Strain identifier

BacDive ID: 12581

Type strain: Yes

Species: Cellulosimicrobium funkei

Strain Designation: C8821, W6122

Culture col. no.: DSM 16025, ATCC BAA 886, CCUG 50705

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 6147

BacDive-ID: 12581

DSM-Number: 16025

keywords: gram-positive, mesophilic, aerobe, Bacteria, 16S sequence, genome sequence, motile, rod-shaped, human pathogen

description: Cellulosimicrobium funkei C8821 is an aerobe, mesophilic, gram-positive human pathogen that was isolated from blood, endocarditis patient.

strain history

doi: 10.13145/bacdive12581.20201210.5

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinobacteria
  • domain: Bacteria
  • phylum: Actinobacteria
  • class: Actinobacteria
  • order: Micrococcales
  • family: Promicromonosporaceae
  • genus: Cellulosimicrobium
  • species: Cellulosimicrobium funkei
  • full scientific name: Cellulosimicrobium funkei Brown et al. 2006
  • synonyms

    • @ref: 20215
    • synonym: Cellulosimicrobium aquatile

@ref: 6147

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Promicromonosporaceae

genus: Cellulosimicrobium

species: Cellulosimicrobium funkei

full scientific name: Cellulosimicrobium funkei Brown et al. 2006

strain designation: C8821, W6122

type strain: yes

Morphology

cell morphology

  • @ref: 31606
  • gram stain: positive
  • cell length: 1 µm
  • cell width: 1 µm
  • cell shape: rod-shaped
  • motility: yes

colony morphology

@refcolony colorincubation periodmedium used
19738Zinc yellow (1018)10-14 daysISP 2
19738Zinc yellow (1018)10-14 daysISP 3
19738Zinc yellow (1018)10-14 daysISP 4
19738Zinc yellow (1018)10-14 daysISP 5
19738Beige (1001)10-14 daysISP 6
19738Zinc yellow (1018)10-14 daysISP 7

multicellular morphology

@refforms multicellular complexmedium name
19738noISP 2
19738noISP 3
19738noISP 4
19738noISP 5
19738noISP 6
19738noISP 7

pigmentation

  • @ref: 31606
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6147TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium92.pdf
19738ISP 2yesName: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
19738ISP 3yesName: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
19738ISP 4yesName: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
19738ISP 5yesName: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
19738ISP 6yesName: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
19738ISP 7yesName: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes
34976MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)

culture temp

@refgrowthtypetemperaturerange
6147positivegrowth28mesophilic
19738positiveoptimum28mesophilic
31606positivegrowth30-35mesophilic
31606positiveoptimum25-35mesophilic
34976positivegrowth37mesophilic
58951positivegrowth22-42

culture pH

@refabilitytypepH
31606positivegrowth7
31606positiveoptimum7

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
31606aerobe
58951aerobe

spore formation

  • @ref: 31606
  • spore formation: no

observation

  • @ref: 31606
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3160622599arabinose+carbon source
3160617057cellobiose+carbon source
3160628757fructose+carbon source
3160628260galactose+carbon source
3160617234glucose+carbon source
3160617754glycerol+carbon source
3160617716lactose+carbon source
3160617306maltose+carbon source
3160637684mannose+carbon source
3160617814salicin+carbon source
3160617992sucrose+carbon source
3160627082trehalose+carbon source
3160618222xylose+carbon source

enzymes

  • @ref: 31606
  • value: catalase
  • activity: +
  • ec: 1.11.1.6

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
19738++++-+++++/-++-+-+-++

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
19738+++-+----++-+-+++--

Isolation, sampling and environmental information

isolation

  • @ref: 6147
  • sample type: blood, endocarditis patient
  • geographic location: Colorado
  • country: USA
  • origin.country: USA
  • continent: North America

isolation source categories

Cat1Cat2Cat3
#Infection#Patient
#Host Body Product#Fluids#Blood

Safety information

risk assessment

@refpathogenicity humanbiosafety levelbiosafety level comment
6147yes1Risk group (German classification)
197382Risk group

Sequence information

16S sequences

  • @ref: 6147
  • description: Cellulosimicrobium funkei strain W6122 16S small subunit ribosomal RNA gene, partial sequence
  • accession: AY501364
  • length: 1444
  • database: ena
  • NCBI tax ID: 264251

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Cellulosimicrobium funkei JCM 14302GCA_004519295contigncbi264251
66792Cellulosimicrobium funkei U11GCA_001019615contigncbi264251
66792Cellulosimicrobium funkei MOSEL-ME6GCA_013359485contigncbi264251
66792Cellulosimicrobium funkei strain JCM 14302264251.7wgspatric264251
66792Cellulosimicrobium funkei strain U11264251.5wgspatric264251

GC content

  • @ref: 6147
  • GC-content: 74.5

External links

@ref: 6147

culture collection no.: DSM 16025, ATCC BAA 886, CCUG 50705

straininfo link

@refpassport
20218http://www.straininfo.net/strains/532123
20218http://www.straininfo.net/strains/377212
20218http://www.straininfo.net/strains/532120

Reference

@idauthorscataloguedoi/urltitlejournalpubmedID_cross_reference
6147Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16025)https://www.dsmz.de/collection/catalogue/details/culture/DSM-16025
19738Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM16025.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
20215D.Gleim, M.Kracht, N.Weiss et. al.http://www.dsmz.de/bacterial-diversity/prokaryotic-nomenclature-up-to-date.htmlProkaryotic Nomenclature Up-to-date - compilation of all names of Bacteria and Archaea, validly published according to the Bacteriological Code since 1. Jan. 1980, and validly published nomenclatural changes since
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
2789410.1099/ijs.0.63882-0
31606Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information27894
34976Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/6598
58951Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 50705)https://www.ccug.se/strain?id=50705
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)