Strain identifier
BacDive ID: 13514
Type strain:
Species: Actinophytocola timorensis
Strain Designation: ID 05-A0653
Strain history: <- NBRC; NBRC 105524 <- M. Otoguro(NITE) and Y. Widyastuti(LIPI); ID 05-A0653
NCBI tax ID(s): 657017 (species)
General
@ref: 18017
BacDive-ID: 13514
DSM-Number: 45660
keywords: 16S sequence, Bacteria, mesophilic
description: Actinophytocola timorensis ID 05-A0653 is a mesophilic bacterium that builds an aerial mycelium and was isolated from soil.
NCBI tax id
- NCBI tax id: 657017
- Matching level: species
strain history
- @ref: 18017
- history: <- NBRC; NBRC 105524 <- M. Otoguro(NITE) and Y. Widyastuti(LIPI); ID 05-A0653
doi: 10.13145/bacdive13514.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Pseudonocardiales
- family: Pseudonocardiaceae
- genus: Actinophytocola
- species: Actinophytocola timorensis
- full scientific name: Actinophytocola timorensis Otoguro et al. 2011
@ref: 18017
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Pseudonocardiaceae
genus: Actinophytocola
species: Actinophytocola timorensis
full scientific name: Actinophytocola timorensis Otoguro et al. 2011
strain designation: ID 05-A0653
type strain: yes
Morphology
colony morphology
@ref | colony color | medium used |
---|---|---|
69417 | Beige (1001) | ISP 7 |
69417 | Ivory (1014) | ISP 2 |
69417 | Ivory (1014) | ISP 4 |
69417 | Ivory (1014) | ISP 5 |
69417 | Ivory (1014) | ISP 6 |
69417 | Ivory (1014) | suter without tyrosine |
69417 | Sand yellow (1002) | suter with tyrosine |
multicellular morphology
@ref | forms multicellular complex | complex name | medium name | complex color |
---|---|---|---|---|
69417 | no | Aerial mycelium | ISP 2 | |
69417 | yes | Aerial mycelium | ISP 3 | Signal white (9003) |
69417 | yes | Aerial mycelium | ISP 4 | Signal white (9003) |
69417 | yes | Aerial mycelium | ISP 5 | Signal white (9003) |
69417 | no | Aerial mycelium | ISP 6 | |
69417 | no | Aerial mycelium | ISP 7 | |
69417 | no | Aerial mycelium | suter with tyrosine | |
69417 | no | Aerial mycelium | suter without tyrosine |
pigmentation
@ref | production | name | color |
---|---|---|---|
69417 | yes | Melanin | |
69417 | yes | soluble pigment | Sand yellow (1002) |
multimedia
@ref | multimedia content | caption | intellectual property rights |
---|---|---|---|
69417 | DSM_45660_image3.jpeg | Plates (65, ISP2, ISP3, ISP4, ISP5, ISP7) | Helmholtz-Zentrum für Infektionsforschung GmbH |
69417 | DSM_45660_image4.jpeg | Plates (65, ISP2, ISP3, ISP4, ISP5, ISP7) | Helmholtz-Zentrum für Infektionsforschung GmbH |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
18017 | GPHF-MEDIUM (DSMZ Medium 553) | yes | https://mediadive.dsmz.de/medium/553 | Name: GPHF-MEDIUM (DSMZ Medium 553) Composition: Agar 20.0 g/l Glucose 10.0 g/l Beef extract 5.0 g/l Yeast extract 5.0 g/l Casein peptone 5.0 g/l CaCl2 x 2 H2O 0.74 g/l Distilled water |
18017 | GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) | yes | https://mediadive.dsmz.de/medium/65 | 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: 18017
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Physiology and metabolism
halophily
- @ref: 69417
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 2.5-5 %
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
68369 | 25115 | malate | + | assimilation |
68369 | 27689 | decanoate | - | assimilation |
68369 | 17306 | maltose | + | assimilation |
68369 | 59640 | N-acetylglucosamine | + | assimilation |
68369 | 16899 | D-mannitol | + | assimilation |
68369 | 30849 | L-arabinose | + | assimilation |
68369 | 17634 | D-glucose | + | assimilation |
68369 | 5291 | gelatin | + | hydrolysis |
68369 | 4853 | esculin | + | hydrolysis |
68369 | 16199 | urea | - | hydrolysis |
68369 | 29016 | arginine | - | hydrolysis |
68369 | 17634 | D-glucose | - | fermentation |
68369 | 27897 | tryptophan | - | energy source |
68369 | 17632 | nitrate | + | reduction |
69417 | 22599 | arabinose | + | growth |
69417 | 62968 | cellulose | +/- | growth |
69417 | 28757 | fructose | + | growth |
69417 | 17234 | glucose | + | growth |
69417 | 17268 | inositol | +/- | growth |
69417 | 37684 | mannose | + | growth |
69417 | 16634 | raffinose | + | growth |
69417 | 26546 | rhamnose | + | growth |
69417 | 17992 | sucrose | + | growth |
69417 | 18222 | xylose | + | growth |
68379 | 17632 | nitrate | + | reduction |
68379 | 4853 | esculin | - | hydrolysis |
68379 | 16199 | urea | - | hydrolysis |
68379 | 5291 | gelatin | + | hydrolysis |
68379 | 17634 | D-glucose | - | fermentation |
68379 | 16988 | D-ribose | - | fermentation |
68379 | 65327 | D-xylose | - | fermentation |
68379 | 16899 | D-mannitol | - | fermentation |
68379 | 17306 | maltose | - | fermentation |
68379 | 17716 | lactose | - | fermentation |
68379 | 17992 | sucrose | - | fermentation |
68379 | 28087 | glycogen | - | fermentation |
metabolite production
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- production: no
metabolite tests
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- indole test: -
enzymes
@ref | value | activity | ec |
---|---|---|---|
68379 | gelatinase | + | |
68379 | urease | - | 3.5.1.5 |
68379 | beta-glucosidase | - | 3.2.1.21 |
68379 | N-acetyl-beta-glucosaminidase | + | 3.2.1.52 |
68379 | alpha-glucosidase | + | 3.2.1.20 |
68379 | beta-galactosidase | + | 3.2.1.23 |
68379 | beta-glucuronidase | - | 3.2.1.31 |
68379 | alkaline phosphatase | + | 3.1.3.1 |
68379 | pyrrolidonyl arylamidase | - | 3.4.19.3 |
68379 | pyrazinamidase | - | 3.5.1.B15 |
68369 | gelatinase | + | |
68369 | beta-glucosidase | + | 3.2.1.21 |
68369 | urease | - | 3.5.1.5 |
68369 | arginine dihydrolase | - | 3.5.3.6 |
68382 | alkaline phosphatase | + | 3.1.3.1 |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | acid phosphatase | + | 3.1.3.2 |
68382 | beta-galactosidase | + | 3.2.1.23 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | alpha-glucosidase | + | 3.2.1.20 |
68382 | N-acetyl-beta-glucosaminidase | + | 3.2.1.52 |
68382 | alpha-fucosidase | - | 3.2.1.51 |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
69417 | + | - | - | + | - | + | + | + | - | - | + | - | - | - | - | - | - | - | - |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
18017 | - | + | - | +/- | - | + | +/- | - | - | + | + | + | - | + | - | + | - | + | - | - |
69417 | + | +/- | + | +/- | + | - | - | +/- | - | + | +/- | + | + | - | + | +/- | + | +/- | - |
API 20NE
@ref | NO3 | TRP | GLU_ Ferm | ADH Arg | URE | ESC | GEL | PNPG | GLU_ Assim | ARA | MNE | MAN | NAG | MAL | GNT | CAP | ADI | MLT | CIT | PAC |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
18017 | + | - | - | - | - | + | + | + | + | + | +/- | + | + | + | +/- | - | +/- | + | - | - |
Isolation, sampling and environmental information
isolation
- @ref: 18017
- sample type: soil
- geographic location: West Timor,Buraen
- country: Indonesia
- origin.country: IDN
- continent: Asia
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
taxonmaps
- @ref: 69479
- File name: preview.99_27730.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_13737;97_16724;98_20762;99_27730&stattab=map
- Last taxonomy: Actinophytocola
- 16S sequence: AB511315
- Sequence Identity:
- Total samples: 390
- soil counts: 314
- aquatic counts: 21
- animal counts: 22
- plant counts: 33
Safety information
risk assessment
- @ref: 18017
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 18017
- description: Actinophytocola timorensis gene for 16S rRNA, partial sequence
- accession: AB511315
- length: 1471
- database: ena
- NCBI tax ID: 657017
GC content
- @ref: 18017
- GC-content: 69.7
External links
@ref: 18017
culture collection no.: DSM 45660, BTCC B-673, NBRC 105524
straininfo link
- @ref: 82705
- straininfo: 405104
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 20495034 | Actinophytocola timorensis sp. nov. and Actinophytocola corallina sp. nov., isolated from soil. | Otoguro M, Yamamura H, Tamura T, Irzaldi R, Ratnakomala S, Ridwan R, Kartina G, Triana E, Nurkanto A, Lestari Y, Lisdiyanti P, Widyastuti Y, Ando K | Int J Syst Evol Microbiol | 10.1099/ijs.0.023432-0 | 2010 | Actinomycetales/*classification/genetics/*isolation & purification/physiology, Arabinose/analysis, Base Composition, Cell Wall/chemistry, Cluster Analysis, Culture Media/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Galactose/analysis, Indonesia, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Spores, Bacterial/cytology | Genetics |
Phylogeny | 27151064 | Actinophytocola algeriensis sp. nov., an actinobacterium isolated from Saharan soil. | Bouznada K, Bouras N, Schumann P, Sproer C, Sabaou N, Klenk HP | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001136 | 2016 | Actinomycetales/*classification/genetics/isolation & purification, Africa, Northern, Algeria, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology | Transcriptome |
Reference
@id | authors | catalogue | doi/url | title |
---|---|---|---|---|
18017 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45660) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-45660 | |
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 | |
68369 | Automatically annotated from API 20NE | |||
68379 | Automatically annotated from API Coryne | |||
68382 | Automatically annotated from API zym | |||
69417 | Wink, J. | https://cdn.dsmz.de/wink/DSM%2045660.pdf | Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig | |
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 | |
82705 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID405104.1 | StrainInfo: A central database for resolving microbial strain identifiers |