Strain identifier

BacDive ID: 132285

Type strain: Yes

Species: Undibacterium aquatile

Strain Designation: THG-DN7.3

Strain history: T.-H. Yi; Kyung Hee Univ., South Korea; THG-DN7.3.

NCBI tax ID(s): 1537398 (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: 24074

BacDive-ID: 132285

DSM-Number: 103791

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

description: Undibacterium aquatile THG-DN7.3 is a mesophilic, Gram-negative bacterium that was isolated from waterfall sample.

NCBI tax id

  • NCBI tax id: 1537398
  • Matching level: species

strain history

@refhistory
24074<- KCTC <- J. Du and T.-H. Yi, Department of Oriental Medinial Material & Processing, Kyung Hee University, Kyunggi, Republic of Korea
67770T.-H. Yi; Kyung Hee Univ., South Korea; THG-DN7.3.

doi: 10.13145/bacdive132285.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Burkholderiales
  • family: Oxalobacteraceae
  • genus: Undibacterium
  • species: Undibacterium aquatile
  • full scientific name: Undibacterium aquatile Du et al. 2015

@ref: 24074

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Oxalobacteraceae

genus: Undibacterium

species: Undibacterium aquatile

full scientific name: Undibacterium aquatile Du et al. 2015

strain designation: THG-DN7.3

type strain: yes

Morphology

cell morphology

@refgram stainconfidencemotility
69480negative99.997
6948097.267yes

Culture and growth conditions

culture medium

  • @ref: 24074
  • name: R2A MEDIUM (DSMZ Medium 830)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/830
  • composition: Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
24074positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no100
69480no99.998

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

metabolite production

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
68369cytochrome oxidase+1.9.3.1
68369gelatinase+
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
24074+-----+------+------+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitude
24074waterfall samplewaterfall of Gyeryongsan mountain, DaejeonRepublic of KoreaKORAsia36.3878127.296
67770Waterfall

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic

Safety information

risk assessment

  • @ref: 24074
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
24074Undibacterium aquatile strain THG-DN7.3 16S ribosomal RNA gene, partial sequenceKM035973.31443ena1537398
67770Undibacterium aquatile strain THG-DN7.3 16S ribosomal RNA gene, partial sequenceKM0359731443ena1537398

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Undibacterium aquatile CCTCC AB 2015119GCA_014699135scaffoldncbi1537398
66792Undibacterium aquatile strain CCTCC AB 20151191537398.3wgspatric1537398
66792Undibacterium aquatile CCTCC AB 20151192920390971draftimg1537398

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedyes85.05no
gram-positiveno99.005no
anaerobicno97.988no
aerobicyes84.223no
halophileno97.531no
spore-formingno95.335no
glucose-utilyes61.675yes
thermophileno98.56yes
motileyes86.179no
glucose-fermentno90.247yes

External links

@ref: 24074

culture collection no.: DSM 103791, CCTCC AB 2015119, KCTC 42243, JCM 30323

straininfo link

  • @ref: 90632
  • straininfo: 396624

literature

  • topic: Phylogeny
  • Pubmed-ID: 26303040
  • title: Undibacterium aquatile sp. nov., isolated from a waterfall.
  • authors: Du J, Akter S, Won K, Singh H, Shik Yin C, Kook M, Yi TH
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.000545
  • year: 2015
  • mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Oxalobacteraceae/*classification/genetics/isolation & purification, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Ubiquinone/chemistry, *Water Microbiology
  • topic2: Transcriptome

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
24074Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-103791Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 103791)
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
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68369Automatically annotated from API 20NE
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
90632Reimer, 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-ID396624.1