Strain identifier

BacDive ID: 14873

Type strain: Yes

Species: Streptacidiphilus neutrinimicus

Strain Designation: JL206

Strain history: <- S.B.Kim, KRIBB

NCBI tax ID(s): 105420 (species)

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General

@ref: 10548

BacDive-ID: 14873

DSM-Number: 41755

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

description: Streptacidiphilus neutrinimicus JL206 is an aerobe, spore-forming, mesophilic bacterium that was isolated from soil.

NCBI tax id

  • NCBI tax id: 105420
  • Matching level: species

strain history

@refhistory
10548<- S.B. Kim, Univ. of Newcastle, JL206 <- C.N. Seong <- J. Lonsdale
67770KCTC 9911 <-- S. B. Kim JL206 <-- C. N. Seong <-- J. Lonsdale.
67771<- S.B.Kim, KRIBB

doi: 10.13145/bacdive14873.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Kitasatosporales
  • family: Streptomycetaceae
  • genus: Streptacidiphilus
  • species: Streptacidiphilus neutrinimicus
  • full scientific name: Streptacidiphilus neutrinimicus Kim et al. 2003

@ref: 10548

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptacidiphilus

species: Streptacidiphilus neutrinimicus

full scientific name: Streptacidiphilus neutrinimicus Kim et al. 2003 emend. Nouioui et al. 2018

strain designation: JL206

type strain: yes

Morphology

cell morphology

@refgram stainmotilityconfidence
67771positive
69480no95.851
69480positive100

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
10548BENNETT'S AGAR (DSMZ Medium 548)yeshttps://mediadive.dsmz.de/medium/548Name: BENNETT'S AGAR (DSMZ Medium 548) Composition: Agar 15.0 g/l Glucose 10.0 g/l N-Z amine 2.0 g/l Yeast extract 1.0 g/l Beef extract 1.0 g/l Distilled water
10548ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)yeshttps://mediadive.dsmz.de/medium/84Name: ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84) Composition: Agar 20.0 g/l Rolled oats 20.0 g/l ZnSO4 x 7 H2O 0.001 g/l MnCl2 x 4 H2O 0.001 g/l FeSO4 x 7 H2O 0.001 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
10548positivegrowth28mesophilic
67770positivegrowth28mesophilic
67771positivegrowth25mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 67771
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481yes100
69480yes100

observation

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

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
10548soilCounty Duhram, Hamsterly ForestUnited KingdomGBREurope
67770Litter layers in a spruce forestHamsterley Forest, County DurhamUnited KingdomGBREurope
67771From soilUnited KingdomGBREurope

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_3302.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_1291;97_2062;98_2532;99_3302&stattab=map
  • Last taxonomy: Streptacidiphilus
  • 16S sequence: AB249949
  • Sequence Identity:
  • Total samples: 852
  • soil counts: 623
  • aquatic counts: 86
  • animal counts: 112
  • plant counts: 31

Safety information

risk assessment

  • @ref: 10548
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
10548Soil actinomycete DSM 41755 16S ribosomal RNA gene, complete sequenceAF0744101511ena105420
67771Streptacidiphilus neutrinimicus gene for 16S rRNA, partial sequence, strain: NBRC 100921AB2499491444ena105420

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptacidiphilus neutrinimicus NBRC 100921105420.3wgspatric105420
66792Streptacidiphilus neutrinimicus NBRC 1009212671180946draftimg105420
67770Streptacidiphilus neutrinimicus NBRC 100921GCA_000787815scaffoldncbi105420

GC content

  • @ref: 67770
  • GC-content: 72.2
  • method: genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileno93.95no
flagellatedno98.192no
gram-positiveyes90.804no
anaerobicno98.892no
aerobicyes92.061yes
halophileno91.945no
spore-formingyes92.539no
thermophileno98.256yes
glucose-utilyes89.88no
glucose-fermentno88.41no

External links

@ref: 10548

culture collection no.: DSM 41755, KCTC 9911, JCM 12365, BCRC 16807, CGMCC 4.1811, NBRC 100921, NCIMB 13797

straininfo link

  • @ref: 83984
  • straininfo: 60982

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny23989983Streptacidiphilus hamsterleyensis sp. nov., isolated from a spruce forest soil.Golinska P, Kim BY, Dahm H, Goodfellow MAntonie Van Leeuwenhoek10.1007/s10482-013-0015-12013Bacterial Typing Techniques, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Streptomycetaceae/*classification/genetics/*isolation & purification, TreesGenetics
Phylogeny27558132Streptacidiphilus toruniensis sp. nov., isolated from a pine forest soil.Golinska P, Dahm H, Goodfellow MAntonie Van Leeuwenhoek10.1007/s10482-016-0759-52016Actinobacteria/classification/*isolation & purification, DNA, Bacterial, *Forests, Molecular Typing, Phylogeny, *Pinus, RNA, Bacterial, RNA, Ribosomal, 16S/genetics, *Soil MicrobiologyEnzymology

Reference

@idauthorscataloguedoi/urltitle
10548Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 41755)https://www.dsmz.de/collection/catalogue/details/culture/DSM-41755
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/
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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
83984Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID60982.1StrainInfo: A central database for resolving microbial strain identifiers