Strain identifier
BacDive ID: 13196
Type strain: 
Species: Actinokineospora fastidiosa
Strain history: KCC A-0276 <-- S. ?mura KA-605 <-- ATCC 31181 <-- Chas. Pfizer & Co.; FD 25028.
NCBI tax ID(s): 1816 (species)
version 9.3 (current version)
General
@ref: 11337
BacDive-ID: 13196
DSM-Number: 43855
keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, mesophilic, Gram-positive
description: Actinokineospora fastidiosa DSM 43855 is an aerobe, spore-forming, mesophilic bacterium that was isolated from soil.
NCBI tax id
- NCBI tax id: 1816
- Matching level: species
strain history
| @ref | history |
|---|---|
| 11337 | <- A. Henssen (Pseudonocardia fastidiosa) <- ATCC <- Chas. Pfizer Inc. FD 25028 |
| 67770 | KCC A-0276 <-- S. ?mura KA-605 <-- ATCC 31181 <-- Chas. Pfizer & Co.; FD 25028. |
doi: 10.13145/bacdive13196.20250331.9.3
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Pseudonocardiales
- family: Pseudonocardiaceae
- genus: Actinokineospora
- species: Actinokineospora fastidiosa
- full scientific name: Actinokineospora fastidiosa (Henssen et al. 1987 ex Celmer et al. 1977) Labeda et al. 2010
synonyms
- @ref: 20215
- synonym: Amycolatopsis fastidiosa
@ref: 11337
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Pseudonocardiaceae
genus: Actinokineospora
species: Actinokineospora fastidiosa
full scientific name: Actinokineospora fastidiosa (Henssen et al. 1987) Labeda et al. 2010
type strain: yes
Morphology
cell morphology
| @ref | gram stain | confidence | motility |
|---|---|---|---|
| 125439 | positive | 100 | |
| 125439 | 95.1 | no | |
| 125438 | positive | 92.767 |
multimedia
- @ref: 11337
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_43855.jpg
- caption: Medium 65 28°C
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
- @ref: 11337
- name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)
- growth: yes
- link: https://mediadive.dsmz.de/medium/65
- composition: Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 11337 | positive | growth | 28 |
| 67770 | positive | growth | 28 |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 125438 | aerobe | 90.281 |
| 125439 | obligate aerobe | 99.6 |
spore formation
- @ref: 125439
- spore formation: yes
- confidence: 97.8
compound production
| @ref | compound |
|---|---|
| 11337 | antibiotic 41,043 and 41,494 |
| 67770 | Antibiotic 41,494 |
observation
- @ref: 67770
- observation: quinones: MK-9(H4), MK-9(H2)
Isolation, sampling and environmental information
isolation
| @ref | sample type | country | origin.country | continent |
|---|---|---|---|---|
| 11337 | soil | Egypt | EGY | Africa |
| 67770 | Soil | Egypt | EGY | Africa |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
taxonmaps
- @ref: 69479
- File name: preview.99_170525.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_394;97_640;98_111733;99_170525&stattab=map
- Last taxonomy: Actinokineospora fastidiosa subclade
- 16S sequence: GQ200601
- Sequence Identity:
- Total samples: 87
- soil counts: 78
- aquatic counts: 2
- animal counts: 7
Safety information
risk assessment
- @ref: 11337
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Amycolatopsis fastidiosa 16S rRNA (part.) | X53200 | 1331 | nuccore | 1816 |
| 11337 | Amycolatopsis fastidiosa strain NRRL B-16697 16S ribosomal RNA gene, partial sequence | GQ200601 | 1408 | nuccore | 1816 |
| 67770 | Amycolatopsis fastidiosa partial 16S rRNA gene, strain IMSNU 20054T | AJ400710 | 1489 | nuccore | 1816 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Actinokineospora fastidiosa JCM 3276 | GCA_014648415 | scaffold | ncbi | 1816 |
| 66792 | Actinokineospora fastidiosa strain JCM 3276 | 1816.5 | wgs | patric | 1816 |
GC content
- @ref: 67770
- GC-content: 73
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 92.767 | no |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 97.834 | no |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 90.281 | no |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 86.085 | no |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 97.354 | yes |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | no | 88.667 | no |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | yes | 97.8 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | no | 95.1 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | positive | 100 | |
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | obligate aerobe | 99.6 |
External links
@ref: 11337
culture collection no.: DSM 43855, ATCC 31181, IFO 14105, JCM 3276, NBRC 14105, NRRL B-16697, VKM Ac-1419, BCRC 13397, CGMCC 4.1172, IFM 0209, IMSNU 20054, KCTC 9155, KCTC 9297
straininfo link
- @ref: 82404
- straininfo: 88625
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 19671714 | Emended description of the genus Actinokineospora Hasegawa 1988 and transfer of Amycolatopsis fastidiosa Henssen et al. 1987 as Actinokineospora fastidiosa comb. nov. | Labeda DP, Price NP, Tan GYA, Goodfellow M, Klenk HP | Int J Syst Evol Microbiol | 10.1099/ijs.0.016568-0 | 2009 | Actinomycetales/*classification/genetics/physiology/ultrastructure, Base Composition, Microscopy, Electron, Scanning, Molecular Sequence Data, Monosaccharides/metabolism, Phospholipids/metabolism, Phylogeny, Spores, Bacterial/physiology, Terminology as Topic, Vitamin K 2/metabolism | Metabolism |
| Phylogeny | 21984679 | Actinokineospora soli sp. nov., a thermotolerant actinomycete isolated from soil, and emended description of the genus Actinokineospora. | Tang X, Zhou Y, Zhang J, Ming H, Nie GX, Yang LL, Tang SK, Li WJ | Int J Syst Evol Microbiol | 10.1099/ijs.0.035832-0 | 2011 | Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/analysis, Molecular Sequence Data, Phospholipids/analysis, *Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soil/analysis, *Soil Microbiology | Genetics |
| Phylogeny | 28820111 | Description of Actinokineospora acnipugnans sp. nov., an actinomycete isolated from soil, showing potential uses in cosmetics. | Dahal RH, Shim DS, Kim J | Int J Syst Evol Microbiol | 10.1099/ijsem.0.002078 | 2017 | Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, Cosmetics, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, *Grassland, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 11337 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 43855) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-43855 | |||
| 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 | |||
| 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 | |
| 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/ | ||||
| 69479 | João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
| 82404 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID88625.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
| 125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann | 10.1101/2024.08.12.607695 | Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets | |||
| 125439 | Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy | https://github.com/GenomeNet/deepG | deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 |