Strain identifier

BacDive ID: 11160

Type strain: Yes

Species: Actinopolymorpha alba

Strain history: DSM 45243 <-- S.-K. Tang <-- Y.-R. Cao YIM 48868.

NCBI tax ID(s): 1120950 (strain), 533267 (species)

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General

@ref: 15914

BacDive-ID: 11160

DSM-Number: 45243

keywords: genome sequence, 16S sequence, Bacteria, aerobe, Gram-positive

description: Actinopolymorpha alba DSM 45243 is an aerobe, Gram-positive bacterium that was isolated from forest, rhizosphere soil.

NCBI tax id

NCBI tax idMatching level
533267species
1120950strain

strain history

@refhistory
15914<- S.-K. Tang, YIM; YIM 48868 <- Y.-R. Cao
67770DSM 45243 <-- S.-K. Tang <-- Y.-R. Cao YIM 48868.

doi: 10.13145/bacdive11160.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Propionibacteriales
  • family: Actinopolymorphaceae
  • genus: Actinopolymorpha
  • species: Actinopolymorpha alba
  • full scientific name: Actinopolymorpha alba Cao et al. 2009

@ref: 15914

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Actinopolymorphaceae

genus: Actinopolymorpha

species: Actinopolymorpha alba

full scientific name: Actinopolymorpha alba Cao et al. 2009 emend. Nouioui et al. 2018

type strain: yes

Morphology

cell morphology

@refgram stainmotilityconfidence
29289positive
69480no91

pigmentation

  • @ref: 29289
  • production: no

multimedia

@refmultimedia contentintellectual property rightscaption
15914https://www.dsmz.de/microorganisms/photos/DSM_45243-1.jpg© Leibniz-Institut DSMZ
15914https://www.dsmz.de/microorganisms/photos/DSM_45243.jpg© Leibniz-Institut DSMZMedium 65 28°C

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
15914GYM 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
15914TRYPTICASE 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
15914ISP2 MEDIUM (DSMZ Medium 987)yeshttps://mediadive.dsmz.de/medium/987Name: ISP 2 MEDIUM (DSMZ Medium 987) Composition: Agar 20.0 g/l Malt extract 10.0 g/l Dextrose 4.0 g/l Yeast extract 4.0 g/l Distilled water

culture temp

@refgrowthtypetemperature
15914positivegrowth28
29289positivegrowth10-45
29289positiveoptimum27.5
67770positivegrowth28

culture pH

@refabilitytypepH
29289positivegrowth6.0-7.0
29289positiveoptimum6.5

Physiology and metabolism

oxygen tolerance

  • @ref: 29289
  • oxygen tolerance: aerobe

halophily

  • @ref: 29289
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: <7 %

observation

@refobservation
29289aggregates in clumps
67770quinones: MK-9(H6), MK-9(H8), MK-10(H6), MK-10(H8)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2928916449alanine+carbon source
2928922599arabinose+carbon source
2928922653asparagine+carbon source
2928923652dextrin+carbon source
2928933984fucose+carbon source
2928917234glucose+carbon source
2928917306maltose+carbon source
2928937684mannose+carbon source
2928928044phenylalanine+carbon source
2928926271proline+carbon source
2928916634raffinose+carbon source
2928926546rhamnose+carbon source
2928933942ribose+carbon source

enzymes

@refvalueactivityec
29289catalase+1.11.1.6
29289gelatinase+
29289cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
15914forest, rhizosphere soilYunnan Province, XishuangbannaChinaCHNAsia
67770Rhizosphere soilXishuangbannaChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Forest
#Environmental#Terrestrial#Soil
#Host Body-Site#Plant#Rhizosphere

taxonmaps

  • @ref: 69479
  • File name: preview.99_44791.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_779;96_20597;97_25630;98_32499;99_44791&stattab=map
  • Last taxonomy: Actinopolymorpha alba subclade
  • 16S sequence: EU706350
  • Sequence Identity:
  • Total samples: 327
  • soil counts: 257
  • aquatic counts: 9
  • animal counts: 36
  • plant counts: 25

Safety information

risk assessment

  • @ref: 15914
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 15914
  • description: Actinopolymorpha alba strain YIM 48868 16S ribosomal RNA gene, partial sequence
  • accession: EU706350
  • length: 1420
  • database: nuccore
  • NCBI tax ID: 533267

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Actinopolymorpha alba DSM 452431120950.3wgspatric1120950
66792Actinopolymorpha alba DSM 452432515154155draftimg1120950
67770Actinopolymorpha alba DSM 45243GCA_000373925scaffoldncbi1120950

GC content

@refGC-contentmethod
1591466.6high performance liquid chromatography (HPLC)
2928966.6
6777067.9genome sequence analysis

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69480gram-positivegram-positivePositive reaction to Gram-stainingyes89.003yes
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no92.401yes
69480spore-formingspore-formingAbility to form endo- or exosporesyes73.733no
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes85.519yes
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno94.75no
69480flagellatedmotile2+Ability to perform flagellated movementno91no

External links

@ref: 15914

culture collection no.: DSM 45243, CCTCC AA 208030, JCM 16897, YIM 48868

straininfo link

  • @ref: 80409
  • straininfo: 399030

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19605725Actinopolymorpha alba sp. nov., isolated from a rhizosphere soil.Cao YR, Jiang Y, Wu JY, Xu LH, Jiang CLInt J Syst Evol Microbiol10.1099/ijs.0.010280-02009Actinomycetales/chemistry/*classification/genetics/*isolation & purification, Aerobiosis, Bacterial Typing Techniques, Base Composition, China, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Maytenus/*microbiology, Microscopy, Electron, Scanning, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Pigments, Biological/biosynthesis, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analysisGenetics
Phylogeny20889769Flindersiella endophytica gen. nov., sp. nov., an endophytic actinobacterium isolated from the root of Grey Box, an endemic eucalyptus tree.Kaewkla O, Franco CMMInt J Syst Evol Microbiol10.1099/ijs.0.026757-02010Actinomycetales/*classification/genetics/*isolation & purification/physiology, Aerobiosis, Bacterial Typing Techniques, Cell Wall/chemistry, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Eucalyptus/*microbiology, Glucose/analysis, Molecular Sequence Data, Phylogeny, Plant Roots/microbiology, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Rhamnose/analysis, Ribose/analysis, Sequence Analysis, DNAGenetics
Phylogeny26297147Tenggerimyces mesophilus gen. nov., sp. nov., a member of the family Nocardioidaceae.Sun HM, Zhang T, Wei YZ, Liu HY, Yu LY, Zhang YQInt J Syst Evol Microbiol10.1099/ijsem.0.0004212015Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Desert Climate, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Molecular Sequence Data, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/chemistryGenetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
15914Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45243)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45243
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
29289Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2570528776041
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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
80409Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID399030.1StrainInfo: A central database for resolving microbial strain identifiers