Strain identifier

BacDive ID: 133058

Type strain: Yes

Species: Kocuria oceani

Strain Designation: FXJ8.095

Strain history: <- Y. Huang, Chinese Acad. Sci. (CAS), Beijing; CGMCC 4.6946 <- L. Xi

NCBI tax ID(s): 988827 (species)

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General

@ref: 24846

BacDive-ID: 133058

DSM-Number: 24949

keywords: 16S sequence, Bacteria, aerobe, mesophilic, colony-forming

description: Kocuria oceani FXJ8.095 is an aerobe, mesophilic bacterium that forms circular colonies and was isolated from seawater from deep sea hydrothermal plume, concentrated in situ.

NCBI tax id

  • NCBI tax id: 988827
  • Matching level: species

strain history

  • @ref: 24846
  • history: <- Y. Huang, Chinese Acad. Sci. (CAS), Beijing; CGMCC 4.6946 <- L. Xi

doi: 10.13145/bacdive133058.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micrococcales
  • family: Micrococcaceae
  • genus: Kocuria
  • species: Kocuria oceani
  • full scientific name: Kocuria oceani Zhang et al. 2017

@ref: 24846

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Micrococcaceae

genus: Kocuria

species: Kocuria oceani

full scientific name: Kocuria oceani Zhang et al. 2017

strain designation: FXJ8.095

type strain: yes

Morphology

colony morphology

  • @ref: 25153
  • colony color: pinkish orange
  • colony shape: circular
  • incubation period: 3 days
  • medium used: ISP 2

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
25153ISP 2yes
24846TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yeshttps://mediadive.dsmz.de/medium/92Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
25153positiveoptimum25-28mesophilic
25153positivegrowth4-40
24846positivegrowth28mesophilic

culture pH

@refabilitytypepHPH range
25153positivegrowth6-10alkaliphile
25153positiveoptimum7-8

Physiology and metabolism

oxygen tolerance

  • @ref: 25153
  • oxygen tolerance: aerobe

spore formation

  • @ref: 25153
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
25153NaClpositivegrowth0-7 %(w/v)
25153NaCloptimum3 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2515316708adenine-hydrolysis
25153casein-hydrolysis
2515317113erythritol-carbon source
2515317234glucose-fermentation
2515316235guanine-hydrolysis
2515317368hypoxanthine-hydrolysis
2515333942ribose-carbon source
25153synanthrin-carbon source
2515353424tween 20-hydrolysis
2515353423tween 40-hydrolysis
2515353426tween 80-hydrolysis
2515316199urea-hydrolysis
2515315318xanthine-hydrolysis
2515336219alpha-lactose+carbon source
2515317057cellobiose+carbon source
2515315824D-fructose+carbon source
2515312936D-galactose+carbon source
2515365327D-xylose+carbon source
251535291gelatin+hydrolysis
2515317234glucose+carbon source
2515330849L-arabinose+carbon source
2515362345L-rhamnose+carbon source
2515317306maltose+carbon source
2515329864mannitol+carbon source
2515337684mannose+carbon source
2515317632nitrate+reduction
2515316634raffinose+carbon source
25153skimmed milk+degradation
2515328017starch+hydrolysis
2515317992sucrose+carbon source

metabolite production

@refChebi-IDmetaboliteproduction
2515315688acetoinno
2515316136hydrogen sulfideno
2515335581indoleno

metabolite tests

@refChebi-IDmetabolitemethylred-testvoges-proskauer-test
2515317234glucose-
2515315688acetoin-

enzymes

@refvalueactivityec
25153catalase+1.11.1.6
25153cytochrome oxidase-1.9.3.1

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    2515310-Methyl C16:0 / iso-C17:1ω9c0.9
    25153C15:0 anteiso65
    25153C17:0 anteiso1.7
    25153C17:1 anteiso ω9c3.2
    25153C14:00.8
    25153C16:00.6
    25153C16:1ω6c / C16:1ω7c2.4
    25153C18:1 2OH0.5
    25153C14:0 iso1.5
    25153C14:0 iso 3OH0.7
    25153C15:0 iso18.1
    25153C16:0 iso0.9
    25153C16:1 iso H0.8
    25153C17:0 iso0.6
    25153iso-C17:1 I / anteiso-C17:10.6
  • type of FA analysis: whole cell analysis
  • incubation medium: TSB (Tripticase soy broth)
  • agar/liquid: liquid
  • software version: Sherlock 6.0
  • library/peak naming table: TSBA 6
  • system: MIS MIDI

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountrylatitudelongitudesampling date
24846seawater from deep sea hydrothermal plume, concentrated in situIndian Ridge (49° 39' E 37° 47' S) at a depth of 2800 m, High SeaIndian Ocean-37.783349.65
251532010-01

isolation source categories

Cat1Cat2Cat3
#Engineered#Bioremediation#In situ
#Environmental#Aquatic#Hydrothermal vent
#Environmental#Aquatic#Marine
#Condition#Thermophilic (>45°C)

Safety information

risk assessment

  • @ref: 24846
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 24846
  • description: Kocuria oceani strain FXJ8.095 16S ribosomal RNA gene, partial sequence
  • accession: JF346427
  • length: 1450
  • database: ena
  • NCBI tax ID: 988827

GC content

@refGC-contentmethod
2515370.4-75.6high performance liquid chromatography (HPLC)
2484675.6high performance liquid chromatography (HPLC)

External links

@ref: 24846

culture collection no.: DSM 24949, CGMCC 4.6946

straininfo link

  • @ref: 91325
  • straininfo: 397167

literature

  • topic: Phylogeny
  • Pubmed-ID: 27902231
  • title: Kocuria oceani sp. nov., isolated from a deep-sea hydrothermal plume.
  • authors: Zhang L, Xi L, Ruan J, Huang Y
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.001599
  • year: 2017
  • mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Hydrothermal Vents/*microbiology, Micrococcaceae/*classification/genetics/isolation & purification, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/chemistry
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
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
24846Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-24949Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 24949)
25153L. X. Zhang, L.,Ruan, J.,Huang, Y.Kocuria oceani sp. nov., isolated from a deep-sea hydrothermal plume10.1099/ijsem.0.001599IJSEM 67: 164-169 201727902231
91325Reimer, 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-ID397167.1