Strain identifier

BacDive ID: 23163

Type strain: Yes

Species: Kribbella endophytica

Strain history: DSM 23718 <-- C. M. M. Franco; Flinders Univ., Australia; PIP 118.

NCBI tax ID(s): 913948 (species)

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General

@ref: 19295

BacDive-ID: 23163

DSM-Number: 23718

keywords: 16S sequence, Bacteria, aerobe, spore-forming, Gram-positive, rod-shaped

description: Kribbella endophytica DSM 23718 is an aerobe, spore-forming, Gram-positive bacterium that builds an aerial mycelium and was isolated from surface sterilized leaf of Pittosporum angustifolium, a native apricot tree.

NCBI tax id

  • NCBI tax id: 913948
  • Matching level: species

strain history

@refhistory
19295<- C. Franco, Flinders University, Australia; PIP 118 <- O. Kaewkla
67770DSM 23718 <-- C. M. M. Franco; Flinders Univ., Australia; PIP 118.

doi: 10.13145/bacdive23163.20240510.9

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Propionibacteriales
  • family: Kribbellaceae
  • genus: Kribbella
  • species: Kribbella endophytica
  • full scientific name: Kribbella endophytica Kaewkla and Franco 2013

@ref: 19295

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Kribbellaceae

genus: Kribbella

species: Kribbella endophytica

full scientific name: Kribbella endophytica Kaewkla and Franco 2013

type strain: yes

Morphology

cell morphology

  • @ref: 30657
  • gram stain: positive
  • cell length: 2.5 µm
  • cell width: 0.35 µm
  • cell shape: rod-shaped
  • motility: no

colony morphology

@refcolony colormedium used
69312Beige (1001), Ivory (1014)ISP 6
69312Beige (1001)suter with tyrosine
69312Beige (1001)suter without tyrosine
69312Beige (1001)ISP 3
69312Beige (1001)ISP 4
69312Beige (1001)ISP 5
69312Beige (1001)ISP 7
69312Sand yellow (1002)ISP 2

multicellular morphology

@refforms multicellular complexcomplex namecomplex colormedium name
69312yesAerial myceliumSignal white (9003)ISP 2
69312yesAerial myceliumSignal white (9003)ISP 3
69312yesAerial myceliumSignal white (9003)ISP 4
69312yesAerial myceliumSignal white (9003)ISP 5
69312noAerial myceliumISP 6
69312yesAerial myceliumTraffic white (9016)ISP 7
69312yesAerial myceliumCream (9001)suter with tyrosine
69312yesAerial myceliumCream (9001)suter without tyrosine

pigmentation

@refproductionname
30657no
69312noMelanin
69312nosoluble pigment

multimedia

@refmultimedia contentcaptionintellectual property rights
69312DSM_23718_image5.jpeg(ISP6, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH
69312DSM_23718_image6.jpeg(ISP6, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
19295R2A MEDIUM (DSMZ Medium 830)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium830.pdf
19295CORYNEBACTERIUM AGAR (DSMZ Medium 53)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium53.pdf
19295GYM 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

@refgrowthtypetemperature
19295positivegrowth28
30657positivegrowth15-27
67770positivegrowth28

culture pH

@refabilitytypepHPH range
30657positivegrowth05-10alkaliphile
30657positiveoptimum7.5

Physiology and metabolism

oxygen tolerance

  • @ref: 30657
  • oxygen tolerance: aerobe

spore formation

  • @ref: 30657
  • spore formation: yes

halophily

@refsaltgrowthtested relationconcentration
30657NaClpositivegrowth0-3 %
30657NaClpositiveoptimum1 %
69312NaClpositivegrowth0-10 %

observation

@refobservation
30657aggregates in chains
67770quinones: MK-9(H4), MK-9(H2), MK-9(H0)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
306574853esculin+hydrolysis
6931222599arabinose+growth
6931262968cellulose+growth
6931228757fructose+growth
6931217234glucose+growth
6931217268inositol+growth
6931237684mannose+growth
6931216634raffinose+growth
6931226546rhamnose+growth
6931217992sucrose+growth
6931218222xylose+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
30657catalase+1.11.1.6
30657gelatinase+
30657urease+3.5.1.5
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)+
68382lipase (C 14)+
68382leucine arylamidase+3.4.11.1
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 coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
69312-+++-++++++--------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
69312+++/-+++/-+/-++++++-+++++

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
19295surface sterilized leaf of Pittosporum angustifolium, a native apricot treePittosporum angustifoliumAdelaide, Flinders University's Bedford Park campusAustraliaAUSAustralia and Oceania
67770Leaf of a native apricot tree (Pittosporum angustifolium) on the campus of Flinders Univ.Pittosporum angustifoliumAdelaide, South AustraliaAustraliaAUSAustralia and Oceania

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Tree
#Host Body-Site#Plant#Leaf (Phyllosphere)
#Host Body-Site#Plant#Sterilized plant part

taxonmaps

  • @ref: 69479
  • File name: preview.99_11600.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_142;96_440;97_503;98_578;99_11600&stattab=map
  • Last taxonomy: Kribbella
  • 16S sequence: HQ396152
  • Sequence Identity:
  • Total samples: 1998
  • soil counts: 1454
  • aquatic counts: 33
  • animal counts: 51
  • plant counts: 460

Safety information

risk assessment

  • @ref: 19295
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 19295
  • description: Kribbella endophytica 16S ribosomal RNA gene, partial sequence
  • accession: HQ396152
  • length: 1421
  • database: nuccore
  • NCBI tax ID: 913948

GC content

@refGC-contentmethod
1929567.4high performance liquid chromatography (HPLC)
3065767.4

External links

@ref: 19295

culture collection no.: DSM 23718, JCM 30548, NRRL B-24812, PIP 118

straininfo link

  • @ref: 87397
  • straininfo: 404760

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny22771686Kribbella endophytica sp. nov., an endophytic actinobacterium isolated from the surface-sterilized leaf of a native apricot tree.Kaewkla O, Franco CMMInt J Syst Evol Microbiol10.1099/ijs.0.041343-02012Actinomycetales/*classification/genetics/isolation & purification, Australia, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Endophytes/*classification/genetics/isolation & purification, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, Plant Leaves/microbiology, Prunus/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/analysisEnzymology
Phylogeny25385996Description of Kribbella italica sp. nov., isolated from a Roman catacomb.Everest GJ, Curtis SM, De Leo F, Urzi C, Meyers PRInt J Syst Evol Microbiol10.1099/ijs.0.070672-02014Actinomycetales/*classification, Bacterial Typing Techniques, *Biofilms, Caves/*microbiology, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phosphatidylcholines/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rome, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryGenetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
19295Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23718)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23718
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
30657Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2698828776041
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
69312Wink, J.https://cdn.dsmz.de/wink/DSM%2023718.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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
87397Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID404760.1StrainInfo: A central database for resolving microbial strain identifiers