Strain identifier
BacDive ID: 13205
Type strain:
Species: Actinokineospora enzanensis
Strain Designation: YU 924-101
Strain history: CIP <- 2003, NBRC <- M. Hayakawa, Yamanashi Univ., Kofu, Yamanashi, Japan: strain YU 924-101
NCBI tax ID(s): 1120934 (strain), 155975 (species)
General
@ref: 11958
BacDive-ID: 13205
DSM-Number: 44649
keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, spore-forming, mesophilic, Gram-positive
description: Actinokineospora enzanensis YU 924-101 is an obligate aerobe, spore-forming, mesophilic bacterium that was isolated from forest soil.
NCBI tax id
NCBI tax id | Matching level |
---|---|
1120934 | strain |
155975 | species |
strain history
@ref | history |
---|---|
11958 | <- M. Otoguro; YU 924-101 |
67770 | IFO 16517 <-- M. Hayakawa YU 924-101. |
119088 | CIP <- 2003, NBRC <- M. Hayakawa, Yamanashi Univ., Kofu, Yamanashi, Japan: strain YU 924-101 |
doi: 10.13145/bacdive13205.20230509.8.1
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 enzanensis
- full scientific name: Actinokineospora enzanensis Otoguro et al. 2003
@ref: 11958
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Pseudonocardiaceae
genus: Actinokineospora
species: Actinokineospora enzanensis
full scientific name: Actinokineospora enzanensis Otoguro et al. 2003
strain designation: YU 924-101
type strain: yes
Morphology
cell morphology
@ref | gram stain | confidence | cell shape | motility |
---|---|---|---|---|
69480 | positive | 100 | ||
119088 | positive | filament-shaped | no |
colony morphology
- @ref: 119088
multimedia
@ref | multimedia content | caption | intellectual property rights |
---|---|---|---|
11958 | https://www.dsmz.de/microorganisms/photos/DSM_44649-Nutrient.jpg | Nutrient | © Leibniz-Institut DSMZ |
11958 | https://www.dsmz.de/microorganisms/photos/DSM_44649.jpg | Medium 548 28°C | © Leibniz-Institut DSMZ |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
11958 | BENNETT'S AGAR (DSMZ Medium 548) | yes | https://mediadive.dsmz.de/medium/548 | Name: BENNETT'S AGAR (DSMZ Medium 548) Composition: Agar 15.0 g/l Glucose 10.0 g/l N-Z amine 2.0 g/l Yeast extract 1.0 g/l Beef extract 1.0 g/l Distilled water |
11958 | NUTRIENT AGAR (DSMZ Medium 1) | yes | https://mediadive.dsmz.de/medium/1 | Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water |
34378 | MEDIUM 116 - for Streptomyces, Nocardia, Streptosporangium and Mycobacterium chlorophenolicum | yes | Distilled water make up to (1000.000 ml);Agar (20.000 g);Glucose (4.000g);Yeast extract (4.000 g);Malt extract (10.000 g) | |
119088 | CIP Medium 116 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=116 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
11958 | positive | growth | 28 | mesophilic |
34378 | positive | growth | 30 | mesophilic |
67770 | positive | growth | 28 | mesophilic |
119088 | positive | growth | 25-30 | mesophilic |
119088 | no | growth | 10 | psychrophilic |
119088 | no | growth | 37 | mesophilic |
119088 | no | growth | 41 | thermophilic |
119088 | no | growth | 45 | thermophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 119088
- oxygen tolerance: obligate aerobe
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | yes | 100 |
69480 | yes | 100 |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
119088 | NaCl | positive | growth | 0-2 % |
119088 | NaCl | no | growth | 4 % |
119088 | NaCl | no | growth | 6 % |
119088 | NaCl | no | growth | 8 % |
119088 | NaCl | no | growth | 10 % |
observation
- @ref: 67770
- observation: quinones: MK-9(H4)
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
68368 | 17632 | nitrate | - | reduction |
68368 | 30849 | L-arabinose | - | fermentation |
68368 | 27613 | amygdalin | - | fermentation |
68368 | 28053 | melibiose | - | fermentation |
68368 | 17992 | sucrose | - | fermentation |
68368 | 62345 | L-rhamnose | - | fermentation |
68368 | 30911 | sorbitol | - | fermentation |
68368 | 17268 | myo-inositol | - | fermentation |
68368 | 16899 | D-mannitol | - | fermentation |
68368 | 17634 | D-glucose | - | fermentation |
68368 | 5291 | gelatin | - | hydrolysis |
68368 | 27897 | tryptophan | - | energy source |
68368 | 16199 | urea | - | hydrolysis |
68368 | 16947 | citrate | - | assimilation |
68368 | 18257 | ornithine | - | degradation |
68368 | 25094 | lysine | - | degradation |
68368 | 29016 | arginine | - | hydrolysis |
119088 | 16947 | citrate | - | carbon source |
119088 | 4853 | esculin | - | hydrolysis |
119088 | 606565 | hippurate | - | hydrolysis |
119088 | 17632 | nitrate | + | reduction |
119088 | 16301 | nitrite | - | reduction |
119088 | 17632 | nitrate | - | respiration |
antibiotic resistance
- @ref: 119088
- metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
- is antibiotic: yes
- is sensitive: no
- is resistant: yes
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
68368 | 17997 | dinitrogen | no |
68368 | 16301 | nitrite | no |
68368 | 15688 | acetoin | yes |
68368 | 35581 | indole | no |
68368 | 16136 | hydrogen sulfide | no |
119088 | 35581 | indole | no |
metabolite tests
@ref | Chebi-ID | metabolite | voges-proskauer-test | indole test | methylred-test |
---|---|---|---|---|---|
68368 | 15688 | acetoin | + | ||
68368 | 35581 | indole | - | ||
119088 | 15688 | acetoin | - | ||
119088 | 17234 | glucose | - |
enzymes
@ref | value | activity | ec |
---|---|---|---|
68368 | gelatinase | - | |
68368 | tryptophan deaminase | - | 4.1.99.1 |
68368 | urease | - | 3.5.1.5 |
68368 | ornithine decarboxylase | - | 4.1.1.17 |
68368 | lysine decarboxylase | - | 4.1.1.18 |
68368 | arginine dihydrolase | - | 3.5.3.6 |
68368 | beta-galactosidase | - | 3.2.1.23 |
119088 | oxidase | - | |
119088 | beta-galactosidase | + | 3.2.1.23 |
119088 | alcohol dehydrogenase | - | 1.1.1.1 |
119088 | gelatinase | +/- | |
119088 | amylase | + | |
119088 | DNase | - | |
119088 | caseinase | + | 3.4.21.50 |
119088 | catalase | + | 1.11.1.6 |
119088 | tween esterase | - | |
119088 | gamma-glutamyltransferase | + | 2.3.2.2 |
119088 | lecithinase | - | |
119088 | lipase | - | |
119088 | lysine decarboxylase | - | 4.1.1.18 |
119088 | ornithine decarboxylase | - | 4.1.1.17 |
119088 | phenylalanine ammonia-lyase | - | 4.3.1.24 |
119088 | protease | - | |
119088 | tryptophan deaminase | - | |
119088 | urease | - | 3.5.1.5 |
68382 | lipase (C 14) | - | |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | trypsin | - | 3.4.21.4 |
68382 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | beta-galactosidase | - | 3.2.1.23 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | beta-glucosidase | - | 3.2.1.21 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | alpha-fucosidase | - | 3.2.1.51 |
API zym
@ref | Control | 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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
11958 | - | - | - | - | - | +/- | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
119088 | - | + | + | + | - | + | + | - | - | - | + | + | - | - | - | + | - | - | - | - |
API 20E
@ref | ONPG | ADH Arg | LDC Lys | ODC | CIT | H2S | URE | TDA Trp | IND | VP | GEL | GLU | MAN | INO | Sor | RHA | SAC | MEL | AMY | ARA | NO2 | N2 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
11958 | - | - | - | - | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
11958 | forest soil | Yamanashi | Japan | JPN | Asia |
67770 | Level-land forest soil | Japan | JPN | Asia | |
119088 | Environment, Soil, Level-land forest | Japan | JPN | Asia |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Terrestrial | #Forest |
#Environmental | #Terrestrial | #Soil |
taxonmaps
- @ref: 69479
- File name: preview.99_626.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_394;97_444;98_508;99_626&stattab=map
- Last taxonomy: Actinokineospora enzanensis subclade
- 16S sequence: AB058395
- Sequence Identity:
- Total samples: 107
- soil counts: 55
- aquatic counts: 12
- animal counts: 20
- plant counts: 20
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
11958 | 1 | Risk group (German classification) |
119088 | 1 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 11958
- description: Actinokineospora enzanensis gene for 16S rRNA, partial sequence
- accession: AB058395
- length: 1473
- database: ena
- NCBI tax ID: 155975
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Actinokineospora enzanensis DSM 44649 | 1120934.3 | wgs | patric | 1120934 |
66792 | Actinokineospora enzanensis DSM 44649 | 2518285603 | draft | img | 1120934 |
67770 | Actinokineospora enzanensis DSM 44649 | GCA_000374445 | scaffold | ncbi | 1120934 |
GC content
@ref | GC-content | method |
---|---|---|
11958 | 70 | |
67770 | 70 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | yes | 100 | no |
motile | no | 52.722 | no |
flagellated | no | 91.814 | no |
gram-positive | yes | 88.324 | no |
anaerobic | no | 98.755 | no |
aerobic | yes | 89.215 | no |
halophile | no | 93.691 | no |
spore-forming | yes | 92.3 | no |
thermophile | no | 98.303 | yes |
glucose-util | yes | 85.507 | no |
glucose-ferment | no | 91.356 | yes |
External links
@ref: 11958
culture collection no.: DSM 44649, IFO 16517, NBRC 16517, JCM 11647, CIP 107895
straininfo link
- @ref: 82413
- straininfo: 88106
literature
- topic: Phylogeny
- Pubmed-ID: 23291892
- title: Actinokineospora bangkokensis sp. nov., isolated from rhizospheric soil.
- authors: Intra B, Matsumoto A, Inahashi Y, Omura S, Takahashi Y, Panbangred W
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.047928-0
- year: 2013
- mesh: Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/analysis, Phospholipids/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Thailand, Vitamin K 2/analogs & derivatives/analysis
- topic2: Genetics
Reference
@id | authors | catalogue | doi/url | title |
---|---|---|---|---|
11958 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44649) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-44649 | |
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 | |
34378 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/5456 | ||
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/ | ||
68368 | Automatically annotated from API 20E | |||
68382 | Automatically annotated from API zym | |||
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 | |
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 | |
82413 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID88106.1 | StrainInfo: A central database for resolving microbial strain identifiers | |
119088 | Curators of the CIP | Collection of Institut Pasteur (CIP 107895) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107895 |