Strain identifier

BacDive ID: 133057

Type strain: Yes

Species: Streptomyces capparidis

Strain history: W.-J. Li EGI 6500195.

NCBI tax ID(s): 1840415 (species)

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General

@ref: 24845

BacDive-ID: 133057

DSM-Number: 42145

keywords: 16S sequence, Bacteria, spore-forming

description: Streptomyces capparidis DSM 42145 is a spore-forming bacterium that was isolated from surface-sterilized fruit of Capparis spinosa L..

NCBI tax id

  • NCBI tax id: 1840415
  • Matching level: species

strain history

@refhistory
24845<- W.-J. Li, Yunnan Univ., Yunnan Inst. Microbiol. (YIM), Kunming, China; EGI 6500195 <- H.-F. Wang, Chinese Academy of Science
67770W.-J. Li EGI 6500195.

doi: 10.13145/bacdive133057.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Kitasatosporales
  • family: Streptomycetaceae
  • genus: Streptomyces
  • species: Streptomyces capparidis
  • full scientific name: Streptomyces capparidis Wang et al. 2017

@ref: 24845

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces capparidis

full scientific name: Streptomyces capparidis Wang et al. 2017

type strain: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
24845ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium84.pdf
25162ISP 3yes
25162ISP 5yes
25162ISP 4yes
25162Czapek ´s mediayes
24845GYM 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

@refgrowthtypetemperaturerange
25162positivegrowth10-45
25162positiveoptimum30mesophilic
24845positivegrowth28mesophilic
67770positivegrowth28mesophilic

culture pH

@refabilitytypepH
25162positivegrowth6.0-8.0
25162positiveoptimum7

Physiology and metabolism

spore formation

  • @ref: 25162
  • spore description: straight or flexuous chains and smooth surface
  • type of spore: spore
  • spore formation: yes

halophily

@refsaltgrowthtested relationconcentration
25162NaClpositivegrowth0-1 %(w/v)
25162NaCloptimum0 %(w/v)

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2516262968cellulose-hydrolysis
2516216988D-ribose-carbon source
2516265327D-xylose-carbon source
2516217234glucose-fermentation
2516217268myo-inositol-carbon source
2516230849L-arabinose-carbon source
2516216467L-arginine-nitrogen source
2516217561L-cysteine-nitrogen source
2516229985L-glutamate-nitrogen source
2516218019L-lysine-nitrogen source
2516262345L-rhamnose-carbon source
2516216828L-tryptophan-nitrogen source
2516237684mannose-carbon source
2516228053melibiose-carbon source
2516216634raffinose-carbon source
2516227082trehalose-carbon source
2516217151xylitol-carbon source
25162casein+hydrolysis
2516217057cellobiose+carbon source
2516215824D-fructose+carbon source
2516212936D-galactose+carbon source
2516217634D-glucose+carbon source
2516217924D-sorbitol+carbon source
2516217754glycerol+carbon source
2516215428glycine+nitrogen source
2516229991L-aspartate+nitrogen source
2516215971L-histidine+nitrogen source
2516217191L-isoleucine+nitrogen source
2516216643L-methionine+nitrogen source
2516217295L-phenylalanine+nitrogen source
2516217115L-serine+nitrogen source
2516216857L-threonine+nitrogen source
2516216414L-valine+nitrogen source
2516217632nitrate+reduction
25162skimmed milk+degradation
2516253424tween 20+hydrolysis
2516253423tween 40+hydrolysis
2516253425tween 60+hydrolysis
2516253426tween 80+hydrolysis

metabolite production

  • @ref: 25162
  • Chebi-ID: 16136
  • metabolite: hydrogen sulfide
  • production: no

metabolite tests

  • @ref: 25162
  • Chebi-ID: 17234
  • metabolite: glucose
  • methylred-test: -

enzymes

  • @ref: 25162
  • value: catalase
  • activity: +
  • ec: 1.11.1.6

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    25162C15:0 anteiso19.4
    25162C17:0 anteiso18.7
    25162C17:1 anteiso ω9c7.4
    25162C15:0 iso15.6
    25162C16:0 iso15.1
  • type of FA analysis: whole cell analysis
  • incubation medium: TSB (Tryptone soya broth, Difco)
  • agar/liquid: liquid
  • incubation temperature: 30
  • incubation time: 7
  • software version: Sherlock 6.1
  • library/peak naming table: TSBA 6
  • system: MIS MIDI

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
24845surface-sterilized fruit of Capparis spinosa L.Capparis spinosaXinjiang Province, Urumqi cityChinaCHNAsia
67770Fruits of Capparis spinosa L.Capparis spinosa

isolation source categories

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

Safety information

risk assessment

  • @ref: 24845
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 24845
  • description: Streptomyces capparidis strain EGI 6500195 16S ribosomal RNA gene, partial sequence
  • accession: KX119420
  • length: 1532
  • database: ena
  • NCBI tax ID: 1840415

GC content

  • @ref: 24845
  • GC-content: 74.1
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 24845

culture collection no.: DSM 42145, JCM 30089, EGI 6500195

straininfo link

  • @ref: 91324
  • straininfo: 405132

literature

  • topic: Phylogeny
  • Pubmed-ID: 27902318
  • title: Streptomyces capparidis sp. nov., a novel endophytic actinobacterium isolated from fruits of Capparis spinosa L.
  • authors: Wang HF, Li QL, Xiao M, Zhang YG, Zhou XK, Narsing Rao MP, Duan YQ, Li WJ
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.001586
  • year: 2017
  • mesh: Bacterial Typing Techniques, Base Composition, Capparis/*microbiology, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Fruit/*microbiology, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Streptomyces/*classification/genetics/isolation & purification, Vitamin K 2/analogs & derivatives
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
24845Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-42145Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 42145)
25162H. F. L. Wang, Q. L.,Xiao, M.,Zhang, Y. G.,Zhou, X. K.,Narsing Rao, M. P.,Duan, Y. Q.,Li, W. J.Streptomyces capparidis sp. nov., a novel endophytic actinobacterium isolated from fruits of Capparis spinosa L10.1099/ijsem.0.001586IJSEM 67: 133-137 201727902318
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
91324Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID405132.1