Strain identifier

BacDive ID: 16344

Type strain: Yes

Species: Kitasatospora phosalacinea

Strain Designation: KA-338

Strain history: S. ?mura KA-338.

NCBI tax ID(s): 2065 (species)

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General

@ref: 11342

BacDive-ID: 16344

DSM-Number: 43860

keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic

description: Kitasatospora phosalacinea KA-338 is a spore-forming, mesophilic bacterium that builds an aerial mycelium and was isolated from soil.

NCBI tax id

  • NCBI tax id: 2065
  • Matching level: species

strain history

@refhistory
11342<- JCM (Kitasatosporia phosalacinea) <- S. Omura, KA-338
67770S. ?mura KA-338.

doi: 10.13145/bacdive16344.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Kitasatosporales
  • family: Streptomycetaceae
  • genus: Kitasatospora
  • species: Kitasatospora phosalacinea
  • full scientific name: Kitasatospora phosalacinea corrig. Takahashi et al. 1985

  • synonyms

    @refsynonym
    20215Kitasatosporia phosalacinea
    20215Streptomyces phosalacineus

@ref: 11342

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Kitasatospora

species: Kitasatospora phosalacinea

full scientific name: Kitasatospora phosalacinea Takahashi et al. 1985 emend. Nouioui et al. 2018

strain designation: KA-338

type strain: yes

Morphology

colony morphology

@refcolony colorincubation periodmedium used
19838colourless10-14 daysISP 2
19838beige10-14 daysISP 3
19838beige10-14 daysISP 4
19838beige10-14 daysISP 5
19838beige10-14 daysISP 6
19838colourless10-14 daysISP 7

multicellular morphology

@refforms multicellular complexcomplex namecomplex colormedium name
19838yesAerial Myceliumsilver grayISP 2
19838yesAerial Myceliumsilver grayISP 3
19838yesAerial MyceliumwhiteISP 4
19838yesAerial MyceliumwhiteISP 5
19838yesAerial MyceliumwhiteISP 6
19838noAerial MyceliumISP 7

multimedia

@refmultimedia contentintellectual property rightscaption
11342https://www.dsmz.de/microorganisms/photos/DSM_43860-1.jpg© Leibniz-Institut DSMZ
11342https://www.dsmz.de/microorganisms/photos/DSM_43860.jpg© Leibniz-Institut DSMZMedium 65 28°C

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
11342GYM 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
19838ISP 2yesName: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
19838ISP 3yesName: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
19838ISP 4yesName: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
19838ISP 5yesName: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
19838ISP 6yesName: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
19838ISP 7yesName: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes
11342ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium84.pdf
11342STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium252.pdf

culture temp

@refgrowthtypetemperaturerange
11342positivegrowth28mesophilic
19838positiveoptimum28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

  • @ref: 19838
  • spore description: Formation of spore chains (rectiflixibilis), spore surface smooth
  • type of spore: spore
  • spore formation: yes

compound production

@refcompound
11342phosalacine
20216Phosalacine
19838Phosalacine
67770Phosalacine

observation

  • @ref: 67770
  • observation: quinones: MK-9(H6), MK-9(H8)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea+hydrolysis
6836816947citrate+assimilation
6836818257ornithine+degradation
6836825094lysine+degradation
6836829016arginine+hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinyes
6836835581indoleno
6836816136hydrogen sulfideno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
6836815688acetoin+
6836835581indole-

enzymes

@refvalueactivityec
68368gelatinase+
68368tryptophan deaminase+4.1.99.1
68368urease+3.5.1.5
68368ornithine decarboxylase+4.1.1.17
68368lysine decarboxylase+4.1.1.18
68368arginine dihydrolase+3.5.3.6
68368beta-galactosidase+3.2.1.23

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
19838+++++-++-++

Isolation, sampling and environmental information

isolation

@refsample type
11342soil
67770Soil

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_7752.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_148;97_159;98_2879;99_7752&stattab=map
  • Last taxonomy: Kitasatospora phosalacinea
  • 16S sequence: U93330
  • Sequence Identity:
  • Total samples: 84
  • soil counts: 65
  • aquatic counts: 1
  • animal counts: 3
  • plant counts: 15

Safety information

risk assessment

  • @ref: 11342
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218K.phosalacinea 16S ribosomal RNA genes, partial cdsM552231457ena2065
20218Kitasatospora phosalacinea gene for 16S ribosomal RNAAB0228691516ena2065
20218Kitasatosporia phosalacinea JCM 3340 16S ribosomal RNA gene, partial sequenceU933301475ena2065
20218Kitasatosporia phosalacinea JCM 3340 16S-23S ribosomal RNA internal spacer, partial sequenceU93331275ena2065
20218Streptomyces phosalacineus 16S rRNA gene, type strain LMG 20102AJ7813591469ena2065
20218Kitasatospora phosalacinea gene for 16S rRNA, partial sequence, strain: NBRC 14372AB1845961468ena2065

Genome sequences

  • @ref: 67770
  • description: Kitasatospora phosalacinea NRRL B-16230
  • accession: GCA_000716545
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 2065

GC content

@refGC-contentmethod
6777073.3high performance liquid chromatography (HPLC)
6777066.6high performance liquid chromatography (HPLC)
6777074.1genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno94.118no
flagellatedno98.023no
gram-positiveyes93.928no
anaerobicno99.469no
halophileno92.301no
spore-formingyes94.205yes
thermophileno98.168yes
glucose-utilyes89.013no
aerobicyes94.081no
glucose-fermentno89.492no

External links

@ref: 11342

culture collection no.: DSM 43860, IFO 14372, JCM 3340, NBRC 14372, NRRL B-16230, BCRC 12447, CCM 4152, KACC 20226, KCTC 9735, KCTC 9792, VKM Ac-2006

straininfo link

  • @ref: 85399
  • straininfo: 126015

literature

  • topic: Phylogeny
  • Pubmed-ID: 6480502
  • title: Phosalacine, a new herbicidal antibiotic containing phosphinothricin. Fermentation, isolation, biological activity and mechanism of action.
  • authors: Omura S, Murata M, Hanaki H, Hinotozawa K, Oiwa R, Tanaka H
  • journal: J Antibiot (Tokyo)
  • DOI: 10.7164/antibiotics.37.829
  • year: 1984
  • mesh: Actinomyces/analysis, Amino Acids/pharmacology, *Aminobutyrates, Anti-Bacterial Agents/*isolation & purification, Cobalt/pharmacology, Dipeptides/*isolation & purification/metabolism/pharmacology, Fermentation, Herbicides/*isolation & purification, Microbial Sensitivity Tests, Plants/drug effects, Spectrophotometry, Infrared, Time Factors
  • topic2: Enzymology

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
11342Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 43860)https://www.dsmz.de/collection/catalogue/details/culture/DSM-43860
19838Wink, J.https://www.dsmz.de/microorganisms/wink_pdf/DSM43860.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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
20216Curators of the HKIhttp://www.leibniz-hki.de/de/Collection Description Leibniz-Institut für Naturstoff-Forschung und Infektionsbiologie e. V. Hans-Knöll-Institut (HKI)
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68368Automatically annotated from API 20E
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
85399Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID126015.1StrainInfo: A central database for resolving microbial strain identifiers