Strain identifier

BacDive ID: 13514

Type strain: Yes

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)

For citation purpose refer to the digital object identifier (doi) of the current version.
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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

@refcolony colormedium used
69417Beige (1001)ISP 7
69417Ivory (1014)ISP 2
69417Ivory (1014)ISP 4
69417Ivory (1014)ISP 5
69417Ivory (1014)ISP 6
69417Ivory (1014)suter without tyrosine
69417Sand yellow (1002)suter with tyrosine

multicellular morphology

@refforms multicellular complexcomplex namemedium namecomplex color
69417noAerial myceliumISP 2
69417yesAerial myceliumISP 3Signal white (9003)
69417yesAerial myceliumISP 4Signal white (9003)
69417yesAerial myceliumISP 5Signal white (9003)
69417noAerial myceliumISP 6
69417noAerial myceliumISP 7
69417noAerial myceliumsuter with tyrosine
69417noAerial myceliumsuter without tyrosine

pigmentation

@refproductionnamecolor
69417yesMelanin
69417yessoluble pigmentSand yellow (1002)

multimedia

@refmultimedia contentcaptionintellectual property rights
69417DSM_45660_image3.jpegPlates (65, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH
69417DSM_45660_image4.jpegPlates (65, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
18017GPHF-MEDIUM (DSMZ Medium 553)yeshttps://mediadive.dsmz.de/medium/553Name: 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
18017GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)yeshttps://mediadive.dsmz.de/medium/65Name: 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

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836925115malate+assimilation
6836927689decanoate-assimilation
6836917306maltose+assimilation
6836959640N-acetylglucosamine+assimilation
6836916899D-mannitol+assimilation
6836930849L-arabinose+assimilation
6836917634D-glucose+assimilation
683695291gelatin+hydrolysis
683694853esculin+hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate+reduction
6941722599arabinose+growth
6941762968cellulose+/-growth
6941728757fructose+growth
6941717234glucose+growth
6941717268inositol+/-growth
6941737684mannose+growth
6941716634raffinose+growth
6941726546rhamnose+growth
6941717992sucrose+growth
6941718222xylose+growth
6837917632nitrate+reduction
683794853esculin-hydrolysis
6837916199urea-hydrolysis
683795291gelatin+hydrolysis
6837917634D-glucose-fermentation
6837916988D-ribose-fermentation
6837965327D-xylose-fermentation
6837916899D-mannitol-fermentation
6837917306maltose-fermentation
6837917716lactose-fermentation
6837917992sucrose-fermentation
6837928087glycogen-fermentation

metabolite production

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
68379gelatinase+
68379urease-3.5.1.5
68379beta-glucosidase-3.2.1.21
68379N-acetyl-beta-glucosaminidase+3.2.1.52
68379alpha-glucosidase+3.2.1.20
68379beta-galactosidase+3.2.1.23
68379beta-glucuronidase-3.2.1.31
68379alkaline phosphatase+3.1.3.1
68379pyrrolidonyl arylamidase-3.4.19.3
68379pyrazinamidase-3.5.1.B15
68369gelatinase+
68369beta-glucosidase+3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
68382alkaline phosphatase+3.1.3.1
68382leucine arylamidase+3.4.11.1
68382cystine arylamidase-3.4.11.3
68382acid phosphatase+3.1.3.2
68382beta-galactosidase+3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382alpha-fucosidase-3.2.1.51

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
69417+--+-+++--+--------

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
18017-+-+/--++/---+++-+-+-+--
69417++/-++/-+--+/--++/-++-++/-++/--

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPAC
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

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny20495034Actinophytocola 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 KInt J Syst Evol Microbiol10.1099/ijs.0.023432-02010Actinomycetales/*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/cytologyGenetics
Phylogeny27151064Actinophytocola algeriensis sp. nov., an actinobacterium isolated from Saharan soil.Bouznada K, Bouras N, Schumann P, Sproer C, Sabaou N, Klenk HPInt J Syst Evol Microbiol10.1099/ijsem.0.0011362016Actinomycetales/*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 MicrobiologyTranscriptome

Reference

@idauthorscataloguedoi/urltitle
18017Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45660)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45660
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
68369Automatically annotated from API 20NE
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
69417Wink, J.https://cdn.dsmz.de/wink/DSM%2045660.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
69479João 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
82705Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID405104.1StrainInfo: A central database for resolving microbial strain identifiers