

full scientific name: Halomonas taeanensis Lee et al. 2005

strain designation: BH539, 29.101

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
31460negative2.6 µm0.8 µmrod-shapedyes
67771negative
69480yes98.833
69480negative99.997
123410negativerod-shapedyes

pigmentation

  • @ref: 31460
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6454BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)yeshttps://mediadive.dsmz.de/medium/514Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514; with strain-specific modifications) Composition: NaCl 80.0 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
38375Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
123410CIP Medium 23yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=23
123410CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
6454positivegrowth35mesophilic
31460positivegrowth10-45
31460positiveoptimum35mesophilic
38375positivegrowth37mesophilic
67771positivegrowth34mesophilic

culture pH

@refabilitytypepHPH range
31460positivegrowth7.0-10.0alkaliphile
31460positiveoptimum7.75

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
6454aerobe
31460aerobe
67771aerobe
123410facultative anaerobe

spore formation

@refspore formationconfidence
31460no
69481no100
69480no99.99

halophily

@refsaltgrowthtested relationconcentration
31460NaClpositivegrowth01-25 %
31460NaClpositiveoptimum11 %

observation

  • @ref: 31460
  • observation: aggregates in clumps

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3146022599arabinose+carbon source
3146028757fructose+carbon source
3146017234glucose+carbon source
3146017716lactose+carbon source
3146017306maltose+carbon source
3146029864mannitol+carbon source
3146037684mannose+carbon source
3146027082trehalose+carbon source
3146016199urea+carbon source
3146017632nitrate+reduction
12341017632nitrate-reduction
12341016301nitrite-reduction

metabolite production

  • @ref: 123410
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
31460cytochrome oxidase+1.9.3.1
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase+3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
123410oxidase+
123410alcohol dehydrogenase-1.1.1.1
123410catalase+1.11.1.6
123410lysine decarboxylase-4.1.1.18
123410ornithine decarboxylase-4.1.1.17
123410urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
123410-+++-+----++---+----

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
6454solar salternRepublic of KoreaKORAsia
67771From soilRepublic of KoreaKORAsia
123410Solar salternRepublic of KoreaKORAsia

isolation source categories

  • Cat1: #Condition
  • Cat2: #Saline

taxonmaps

  • @ref: 69479
  • File name: preview.99_72710.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_48;96_20081;97_24961;98_31633;99_72710&stattab=map
  • Last taxonomy: Halomonas taeanensis
  • 16S sequence: AY671975
  • Sequence Identity:
  • Total samples: 398
  • soil counts: 24
  • aquatic counts: 162
  • animal counts: 199
  • plant counts: 13

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
64541Risk group (German classification)
1234101Risk group (French classification)

Sequence information

16S sequences

  • @ref: 6454
  • description: Halomonas taeanensis strain BH539 16S ribosomal RNA gene, partial sequence
  • accession: AY671975
  • length: 1408
  • database: ena
  • NCBI tax ID: 284577

Genome sequences

  • @ref: 66792
  • description: Halomonas taeanensis BH539
  • accession: GCA_900100755
  • assembly level: scaffold
  • database: ncbi
  • NCBI tax ID: 284577

GC content

@refGC-content
645465
6777165.0

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes93.657yes
flagellatedyes77.352no
gram-positiveno99.052yes
anaerobicno98.519yes
aerobicyes91.826yes
halophileyes94.946yes
spore-formingno96.497yes
glucose-fermentno74.082no
thermophileno98.362yes
glucose-utilyes92.044yes

External links

@ref: 6454

culture collection no.: DSM 16463, CIP 109003, KCTC 12284

straininfo link

  • @ref: 75532
  • straininfo: 232801

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny16166705Halomonas taeanensis sp. nov., a novel moderately halophilic bacterium isolated from a solar saltern in Korea.Lee JC, Jeon CO, Lim JM, Lee SM, Lee JM, Song SM, Park DJ, Li WJ, Kim CJInt J Syst Evol Microbiol10.1099/ijs.0.63616-02005Bacterial Typing Techniques, DNA, Bacterial/analysis, Genes, rRNA, Geologic Sediments/*microbiology, Halomonas/*classification/genetics/isolation & purification/physiology, Korea, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, RNA, Ribosomal, 23S/genetics, Sequence Analysis, DNA, *Sodium Chloride, SunlightGenetics
Phylogeny19060071Halomonas salifodinae sp. nov., a halophilic bacterium isolated from a salt mine in China.Wang Y, Wu YH, Wang CS, Xu XW, Oren A, Zhu XF, Wu MInt J Syst Evol Microbiol10.1099/ijs.0.2008/000729-02008Halomonas/*classification/genetics/isolation & purification/*physiology, *Mining, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, *Salts, Species SpecificityGenetics
Phylogeny35802152Halomonas salinarum sp. nov., a moderately halophilic bacterium isolated from saline soil in Yingkou, China.Yin YL, Li FL, Wang LArch Microbiol10.1007/s00203-022-03032-32022Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Halomonas, Nucleic Acid Hybridization, Phospholipids/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, SoilTranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
6454Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16463)https://www.dsmz.de/collection/catalogue/details/culture/DSM-16463
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
31460Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2776128776041
38375Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/6697
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 updates33211880Nucleic Acids Res. 49: D498-D508 2020
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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
75532Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID232801.1StrainInfo: A central database for resolving microbial strain identifiers
123410Curators of the CIPCollection of Institut Pasteur (CIP 109003)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109003