Strain identifier

BacDive ID: 23200

Type strain: Yes

Species: Promicromonospora endophytica

Strain history: DSM 23716 <-- C. Franco EUM 273 <-- O. Kaewkla.

NCBI tax ID(s): 722703 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 19156

BacDive-ID: 23200

DSM-Number: 23716

keywords: 16S sequence, Bacteria, aerobe, mesophilic, Gram-positive, coccus-shaped

description: Promicromonospora endophytica DSM 23716 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from surface sterilized root of Eucalyptus microcarpa.

NCBI tax id

  • NCBI tax id: 722703
  • Matching level: species

strain history

@refhistory
19156<- C. Franco, Flinders University Australia; EUM 273 <- O. Kaewkla
67770DSM 23716 <-- C. Franco EUM 273 <-- O. Kaewkla.

doi: 10.13145/bacdive23200.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micrococcales
  • family: Promicromonosporaceae
  • genus: Promicromonospora
  • species: Promicromonospora endophytica
  • full scientific name: Promicromonospora endophytica Kaewkla and Franco 2012

@ref: 19156

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Promicromonosporaceae

genus: Promicromonospora

species: Promicromonospora endophytica

full scientific name: Promicromonospora endophytica Kaewkla and Franco 2012

type strain: yes

Morphology

cell morphology

  • @ref: 30312
  • gram stain: positive
  • cell length: 0.6 µm
  • cell width: 0.5 µm
  • cell shape: coccus-shaped
  • motility: no

colony morphology

@refcolony colormedium usedincubation period
69309Beige (1001)ISP 6
191563-7 days
69309Ivory (1014)ISP 7
69309Ivory (1014)suter with tyrosine
69309Light ivory (1015)ISP 3
69309Light ivory (1015)ISP 4
69309Light ivory (1015)ISP 5
69309Oyster white (1013)suter without tyrosine
69309Sand yellow (1002), Oyster white (1013)ISP 2

multicellular morphology

@refforms multicellular complexcomplex namemedium name
69309noAerial myceliumISP 2
69309noAerial myceliumISP 3
69309noAerial myceliumISP 4
69309noAerial myceliumISP 5
69309noAerial myceliumISP 6
69309noAerial myceliumISP 7
69309noAerial myceliumsuter with tyrosine
69309noAerial myceliumsuter without tyrosine

pigmentation

@refproductionname
30312no
69309noMelanin
69309nosoluble pigment

multimedia

@refmultimedia contentcaptionintellectual property rights
69309DSM_23716_image3.jpegPlates (65, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH
69309DSM_23716_image4.jpegPlates (65, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
19156TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium535.pdf
19156GYM 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
19156positivegrowth28mesophilic
30312positivegrowth15-27
67770positivegrowth28mesophilic

culture pH

  • @ref: 30312
  • ability: positive
  • type: growth
  • pH: 06-10
  • PH range: alkaliphile

Physiology and metabolism

oxygen tolerance

  • @ref: 30312
  • oxygen tolerance: aerobe

halophily

  • @ref: 69309
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-5 %

observation

  • @ref: 67770
  • observation: quinones: MK-9(H8), MK-9(H6), MK-9(H4)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6930922599arabinose+/-growth
3031215963ribitol+carbon source
3031222599arabinose+carbon source
3031217268myo-inositol+carbon source
6930962968cellulose+growth
6930928757fructose+growth
6930917234glucose+growth
6930917268inositol+/-growth
6930937684mannose+/-growth
6930916634raffinose+/-growth
6930926546rhamnose+growth
6930917992sucrose+growth
6930918222xylose+/-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
30312catalase+1.11.1.6
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
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+
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
69309--++-++-+-+--------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
69309++/-+/--+++--+++/-+-++++-

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
19156surface sterilized root of Eucalyptus microcarpaEucalyptus microcarpaAdelaide, Bedford ParkAustraliaAUSAustralia and Oceania
67770Root of Eucalyptus microcarpaEucalyptus microcarpacampus of Flinders Univ., Adelaide, South AustraliaAustraliaAUSAustralia and Oceania

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Tree
#Host Body-Site#Plant#Root (Rhizome)
#Host Body-Site#Plant#Sterilized plant part

Safety information

risk assessment

  • @ref: 19156
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
19156Promicromonospora endophytica strain EUM 273 16S ribosomal RNA gene, partial sequenceGU4342531370ena722703
67770Promicromonospora endophytica gene for 16S ribosomal RNA, partial sequence, strain: JCM 19560AB9239281465ena722703

GC content

@refGC-contentmethod
1915671.7high performance liquid chromatography (HPLC)
3031271.7

External links

@ref: 19156

culture collection no.: DSM 23716, JCM 19560, NRRL B-24816, EUM 273

straininfo link

  • @ref: 87429
  • straininfo: 408386

literature

  • topic: Phylogeny
  • Pubmed-ID: 21890721
  • title: Promicromonospora endophytica sp. nov., an endophytic actinobacterium isolated from the root of an Australian native Grey Box tree.
  • authors: Kaewkla O, Franco CMM
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.033258-0
  • year: 2011
  • mesh: Actinomycetales/*classification/genetics/*isolation & purification/physiology, Aerobiosis, Bacterial Typing Techniques, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Eucalyptus/*microbiology, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Plant Roots/microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analysis
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
19156Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23716)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23716
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
30312Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2665328776041
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
69309Wink, J.https://cdn.dsmz.de/wink/DSM%2023716.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
87429Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID408386.1StrainInfo: A central database for resolving microbial strain identifiers