Strain identifier

BacDive ID: 133617

Type strain: Yes

Species: Paraurantiacibacter namhicola

Strain Designation: KYW48

Strain history: <- CN Seong, Sunchon Natl. Univ.

NCBI tax ID(s): 645517 (species)

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General

@ref: 29794

BacDive-ID: 133617

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

description: Paraurantiacibacter namhicola KYW48 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from seawater.

NCBI tax id

  • NCBI tax id: 645517
  • Matching level: species

strain history

@refhistory
67770C. N. Seong KYW48.
67771<- CN Seong, Sunchon Natl. Univ.

doi: 10.13145/bacdive133617.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Sphingomonadales
  • family: Erythrobacteraceae
  • genus: Paraurantiacibacter
  • species: Paraurantiacibacter namhicola
  • full scientific name: Paraurantiacibacter namhicola (Park et al. 2011) Xu et al. 2020

  • synonyms

    • @ref: 20215
    • synonym: Altererythrobacter namhicola

@ref: 29794

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Sphingomonadales

family: Erythrobacteraceae

genus: Altererythrobacter

species: Altererythrobacter namhicola

strain designation: KYW48

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
29794negative1.4 µm1 µmrod-shapedno
67771negative
69480negative99.977

pigmentation

  • @ref: 29794
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
29794positivegrowth15-37
29794positiveoptimum30mesophilic
67770positivegrowth30mesophilic
67771positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
29794positivegrowth05-11alkaliphile
29794positiveoptimum6.5

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
29794aerobe
67771aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.978

halophily

@refsaltgrowthtested relationconcentration
29794NaClpositivegrowth01-02 %
29794NaClpositiveoptimum1 %

observation

  • @ref: 67770
  • observation: quinones: Q-10

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2979430089acetate+carbon source
2979421217L-alaninamide+carbon source
2979416449alanine+carbon source
2979440585alpha-cyclodextrin+carbon source
2979423652dextrin+carbon source
2979450048phenylethylamine+carbon source
2979428044phenylalanine+carbon source
2979426271proline+carbon source
2979417822serine+carbon source
2979430031succinate+carbon source
2979453424tween 20+carbon source
2979453426tween 80+carbon source
297944853esculin+hydrolysis

enzymes

@refvalueactivityec
29794acid phosphatase+3.1.3.2
29794alkaline phosphatase+3.1.3.1
29794catalase+1.11.1.6
29794cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
29794seawater
67770Seawater
67771From seawaterGwangyang bayRepublic of KoreaKORAsia

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_3823.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_20;96_1962;97_2359;98_2912;99_3823&stattab=map
  • Last taxonomy: Paraurantiacibacter namhicola subclade
  • 16S sequence: FJ935793
  • Sequence Identity:
  • Total samples: 1617
  • soil counts: 78
  • aquatic counts: 1472
  • animal counts: 49
  • plant counts: 18

Sequence information

16S sequences

  • @ref: 29794
  • description: Altererythrobacter namhicola strain KYW48 16S ribosomal RNA gene, partial sequence
  • accession: FJ935793
  • length: 1430
  • database: nuccore
  • NCBI tax ID: 645517

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Paraurantiacibacter namhicola JCM 16345GCA_001687545completencbi645517
66792Altererythrobacter namhicola strain JCM 16345645517.4completepatric645517
66792Paraurantiacibacter namhicola JCM 163452751185748completeimg645517

GC content

@refGC-contentmethod
2979463.8
6777065genome sequence analysis
6777063.8thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno96.866yes
gram-positiveno98.104yes
anaerobicno99.037yes
aerobicyes89.695no
halophileno84.788yes
spore-formingno95.832no
glucose-utilyes85.64no
thermophileno96.154yes
motileno89.622yes
glucose-fermentno90.335no

External links

@ref: 29794

culture collection no.: KCTC 22736, JCM 16345

Reference

@idauthorstitledoi/urlID_cross_referencepubmedjournal
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
29794Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172617228776041
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
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa102533211880Nucleic Acids Res. 49: D498-D508 2020
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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/
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