Strain identifier
BacDive ID: 12582
Type strain:
Species: Cellulosimicrobium terreum
Strain Designation: DS-61
Strain history: <- JH Yoon, KRIBB
NCBI tax ID(s): 412439 (species)
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
@ref | history |
---|---|
7646 | <- Jung-Hoon Yoon, DS-61 |
67770 | KCTC 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
@ref | gram stain | cell length | cell width | cell shape | motility | confidence |
---|---|---|---|---|---|---|
32055 | positive | 1.2 µm | 0.6 µm | coccus-shaped | no | |
67771 | positive | |||||
69480 | no | 91.992 | ||||
69480 | positive | 100 |
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
@ref | growth | type | temperature | range |
---|---|---|---|---|
7646 | positive | growth | 28 | mesophilic |
32055 | positive | growth | 04-34 | |
32055 | positive | optimum | 25 | mesophilic |
67770 | positive | growth | 28 | mesophilic |
67771 | positive | growth | 25 | mesophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
32055 | positive | growth | 06-09 | alkaliphile |
32055 | positive | optimum | 7 |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
32055 | aerobe |
67771 | aerobe |
spore formation
@ref | spore formation | confidence |
---|---|---|
32055 | no | |
69481 | no | 99 |
69480 | no | 97.053 |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
32055 | NaCl | positive | growth | 0-9 % |
32055 | NaCl | positive | optimum | 1 % |
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
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
32055 | 30089 | acetate | + | carbon source |
32055 | 22599 | arabinose | + | carbon source |
32055 | 17057 | cellobiose | + | carbon source |
32055 | 28757 | fructose | + | carbon source |
32055 | 28260 | galactose | + | carbon source |
32055 | 17234 | glucose | + | carbon source |
32055 | 29987 | glutamate | + | carbon source |
32055 | 17306 | maltose | + | carbon source |
32055 | 37684 | mannose | + | carbon source |
32055 | 15361 | pyruvate | + | carbon source |
32055 | 17814 | salicin | + | carbon source |
32055 | 17992 | sucrose | + | carbon source |
32055 | 27082 | trehalose | + | carbon source |
32055 | 53424 | tween 20 | + | carbon source |
32055 | 53423 | tween 40 | + | carbon source |
32055 | 53425 | tween 60 | + | carbon source |
32055 | 53426 | tween 80 | + | carbon source |
32055 | 16199 | urea | + | carbon source |
32055 | 18222 | xylose | + | carbon source |
32055 | 4853 | esculin | + | hydrolysis |
32055 | 17632 | nitrate | + | reduction |
enzymes
@ref | value | activity | ec |
---|---|---|---|
32055 | acid phosphatase | + | 3.1.3.2 |
32055 | alkaline phosphatase | + | 3.1.3.1 |
32055 | catalase | + | 1.11.1.6 |
32055 | urease | + | 3.5.1.5 |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
7646 | soil | Dokdo | Republic of Korea | KOR | Asia |
67770 | Soil | ||||
67771 | From soil | Dokdo | Republic of Korea | KOR | Asia |
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
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Cellulosimicrobium terreum KCTC 19206 | GCA_014803435 | scaffold | ncbi | 412439 |
66792 | Cellulosimicrobium terreum strain JCM 15619 | 412439.4 | wgs | patric | 412439 |
66792 | Cellulosimicrobium terreum strain KCTC 19206 | 412439.6 | wgs | patric | 412439 |
67770 | Cellulosimicrobium terreum JCM 15619 | GCA_004114655 | contig | ncbi | 412439 |
GC content
@ref | GC-content | method |
---|---|---|
7646 | 72.9 | |
67770 | 72.9 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 99 | no |
flagellated | no | 98.215 | yes |
gram-positive | yes | 89.232 | yes |
anaerobic | no | 99.235 | no |
aerobic | yes | 90.818 | yes |
halophile | no | 87.878 | no |
spore-forming | no | 85.561 | yes |
glucose-util | yes | 92.659 | yes |
thermophile | no | 99.012 | yes |
motile | no | 89.906 | yes |
glucose-ferment | no | 78.165 | no |
External links
@ref: 7646
culture collection no.: DSM 18665, KCTC 19206, JCM 15619, NBRC 106259
straininfo link
- @ref: 81796
- straininfo: 399003
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 17978207 | Cellulosimicrobium terreum sp. nov., isolated from soil. | Yoon JH, Kang SJ, Schumann P, Oh TK | Int J Syst Evol Microbiol | 10.1099/ijs.0.64889-0 | 2007 | Actinomycetales/*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 Specificity | Genetics |
Phylogeny | 26373417 | Cellulosimicrobium aquatile sp. nov., isolated from Panagal reservoir, Nalgonda, India. | Sultanpuram VR, Mothe T, Chintalapati S, Chintalapati VR | Antonie Van Leeuwenhoek | 10.1007/s10482-015-0588-y | 2015 | Actinobacteria/*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/analysis | Genetics |
Phylogeny | 29480418 | Cellulosimicrobium arenosum sp. nov., Isolated from Marine Sediment Sand. | Oh M, Kim JH, Yoon JH, Schumann P, Kim W | Curr Microbiol | 10.1007/s00284-018-1464-6 | 2018 | Actinomycetales/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/genetics | Metabolism |
Phylogeny | 35348452 | Cellulosimicrobium protaetiae sp. nov., isolated from the gut of the larva of Protaetia brevitarsis seulensis. | Le Han H, Nguyen TTH, Li Z, Shin NR, Kim SG | Int J Syst Evol Microbiol | 10.1099/ijsem.0.005296 | 2022 | Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, *Fatty Acids/chemistry, Larva/microbiology, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA | Transcriptome |
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
---|---|---|---|---|---|---|
7646 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18665) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-18665 | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
32055 | 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 | 28304 | 28776041 | |
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) | |||
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
67771 | Curators of the KCTC | https://kctc.kribb.re.kr/En/Kctc | ||||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
81796 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID399003.1 | StrainInfo: A central database for resolving microbial strain identifiers |