Strain identifier

BacDive ID: 13504

Type strain: Yes

Species: Actinomycetospora lutea

Strain Designation: TT00-04

Strain history: KACC 14254 <-- NBRC 103690 <-- T. Tamura TT00-04.

NCBI tax ID(s): 663604 (species)

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

@ref: 18187

BacDive-ID: 13504

DSM-Number: 45773

keywords: genome sequence, 16S sequence, Bacteria, mesophilic

description: Actinomycetospora lutea TT00-04 is a mesophilic bacterium that builds an aerial mycelium and was isolated from vegetable field soil.

NCBI tax id

  • NCBI tax id: 663604
  • Matching level: species

strain history

@refhistory
18187<- S.-W. Kwon, KACC; KACC 14254 <- T. Tamura; TT00-04
67770KACC 14254 <-- NBRC 103690 <-- T. Tamura TT00-04.

doi: 10.13145/bacdive13504.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Pseudonocardiales
  • family: Pseudonocardiaceae
  • genus: Actinomycetospora
  • species: Actinomycetospora lutea
  • full scientific name: Actinomycetospora lutea Tamura et al. 2011

@ref: 18187

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Pseudonocardiaceae

genus: Actinomycetospora

species: Actinomycetospora lutea

full scientific name: Actinomycetospora lutea Tamura et al. 2011

strain designation: TT00-04

type strain: yes

Morphology

colony morphology

@refcolony colormedium used
69432Golden yellow (1004)ISP 2
69432Golden yellow (1004)ISP 6
69432Dahlia yellow (1033)ISP 4
69432Signal yellow (1003)ISP 3
69432Signal yellow (1003)ISP 5
69432Signal yellow (1003)ISP 7
69432Signal yellow (1003)suter with tyrosine
69432Signal yellow (1003)suter without tyrosine

multicellular morphology

@refforms multicellular complexcomplex namemedium name
69432noAerial myceliumISP 2
69432noAerial myceliumISP 3
69432yesAerial myceliumISP 4
69432noAerial myceliumISP 5
69432noAerial myceliumISP 6
69432noAerial myceliumISP 7
69432noAerial myceliumsuter with tyrosine
69432noAerial myceliumsuter without tyrosine

pigmentation

@refproductionname
69432noMelanin
69432nosoluble pigment

Culture and growth conditions

culture medium

  • @ref: 18187
  • 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

@refgrowthtypetemperaturerange
18187positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

halophily

  • @ref: 69432
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-7.5 %

observation

  • @ref: 67770
  • observation: quinones: MK-8(H4)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6943222599arabinose+/-growth
6943262968cellulose+/-growth
6943228757fructose+growth
6943217234glucose+growth
6943217268inositol+/-growth
6943237684mannose+growth
6943216634raffinose+/-growth
6943226546rhamnose+growth
6943217992sucrose+growth
6943218222xylose+/-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

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
68382alkaline phosphatase-3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
69432------+------------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
69432-++-++/----+/-+/----+/-----

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
18187vegetable field soilAmami Island, KagoshimaJapanJPNAsia
67770Vegetable field soilAmami Island, Kagoshima Pref.JapanJPNAsia

isolation source categories

Cat1Cat2Cat3
#Engineered#Agriculture#Field
#Environmental#Terrestrial#Soil
#Host#Plants
#Host Body-Site#Plant#Fruit (Seed)

Safety information

risk assessment

  • @ref: 18187
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 18187
  • description: Actinomycetospora lutea gene for 16S rRNA, partial sequence, strain: TT00-04
  • accession: AB514515
  • length: 1486
  • database: ena
  • NCBI tax ID: 663604

Genome sequences

  • @ref: 66792
  • description: Actinomycetospora lutea TBRC 2215
  • accession: GCA_028737205
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 663604

GC content

@refGC-contentmethod
1818773
6777073high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno85.033no
flagellatedno97.806no
gram-positiveyes65.869no
anaerobicno92.07no
aerobicyes90.494no
halophileno81.015no
spore-formingno71.702no
glucose-fermentno87.724no
thermophileno97.432yes
glucose-utilyes84.858yes

External links

@ref: 18187

culture collection no.: DSM 45773, KACC 14254, NBRC 103690, JCM 17982, BCC 49506, TBRC 2215

straininfo link

  • @ref: 82696
  • straininfo: 405548

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny20622052Description of Actinomycetospora chibensis sp. nov., Actinomycetospora chlora sp. nov., Actinomycetospora cinnamomea sp. nov., Actinomycetospora corticicola sp. nov., Actinomycetospora lutea sp. nov., Actinomycetospora straminea sp. nov. and Actinomycetospora succinea sp. nov. and emended description of the genus Actinomycetospora.Tamura T, Ishida Y, Hamada M, Otoguro M, Yamamura H, Hayakawa M, Suzuki KIInt J Syst Evol Microbiol10.1099/ijs.0.024166-02010Actinomycetales/chemistry/*classification/genetics/*isolation & purification, Amino Acids/analysis, Base Composition, Carbohydrates/analysis, Cell Wall/chemistry, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Japan, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/analysis, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAGenetics
Phylogeny25701847Actinomycetospora rhizophila sp. nov., an actinomycete isolated from rhizosphere soil of a peace lily (Spathi phyllum Kochii).He H, Zhang Y, Ma Z, Li C, Liu C, Zhou Y, Li L, Wang X, Xiang WInt J Syst Evol Microbiol10.1099/ijs.0.0001312015Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Lilium/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistryGenetics

Reference

@idauthorscataloguedoi/urltitle
18187Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45773)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45773
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
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
69432Wink, J.https://cdn.dsmz.de/wink/DSM%2045773.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
82696Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID405548.1StrainInfo: A central database for resolving microbial strain identifiers