Strain identifier

BacDive ID: 7820

Type strain: Yes

Species: Actinoplanes nipponensis

Strain Designation: FD 24834, FH 2241

Strain history: KCC A-0264 <-- Kyowa Hakko Kogyo Co., Ltd.; KY 11349 <-- ATCC 31145 <-- Chas. Pfizer & Co.; FD 24834.

NCBI tax ID(s): 135950 (species)

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General

@ref: 11348

BacDive-ID: 7820

DSM-Number: 43867

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

description: Actinoplanes nipponensis FD 24834 is a spore-forming, mesophilic, Gram-positive bacterium that was isolated from soil.

NCBI tax id

  • NCBI tax id: 135950
  • Matching level: species

strain history

@refhistory
11348<- ATCC <- Chas. Pfizer Inc., FD 24834
67770KCC A-0264 <-- Kyowa Hakko Kogyo Co., Ltd.; KY 11349 <-- ATCC 31145 <-- Chas. Pfizer & Co.; FD 24834.

doi: 10.13145/bacdive7820.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micromonosporales
  • family: Micromonosporaceae
  • genus: Actinoplanes
  • species: Actinoplanes nipponensis
  • full scientific name: Actinoplanes nipponensis Wink et al. 2014

@ref: 11348

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Micromonosporaceae

genus: Actinoplanes

species: Actinoplanes nipponensis

full scientific name: Actinoplanes nipponensis Wink et al. 2014

strain designation: FD 24834, FH 2241

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: positive
  • confidence: 100

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
11348GYM 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
11348STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium252.pdf

culture temp

@refgrowthtypetemperaturerange
11348positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481yes100
69480yes100

compound production

@refcompound
11348antibiotic 41012
67770Lipopeptide antibiotic 41,012

observation

  • @ref: 67770
  • observation: quinones: MK-9(H6), MK-9(H4), MK-9(H2)

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
11348soilJapanJPNAsia
67770SoilJapanJPNAsia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_11978.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_94;96_404;97_1769;98_8996;99_11978&stattab=map
  • Last taxonomy: Actinoplanes
  • 16S sequence: AB047498
  • Sequence Identity:
  • Total samples: 635
  • soil counts: 509
  • aquatic counts: 15
  • animal counts: 42
  • plant counts: 69

Safety information

risk assessment

  • @ref: 11348
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 11348
  • description: Actinoplanes nipponensis gene for 16S rRNA, partial sequence
  • accession: AB047498
  • length: 1474
  • database: ena
  • NCBI tax ID: 135950

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Actinoplanes nipponensis NBRC 14063GCA_016862275contigncbi135950
66792Actinoplanes nipponensis strain NBRC 14063135950.3wgspatric135950

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileyes67.318no
gram-positiveyes87.45no
anaerobicno98.909no
halophileno95.85no
spore-formingyes89.893no
thermophileno98.441yes
glucose-utilyes89.082no
flagellatedno88.95no
aerobicyes91.476no
glucose-fermentno89.77no

External links

@ref: 11348

culture collection no.: DSM 43867, ATCC 31145, IFO 14063, JCM 3264, KCTC 9594, NBRC 14063, KY 11349, CGMCC 4.5497, HUT 6551

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny24158947Emended description of Actinoplanes friuliensis and description of Actinoplanes nipponensis sp. nov., antibiotic-producing species of the genus Actinoplanes.Wink J, Schumann P, Spoer C, Eisenbarth K, Glaeser SP, Martin K, Kampfer PInt J Syst Evol Microbiol10.1099/ijs.0.057836-02013Anti-Bacterial Agents/*biosynthesis, DNA, Bacterial/genetics, Fatty Acids/chemistry, Italy, Micromonosporaceae/*classification/genetics/isolation & purification, Molecular Sequence Data, Peptidoglycan/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistryGenetics
Phylogeny26552374Actinoplanes lichenis sp. nov., isolated from lichen.Phongsopitanun W, Matsumoto A, Inahashi Y, Kudo T, Mori M, Shiomi K, Takahashi Y, Tanasupawat SInt J Syst Evol Microbiol10.1099/ijsem.0.0007462015Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Lichens/*microbiology, Micromonosporaceae/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, Plant Bark, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Thailand, Vitamin K 2/analogs & derivatives/chemistryGenetics

Reference

@idauthorscataloguedoi/urltitle
11348Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 43867)https://www.dsmz.de/collection/catalogue/details/culture/DSM-43867
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
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)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1