Strain identifier
BacDive ID: 7803
Type strain: 
Species: Actinoplanes digitatis
Strain Designation: UNCC 33
Strain history: KCC A-0060 <-- CBS 191.64 <-- J. N. Couch UNCC 33.
NCBI tax ID(s): 1868 (species)
version 9.1 (current version)
General
@ref: 10819
BacDive-ID: 7803
DSM-Number: 43149
keywords: genome sequence, 16S sequence, Bacteria, spore-forming
description: Actinoplanes digitatis UNCC 33 is a spore-forming bacterium that was isolated from soil.
NCBI tax id
- NCBI tax id: 1868
- Matching level: species
strain history
| @ref | history |
|---|---|
| 10819 | <- KCC <- CBS <- J.N. Couch, UNCC, 33 |
| 67770 | KCC A-0060 <-- CBS 191.64 <-- J. N. Couch UNCC 33. |
doi: 10.13145/bacdive7803.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Micromonosporales
- family: Micromonosporaceae
- genus: Actinoplanes
- species: Actinoplanes digitatis
- full scientific name: Actinoplanes digitatis (Couch 1963) Stackebrandt and Kroppenstedt 1988
synonyms
@ref synonym 20215 Ampullariella digitata 20215 Ampullaria digitata
@ref: 10819
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Micromonosporaceae
genus: Actinoplanes
species: Actinoplanes digitatis
full scientific name: Actinoplanes digitatis (Couch 1963) Stackebrandt and Kroppenstedt 1988
strain designation: UNCC 33
type strain: yes
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 10819 | CZAPEK PEPTONE AGAR (DSMZ Medium 83) | yes | https://mediadive.dsmz.de/medium/83 | Name: CZAPEK PEPTONE AGAR (DSMZ Medium 83) Composition: Sucrose 30.0 g/l Agar 20.0 g/l Peptone 5.0 g/l NaNO3 3.0 g/l Yeast extract 2.0 g/l K2HPO4 1.0 g/l MgSO4 x 7 H2O 0.5 g/l KCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Distilled water |
| 10819 | N-Z-AMINE-MEDIUM (DSMZ Medium 554) | yes | https://mediadive.dsmz.de/medium/554 | Name: N-Z-AMINE-MEDIUM (DSMZ Medium 554) Composition: Starch 20.0 g/l Agar 20.0 g/l Glucose 10.0 g/l N-Z amine 5.0 g/l Yeast extract 5.0 g/l CaCO3 1.0 g/l Distilled water |
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 10819 | positive | growth | 28 |
| 67770 | positive | growth | 28 |
Physiology and metabolism
spore formation
- @ref: 69481
- spore formation: yes
- confidence: 97
observation
- @ref: 67770
- observation: quinones: MK-9(H4), MK-9(H6)
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 10819 | soil | ||||
| 67770 | Soil | Sheboygan, MI | USA | USA | North America |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
Safety information
risk assessment
- @ref: 10819
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 67770 | Actinoplanes digitatis gene for 16S rRNA, partial sequence | AB037000 | 1471 | nuccore | 1868 |
| 67770 | Actinoplanes digitatis gene for 16S ribosomal RNA, partial sequence | AB048213 | 1439 | nuccore | 1868 |
| 67770 | Actinoplanes digitatis partial 16S rRNA gene, strain IMSNU 22123T | AJ277567 | 1507 | nuccore | 1868 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Actinoplanes digitatis NBRC 12512 | GCA_016862155 | contig | ncbi | 1868 |
| 66792 | Actinoplanes digitatis DSM 43149 | GCA_014205335 | contig | ncbi | 1868 |
| 66792 | Actinoplanes digitatis strain DSM 43149 | 1868.3 | wgs | patric | 1868 |
| 66792 | Actinoplanes digitatis strain NBRC 12512 | 1868.4 | wgs | patric | 1868 |
| 66792 | Actinoplanes digitatis DSM 43149 Improved Assembly | 2873451178 | draft | img | 1868 |
GC content
- @ref: 67770
- GC-content: 72.3
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69481 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 97 | no |
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 87.267 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 93.002 | no |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 84.14 | no |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 87.207 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 93.5 | no |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | no | 61.854 | no |
External links
@ref: 10819
culture collection no.: DSM 43149, ATCC 15349, CBS 191.64, IFO 12512, KCC A-0060, NBRC 12512, JCM 3060, BCRC 12078, CGMCC 4.2097, IFM 0125, IMET 9245, IMSNU 22123, KCTC 9258, NCIMB 10182, NRRL B-3345, RIA 820, VKM Ac-649
straininfo link
- @ref: 77245
- straininfo: 39906
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Metabolism | 27682172 | Cell Wall Glycopolymers of Type Strains from Three Species of the Genus Actinoplanes. | Streshinskaya GM, Sashkov AS, Tul'skaya EM, Senchenkova SN, Dmitrenok AS, Piskunkova NF, Bueva OV, Evtushenko LI | Biochemistry (Mosc) | 10.1134/S0006297916090091 | 2016 | Actinobacteria/*chemistry/metabolism, Cell Wall/*chemistry/metabolism, Polysaccharides, Bacterial/*chemistry/metabolism, Uronic Acids/chemistry/metabolism | |
| Phylogeny | 29125458 | Actinoplanes sediminis sp. nov., isolated from marine sediment. | Qu Z, Bao XD, Xie QY, Zhao YX, Yan B, Dai HF, Chen HQ | Int J Syst Evol Microbiol | 10.1099/ijsem.0.002451 | 2017 | Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, *Geologic Sediments, Greece, Micromonosporaceae/*classification/genetics/isolation & purification, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 10819 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 43149) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-43149 | |
| 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 | |
| 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/ | ||
| 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 | |
| 77245 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID39906.1 | StrainInfo: A central database for resolving microbial strain identifiers |