Strain identifier

BacDive ID: 12582

Type strain: Yes

Species: Cellulosimicrobium terreum

Strain Designation: DS-61

Strain history: <- JH Yoon, KRIBB

NCBI tax ID(s): 412439 (species)

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: 7646

BacDive-ID: 12582

DSM-Number: 18665

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-positive, coccus-shaped

description: Cellulosimicrobium terreum DS-61 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from soil.

NCBI tax id

  • NCBI tax id: 412439
  • Matching level: species

strain history

@refhistory
7646<- Jung-Hoon Yoon, DS-61
67770KCTC 19206 <-- J.-H. Yoon DS-61.
67771<- JH Yoon, KRIBB

doi: 10.13145/bacdive12582.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micrococcales
  • family: Promicromonosporaceae
  • genus: Cellulosimicrobium
  • species: Cellulosimicrobium terreum
  • full scientific name: Cellulosimicrobium terreum Yoon et al. 2007

@ref: 7646

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Promicromonosporaceae

genus: Cellulosimicrobium

species: Cellulosimicrobium terreum

full scientific name: Cellulosimicrobium terreum Yoon et al. 2007

strain designation: DS-61

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
32055positive1.2 µm0.6 µmcoccus-shapedno
67771positive
69480no91.992
69480positive100

pigmentation

  • @ref: 32055
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 7646
  • name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/92
  • composition: Name: 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
7646positivegrowth28mesophilic
32055positivegrowth04-34
32055positiveoptimum25mesophilic
67770positivegrowth28mesophilic
67771positivegrowth25mesophilic

culture pH

@refabilitytypepHPH range
32055positivegrowth06-09alkaliphile
32055positiveoptimum7

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
32055aerobe
67771aerobe

spore formation

@refspore formationconfidence
32055no
69481no99
69480no97.053

halophily

@refsaltgrowthtested relationconcentration
32055NaClpositivegrowth0-9 %
32055NaClpositiveoptimum1 %

murein

  • @ref: 7646
  • murein short key: A11.45
  • type: A4alpha L-Lys-L-Thr-D-Asp

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3205530089acetate+carbon source
3205522599arabinose+carbon source
3205517057cellobiose+carbon source
3205528757fructose+carbon source
3205528260galactose+carbon source
3205517234glucose+carbon source
3205529987glutamate+carbon source
3205517306maltose+carbon source
3205537684mannose+carbon source
3205515361pyruvate+carbon source
3205517814salicin+carbon source
3205517992sucrose+carbon source
3205527082trehalose+carbon source
3205553424tween 20+carbon source
3205553423tween 40+carbon source
3205553425tween 60+carbon source
3205553426tween 80+carbon source
3205516199urea+carbon source
3205518222xylose+carbon source
320554853esculin+hydrolysis
3205517632nitrate+reduction

enzymes

@refvalueactivityec
32055acid phosphatase+3.1.3.2
32055alkaline phosphatase+3.1.3.1
32055catalase+1.11.1.6
32055urease+3.5.1.5

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
7646soilDokdoRepublic of KoreaKORAsia
67770Soil
67771From soilDokdoRepublic of KoreaKORAsia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

Safety information

risk assessment

  • @ref: 7646
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 7646
  • description: Cellulosimicrobium terreum strain DS-61 16S ribosomal RNA gene, partial sequence
  • accession: EF076760
  • length: 1478
  • database: ena
  • NCBI tax ID: 412439

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Cellulosimicrobium terreum KCTC 19206GCA_014803435scaffoldncbi412439
66792Cellulosimicrobium terreum strain JCM 15619412439.4wgspatric412439
66792Cellulosimicrobium terreum strain KCTC 19206412439.6wgspatric412439
67770Cellulosimicrobium terreum JCM 15619GCA_004114655contigncbi412439

GC content

@refGC-contentmethod
764672.9
6777072.9high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno99no
flagellatedno98.215yes
gram-positiveyes89.232yes
anaerobicno99.235no
aerobicyes90.818yes
halophileno87.878no
spore-formingno85.561yes
glucose-utilyes92.659yes
thermophileno99.012yes
motileno89.906yes
glucose-fermentno78.165no

External links

@ref: 7646

culture collection no.: DSM 18665, KCTC 19206, JCM 15619, NBRC 106259

straininfo link

  • @ref: 81796
  • straininfo: 399003

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17978207Cellulosimicrobium terreum sp. nov., isolated from soil.Yoon JH, Kang SJ, Schumann P, Oh TKInt J Syst Evol Microbiol10.1099/ijs.0.64889-02007Actinomycetales/*classification/genetics/isolation & purification/physiology, Bacterial Typing Techniques, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genes, rRNA, Korea, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Species SpecificityGenetics
Phylogeny26373417Cellulosimicrobium aquatile sp. nov., isolated from Panagal reservoir, Nalgonda, India.Sultanpuram VR, Mothe T, Chintalapati S, Chintalapati VRAntonie Van Leeuwenhoek10.1007/s10482-015-0588-y2015Actinobacteria/*classification/genetics/*isolation & purification/physiology, Aerobiosis, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, India, Lysine/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analysisGenetics
Phylogeny29480418Cellulosimicrobium arenosum sp. nov., Isolated from Marine Sediment Sand.Oh M, Kim JH, Yoon JH, Schumann P, Kim WCurr Microbiol10.1007/s00284-018-1464-62018Actinomycetales/classification/genetics/*isolation & purification/metabolism, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry/metabolism, Geologic Sediments/*microbiology, Peptidoglycan/chemistry/metabolism, Phylogeny, RNA, Ribosomal, 16S/geneticsMetabolism
Phylogeny35348452Cellulosimicrobium protaetiae sp. nov., isolated from the gut of the larva of Protaetia brevitarsis seulensis.Le Han H, Nguyen TTH, Li Z, Shin NR, Kim SGInt J Syst Evol Microbiol10.1099/ijsem.0.0052962022Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, *Fatty Acids/chemistry, Larva/microbiology, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNATranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
7646Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18665)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18665
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
32055Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2830428776041
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
81796Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID399003.1StrainInfo: A central database for resolving microbial strain identifiers