Strain identifier

BacDive ID: 23832

Type strain: Yes

Species: Cellulomonas marina

Strain Designation: FXJ8.089

Strain history: CGMCC 4.6945 <-- Y. Huang; Inst of Microbiol., CAS, China; FXJ8.089.

NCBI tax ID(s): 988821 (species)

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General

@ref: 20496

BacDive-ID: 23832

DSM-Number: 24960

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-positive, motile, coccus-shaped

description: Cellulomonas marina FXJ8.089 is a facultative anaerobe, mesophilic, Gram-positive bacterium that was isolated from deep-sea water.

NCBI tax id

  • NCBI tax id: 988821
  • Matching level: species

strain history

@refhistory
20496<- Y. Huang, Chinese Acad. Sci. (CAS), Beijing; CGMCC 4.6945 <- L. Xi
67770CGMCC 4.6945 <-- Y. Huang; Inst of Microbiol., CAS, China; FXJ8.089.

doi: 10.13145/bacdive23832.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micrococcales
  • family: Cellulomonadaceae
  • genus: Cellulomonas
  • species: Cellulomonas marina
  • full scientific name: Cellulomonas marina Zhang et al. 2013

@ref: 20496

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Cellulomonadaceae

genus: Cellulomonas

species: Cellulomonas marina

full scientific name: Cellulomonas marina Zhang et al. 2013 emend. Nouioui et al. 2018

strain designation: FXJ8.089

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
30980positivecoccus-shapedyes
69480positive100

Culture and growth conditions

culture medium

  • @ref: 20496
  • name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/65
  • composition: Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
20496positivegrowth28mesophilic
30980positivegrowth04-37
30980positiveoptimum26.5mesophilic
67770positivegrowth28mesophilic

culture pH

@refabilitytypepHPH range
30980positivegrowth06-11alkaliphile
30980positiveoptimum7.5

Physiology and metabolism

oxygen tolerance

  • @ref: 30980
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore formationconfidence
30980no
69480no99.85

halophily

  • @ref: 30980
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-3 %

observation

  • @ref: 67770
  • observation: quinones: MK-9(H4)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3098017057cellobiose+carbon source
3098028260galactose+carbon source
3098017234glucose+carbon source
3098017754glycerol+carbon source
3098017716lactose+carbon source
3098037684mannose+carbon source
3098026546rhamnose+carbon source
3098033942ribose+carbon source
3098017992sucrose+carbon source
3098027082trehalose+carbon source
3098017632nitrate+reduction

metabolite production

  • @ref: 30980
  • Chebi-ID: 16136
  • metabolite: hydrogen sulfide
  • production: yes

enzymes

@refvalueactivityec
30980catalase+1.11.1.6
30980gelatinase+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitude
20496deep-sea watersouthwest Indian Ocean (49° 39' E 37° 47' S, 2800 m depth)ChinaCHNAsia-37.783349.65
67770Deep-sea water from the southwest Indian Ocean (37° 47' S 49° 39' E) at a depth of 2,800 m-37.783349.65

isolation source categories

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

Safety information

risk assessment

  • @ref: 20496
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 20496
  • description: Cellulomonas marina strain FXJ8.089 16S ribosomal RNA gene, partial sequence
  • accession: JF346422
  • length: 1445
  • database: ena
  • NCBI tax ID: 988821

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Cellulomonas marina NBRC 110784GCA_016862715contigncbi988821
66792Cellulomonas marina strain CGMCC 4.6945988821.3wgspatric988821
66792Cellulomonas marina strain NBRC 110784988821.4wgspatric988821
66792Cellulomonas marina CGMCC 4.69452675903053draftimg988821
67770Cellulomonas marina CGMCC 4.6945GCA_900111925contigncbi988821

GC content

@refGC-contentmethod
2049670.3high performance liquid chromatography (HPLC)
3098070.3
6777075.6genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes85no
motileyes80.633no
flagellatedno88.877no
gram-positiveyes90.601yes
anaerobicno99.064no
halophileno91.039no
spore-formingno91.144yes
glucose-utilyes87.621yes
aerobicyes89.12no
thermophileno98.802yes
glucose-fermentno75.28no

External links

@ref: 20496

culture collection no.: DSM 24960, CGMCC 4.6945, NBRC 110784, JCM 30777

straininfo link

  • @ref: 87857
  • straininfo: 405346

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny23396721Cellulomonas marina sp. nov., isolated from deep-sea water.Zhang L, Xi L, Qiu D, Song L, Dai X, Ruan J, Huang YInt J Syst Evol Microbiol10.1099/ijs.0.048876-02013Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, Cellulomonas/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/analysis, Indian Ocean, Molecular Sequence Data, Peptidoglycan/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/analysis, *Water MicrobiologyGenetics
Phylogeny32877326Cellulomonas citrea sp. nov., isolated from paddy soil.Lee HJ, Kim SY, Whang KSInt J Syst Evol Microbiol10.1099/ijsem.0.0044092020Bacterial Typing Techniques, Base Composition, Cellulomonas/*classification/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, *Oryza, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorstitledoi/urlcatalogueID_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
20496Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-24960Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 24960)
30980Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172731028776041
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/
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
87857Reimer, 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-ID405346.1