Strain identifier

BacDive ID: 134349

Type strain: Yes

Species: Croceitalea dokdonensis

Strain history: K. K. Kwon DOKDO 023.

NCBI tax ID(s): 1300341 (strain), 346188 (species)

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General

@ref: 32564

BacDive-ID: 134349

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

description: Croceitalea dokdonensis KCCM 42308 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from rhizosphere of brown alga.

NCBI tax id

NCBI tax idMatching level
346188species
1300341strain

strain history

  • @ref: 67770
  • history: K. K. Kwon DOKDO 023.

doi: 10.13145/bacdive134349.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Flavobacteriaceae
  • genus: Croceitalea
  • species: Croceitalea dokdonensis
  • full scientific name: Croceitalea dokdonensis Lee et al. 2008

@ref: 32564

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Croceitalea

species: Croceitalea dokdonensis

type strain: yes

Morphology

cell morphology

  • @ref: 32564
  • gram stain: negative
  • cell length: 1.4-3.1 µm
  • cell width: 0.4-0.6 µm
  • cell shape: rod-shaped
  • motility: no

pigmentation

  • @ref: 32564
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
32564positivegrowth12-38
32564positiveoptimum35mesophilic
67770positivegrowth35mesophilic

culture pH

@refabilitytypepHPH range
32564positivegrowth07-10alkaliphile
32564positiveoptimum8.5-9

Physiology and metabolism

oxygen tolerance

  • @ref: 32564
  • oxygen tolerance: aerobe

spore formation

  • @ref: 32564
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
32564NaClpositivegrowth0.8-5.4 %
32564NaClpositiveoptimum3.1 %

observation

@refobservation
32564aggregates in chains
67770quinones: MK-6

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3256430089acetate+carbon source
3256416449alanine+carbon source
3256417057cellobiose+carbon source
3256423652dextrin+carbon source
3256428757fructose+carbon source
3256417234glucose+carbon source
3256417716lactose+carbon source
3256417306maltose+carbon source
3256437684mannose+carbon source
3256428053melibiose+carbon source
3256426271proline+carbon source
3256416634raffinose+carbon source
3256426986threonine+carbon source

enzymes

  • @ref: 32564
  • value: catalase
  • activity: +
  • ec: 1.11.1.6

Isolation, sampling and environmental information

isolation

@refsample typehost species
32564rhizosphere of brown alga
67770Rhizosphere of the marine alga Ecklonia kuromeEcklonia kurome

isolation source categories

Cat1Cat2Cat3
#Host#Algae#Brown Algae
#Host Body-Site#Plant#Rhizosphere

taxonmaps

  • @ref: 69479
  • File name: preview.99_674.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15779;96_416;97_471;98_542;99_674&stattab=map
  • Last taxonomy: Croceitalea dokdonensis subclade
  • 16S sequence: DQ191182
  • Sequence Identity:
  • Total samples: 793
  • soil counts: 117
  • aquatic counts: 511
  • animal counts: 155
  • plant counts: 10

Sequence information

16S sequences

  • @ref: 32564
  • description: Croceitalea dokdonensis strain DOKDO 023 16S ribosomal RNA gene, partial sequence
  • accession: DQ191182
  • length: 1467
  • database: nuccore
  • NCBI tax ID: 346188

GC content

@refGC-contentmethod
3256466.5
6777066.5high performance liquid chromatography (HPLC)

External links

@ref: 32564

culture collection no.: KCCM 42308, JCM 13826, DOKDO 023

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny18984684Description of Croceitalea gen. nov. in the family Flavobacteriaceae with two species, Croceitalea eckloniae sp. nov. and Croceitalea dokdonensis sp. nov., isolated from the rhizosphere of the marine alga Ecklonia kurome.Lee HS, Kwon KK, Yang SH, Bae SS, Park CH, Kim SJ, Lee JHInt J Syst Evol Microbiol10.1099/ijs.0.65697-02008Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Flavobacteriaceae/*classification/genetics/isolation & purification/physiology, Korea, Molecular Sequence Data, Phaeophyta/*microbiology, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Species SpecificityGenetics
Genetics26631417Genome sequence of the marine flavobacterium Croceitalea dokdonensis DOKDO 023 that contains proton- and sodium-pumping rhodopsins.Kwon SK, Lee HG, Kwak MJ, Kim JFMar Genomics10.1016/j.margen.2015.11.0112015Aquatic Organisms, Flavobacteriaceae/*genetics, Gene Expression Regulation, Bacterial/*physiology, Genome, Bacterial/*genetics, Phylogeny, Proton Pumps/genetics/metabolism, Rhodopsins, Microbial/genetics/*metabolism, Sodium-Potassium-Exchanging ATPase/genetics/metabolismMetabolism

Reference

@idauthorstitledoi/urlID_cross_referencepubmed
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
32564Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172878028776041
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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/