Strain identifier

BacDive ID: 6328

Type strain: Yes

Species: Kineosporia mesophila

Strain history: DSM 45271 <-- J. Li YIM 65293.

NCBI tax ID(s): 566012 (species)

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General

@ref: 16078

BacDive-ID: 6328

DSM-Number: 45271

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

description: Kineosporia mesophila DSM 45271 is a spore-forming, mesophilic bacterium that was isolated from surface sterilized stem sample of Tripterygium wilfordii.

NCBI tax id

  • NCBI tax id: 566012
  • Matching level: species

strain history

@refhistory
16078<- YIM; YIM 65293 <- J. Li
67770DSM 45271 <-- J. Li YIM 65293.

doi: 10.13145/bacdive6328.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Kineosporiales
  • family: Kineosporiaceae
  • genus: Kineosporia
  • species: Kineosporia mesophila
  • full scientific name: Kineosporia mesophila Li et al. 2009

@ref: 16078

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Kineosporiaceae

genus: Kineosporia

species: Kineosporia mesophila

full scientific name: Kineosporia mesophila Li et al. 2009

type strain: yes

Morphology

pigmentation

  • @ref: 29385
  • production: no

multimedia

  • @ref: 16078
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_45271.jpg
  • caption: Medium 65 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

  • @ref: 16078
  • 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
16078positivegrowth28mesophilic
29385positivegrowth10-32
67770positivegrowth28mesophilic

culture pH

  • @ref: 29385
  • ability: positive
  • type: growth
  • pH: 06-08

Physiology and metabolism

spore formation

  • @ref: 29385
  • spore formation: yes

halophily

  • @ref: 29385
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-3 %

observation

  • @ref: 67770
  • observation: quinones: MK-9(H4)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2938516449alanine+carbon source
2938522599arabinose+carbon source
2938522653asparagine+carbon source
2938517057cellobiose+carbon source
2938528757fructose+carbon source
2938528260galactose+carbon source
2938517234glucose+carbon source
2938515428glycine+carbon source
29385182404-hydroxy-L-proline+carbon source
2938517306maltose+carbon source
2938529864mannitol+carbon source
2938537684mannose+carbon source
2938528053melibiose+carbon source
2938528044phenylalanine+carbon source
2938516634raffinose+carbon source
2938526546rhamnose+carbon source
2938517822serine+carbon source
2938530911sorbitol+carbon source
2938517992sucrose+carbon source
2938527082trehalose+carbon source
2938553258sodium citrate+carbon source
2938553424tween 20+carbon source
2938553423tween 40+carbon source
2938553426tween 80+carbon source
2938518222xylose+carbon source
2938517632nitrate+reduction

enzymes

  • @ref: 29385
  • value: urease
  • activity: +
  • ec: 3.5.1.5

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
16078surface sterilized stem sample of Tripterygium wilfordiiTripterygium wilfordiiYunnan provinceChinaCHNAsia
67770Surface-sterilized stem of Tripterygium wilfordiiTripterygium wilfordiiYunnan Province, south-west ChinaChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Herbaceous plants (Grass,Crops)
#Host Body-Site#Plant#Stem (Branch)
#Host Body-Site#Plant#Sterilized plant part

taxonmaps

  • @ref: 69479
  • File name: preview.99_20111.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9;96_10254;97_12376;98_15213;99_20111&stattab=map
  • Last taxonomy: Kineosporia
  • 16S sequence: FJ214362
  • Sequence Identity:
  • Total samples: 81
  • soil counts: 16
  • aquatic counts: 19
  • animal counts: 24
  • plant counts: 22

Safety information

risk assessment

  • @ref: 16078
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 16078
  • description: Kineosporia mesophila strain YIM 65293 16S ribosomal RNA gene, partial sequence
  • accession: FJ214362
  • length: 1425
  • database: ena
  • NCBI tax ID: 566012

Genome sequences

  • @ref: 66792
  • description: Kineosporia mesophila JCM 16902
  • accession: GCA_021129235
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 566012

GC content

@refGC-contentmethod
1607870.3high performance liquid chromatography (HPLC)
2938570.3

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedno90.704no
gram-positiveyes86.175no
anaerobicno99.101no
aerobicyes90.856no
halophileno96.126no
spore-formingyes89.531yes
motileyes54.949no
thermophileno99.564yes
glucose-utilyes89.053no
glucose-fermentno85.259no

External links

@ref: 16078

culture collection no.: DSM 45271, CCTCC AA 208061, JCM 16902, YIM 65293

straininfo link

  • @ref: 75802
  • straininfo: 407057

literature

  • topic: Phylogeny
  • Pubmed-ID: 19643874
  • title: Kineosporia mesophila sp. nov., isolated from surface-sterilized stems of Tripterygium wilfordii.
  • authors: Li J, Zhao GZ, Huang HY, Qin S, Zhu WY, Xu LH, Li WJ
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.012021-0
  • year: 2009
  • mesh: Actinomycetales/*classification/genetics/*isolation & purification, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Molecular Sequence Data, Phylogeny, Plant Stems/microbiology, RNA, Ribosomal, 16S/genetics, Tripterygium/*microbiology
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
16078Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45271)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45271
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
29385Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2579228776041
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/
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
75802Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID407057.1StrainInfo: A central database for resolving microbial strain identifiers