Strain identifier

BacDive ID: 17110

Type strain: Yes

Species: Tsukamurella soli

Strain Designation: JS18-1

Strain history: CIP <- 2010, KACC: strain JS18-1

NCBI tax ID(s): 644556 (species)

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General

@ref: 12273

BacDive-ID: 17110

DSM-Number: 45046

keywords: 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-positive, rod-shaped

description: Tsukamurella soli JS18-1 is a facultative anaerobe, mesophilic, Gram-positive bacterium that was isolated from forest soil.

NCBI tax id

  • NCBI tax id: 644556
  • Matching level: species

strain history

@refhistory
403512010, KACC
12273<- S.-W. Kwon, KACC; JS18-1
67770KACC 20764 <-- H.-Y. Weon JS18-1.
122668CIP <- 2010, KACC: strain JS18-1

doi: 10.13145/bacdive17110.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Mycobacteriales
  • family: Tsukamurellaceae
  • genus: Tsukamurella
  • species: Tsukamurella soli
  • full scientific name: Tsukamurella soli Weon et al. 2010

@ref: 12273

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Tsukamurellaceae

genus: Tsukamurella

species: Tsukamurella soli

full scientific name: Tsukamurella soli Weon et al. 2010

strain designation: JS18-1

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
29524positive2.3-6 µm0.9-1 µmrod-shapedno
122668positiverod-shapedyes

pigmentation

  • @ref: 29524
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
12273TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://mediadive.dsmz.de/medium/535Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
40351MEDIUM 566- Reasoner's 2A agar for Flavobacterium micromatiyesDistilled water make up to (1000.000 ml);R2A agar (18.200 g)
122668CIP Medium 566yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=566

culture temp

@refgrowthtypetemperaturerange
12273positivegrowth28mesophilic
29524positivegrowth10-35
29524positiveoptimum30mesophilic
40351positivegrowth30mesophilic
67770positivegrowth28mesophilic

culture pH

@refabilitytypepHPH range
29524positivegrowth04-09alkaliphile
29524positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 122668
  • oxygen tolerance: facultative anaerobe

spore formation

  • @ref: 29524
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
29524NaClpositivegrowth0-3 %
29524NaClpositiveoptimum0-3 %

observation

@refobservation
29524aggregates in chains
67770quinones: MK-9, MK-8, MK-10

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2952418403L-arabitol+carbon source
2952428757fructose+carbon source
2952429864mannitol+carbon source
2952433942ribose+carbon source
2952417814salicin+carbon source
2952430911sorbitol+carbon source
2952453426tween 80+carbon source
295244853esculin+hydrolysis
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837132528turanose-builds acid from
6837128066gentiobiose-builds acid from
6837117151xylitol-builds acid from
6837128087glycogen-builds acid from
6837128017starch-builds acid from
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837127082trehalose-builds acid from
6837117992sucrose-builds acid from
6837128053melibiose-builds acid from
6837117306maltose-builds acid from
6837117057cellobiose-builds acid from
6837117814salicin-builds acid from
6837118305arbutin-builds acid from
6837127613amygdalin-builds acid from
6837159640N-acetylglucosamine-builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837116899D-mannitol-builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose-builds acid from
6837115824D-fructose-builds acid from
6837117634D-glucose-builds acid from
6837112936D-galactose-builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose-builds acid from
6837116988D-ribose-builds acid from
6837130849L-arabinose-builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
6837117754glycerol-builds acid from
12266817632nitrate-reduction
12266816301nitrite-reduction

metabolite production

  • @ref: 122668
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
29524catalase+1.11.1.6
122668oxidase-
122668catalase+1.11.1.6
122668urease+3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
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 zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
122668-+++-+----++---++---

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
122668------------------------+/----+/---------------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
12273forest soilJeju island, Halla mountainRepublic of KoreaKORAsia
67770Soil from Halla MountainJeju islandRepublic of KoreaKORAsia
122668Environment, Soil sampleJeju Island, Halla mountainRepublic of KoreaKORAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Forest
#Environmental#Terrestrial#Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_155365.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_1974;97_75944;98_102447;99_155365&stattab=map
  • Last taxonomy: Tsukamurella soli subclade
  • 16S sequence: FJ917743
  • Sequence Identity:
  • Total samples: 46
  • soil counts: 6
  • aquatic counts: 2
  • animal counts: 38

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
122731Risk group (German classification)
1226681Risk group (French classification)

Sequence information

16S sequences

  • @ref: 12273
  • description: Tsukamurella sp. JS18-1 16S ribosomal RNA gene, partial sequence
  • accession: FJ917743
  • length: 1431
  • database: ena
  • NCBI tax ID: 644556

GC content

@refGC-contentmethod
1227370high performance liquid chromatography (HPLC)
2952470

External links

@ref: 12273

culture collection no.: DSM 45046, KACC 20764, JCM 17688, NBRC 109778, CIP 110195

straininfo link

  • @ref: 86110
  • straininfo: 297505

literature

  • topic: Phylogeny
  • Pubmed-ID: 19734289
  • title: Tsukamurella soli sp. nov., isolated from soil.
  • authors: Weon HY, Yoo SH, Anandham R, Schumann P, Kroppenstedt RM, Kwon SW, Stackebrandt E
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.014852-0
  • year: 2009
  • mesh: Actinomycetales/*classification/genetics/isolation & purification/physiology, Base Composition, Base Sequence, Fatty Acids/analysis, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, *Soil Microbiology
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
12273Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45046)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45046
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
29524Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2592128776041
40351Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/8028
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
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
86110Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID297505.1StrainInfo: A central database for resolving microbial strain identifiers
122668Curators of the CIPCollection of Institut Pasteur (CIP 110195)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110195