Strain identifier
BacDive ID: 12581
Type strain: 
Species: Cellulosimicrobium funkei
Strain Designation: C8821, W6122
Culture col. no.: DSM 16025, ATCC BAA 886, CCUG 50705
version 5.0 (current version)
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
| @ref | colony color | incubation period | medium used |
|---|---|---|---|
| 19738 | Zinc yellow (1018) | 10-14 days | ISP 2 |
| 19738 | Zinc yellow (1018) | 10-14 days | ISP 3 |
| 19738 | Zinc yellow (1018) | 10-14 days | ISP 4 |
| 19738 | Zinc yellow (1018) | 10-14 days | ISP 5 |
| 19738 | Beige (1001) | 10-14 days | ISP 6 |
| 19738 | Zinc yellow (1018) | 10-14 days | ISP 7 |
multicellular morphology
| @ref | forms multicellular complex | medium name |
|---|---|---|
| 19738 | no | ISP 2 |
| 19738 | no | ISP 3 |
| 19738 | no | ISP 4 |
| 19738 | no | ISP 5 |
| 19738 | no | ISP 6 |
| 19738 | no | ISP 7 |
pigmentation
- @ref: 31606
- production: yes
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 6147 | TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) | yes | https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium92.pdf | |
| 19738 | ISP 2 | yes | Name: 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 | |
| 19738 | ISP 3 | yes | Name: 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: | |
| 19738 | ISP 4 | yes | Name: 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 | |
| 19738 | ISP 5 | yes | Name: 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 | |
| 19738 | ISP 6 | yes | Name: 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 | |
| 19738 | ISP 7 | yes | Name: 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 | |
| 34976 | MEDIUM 72- for trypto casein soja agar | yes | Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g) |
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 6147 | positive | growth | 28 | mesophilic |
| 19738 | positive | optimum | 28 | mesophilic |
| 31606 | positive | growth | 30-35 | mesophilic |
| 31606 | positive | optimum | 25-35 | mesophilic |
| 34976 | positive | growth | 37 | mesophilic |
| 58951 | positive | growth | 22-42 |
culture pH
| @ref | ability | type | pH |
|---|---|---|---|
| 31606 | positive | growth | 7 |
| 31606 | positive | optimum | 7 |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance |
|---|---|
| 31606 | aerobe |
| 58951 | aerobe |
spore formation
- @ref: 31606
- spore formation: no
observation
- @ref: 31606
- observation: aggregates in chains
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 31606 | 22599 | arabinose | + | carbon source |
| 31606 | 17057 | cellobiose | + | carbon source |
| 31606 | 28757 | fructose | + | carbon source |
| 31606 | 28260 | galactose | + | carbon source |
| 31606 | 17234 | glucose | + | carbon source |
| 31606 | 17754 | glycerol | + | carbon source |
| 31606 | 17716 | lactose | + | carbon source |
| 31606 | 17306 | maltose | + | carbon source |
| 31606 | 37684 | mannose | + | carbon source |
| 31606 | 17814 | salicin | + | carbon source |
| 31606 | 17992 | sucrose | + | carbon source |
| 31606 | 27082 | trehalose | + | carbon source |
| 31606 | 18222 | xylose | + | carbon source |
enzymes
- @ref: 31606
- value: catalase
- activity: +
- ec: 1.11.1.6
API coryne
| @ref | NIT | PYZ | PYRA | PAL | beta GUR | beta GAL | alpha GLU | beta NAG | ESC | URE | GEL | GLU | RIB | XYL | MAN | MAL | LAC | SAC | GLYG |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 19738 | + | + | + | + | - | + | + | + | + | +/- | + | + | - | + | - | + | - | + | + |
API zym
| @ref | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- 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
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Infection | #Patient | |
| #Host Body Product | #Fluids | #Blood |
Safety information
risk assessment
| @ref | pathogenicity human | biosafety level | biosafety level comment |
|---|---|---|---|
| 6147 | yes | 1 | Risk group (German classification) |
| 19738 | 2 | Risk 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
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Cellulosimicrobium funkei JCM 14302 | GCA_004519295 | contig | ncbi | 264251 |
| 66792 | Cellulosimicrobium funkei U11 | GCA_001019615 | contig | ncbi | 264251 |
| 66792 | Cellulosimicrobium funkei MOSEL-ME6 | GCA_013359485 | contig | ncbi | 264251 |
| 66792 | Cellulosimicrobium funkei strain JCM 14302 | 264251.7 | wgs | patric | 264251 |
| 66792 | Cellulosimicrobium funkei strain U11 | 264251.5 | wgs | patric | 264251 |
GC content
- @ref: 6147
- GC-content: 74.5
External links
@ref: 6147
culture collection no.: DSM 16025, ATCC BAA 886, CCUG 50705
straininfo link
| @ref | passport |
|---|---|
| 20218 | http://www.straininfo.net/strains/532123 |
| 20218 | http://www.straininfo.net/strains/377212 |
| 20218 | http://www.straininfo.net/strains/532120 |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed | ID_cross_reference |
|---|---|---|---|---|---|---|---|
| 6147 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16025) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-16025 | ||||
| 19738 | Wink, J. | http://www.dsmz.de/microorganisms/wink_pdf/DSM16025.pdf | Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig | ||||
| 20215 | D.Gleim, M.Kracht, N.Weiss et. al. | http://www.dsmz.de/bacterial-diversity/prokaryotic-nomenclature-up-to-date.html | Prokaryotic 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 | ||||
| 20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | ||
| 27894 | 10.1099/ijs.0.63882-0 | ||||||
| 31606 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 27894 | |||
| 34976 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/6598 | |||||
| 58951 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 50705) | https://www.ccug.se/strain?id=50705 | ||||
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) |