Strain identifier

BacDive ID: 12674

Type strain: Yes

Species: Naumannella halotolerans

Strain Designation: WS 4616

Strain history: LMG 26184 <-- S. Scherer; Tech. Univ. of Munich, Germany <-- G. Rieser; Tech. Univ. of Munich, Germany; WS4616.

NCBI tax ID(s): 993414 (species)

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General

@ref: 17435

BacDive-ID: 12674

DSM-Number: 24323

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

description: Naumannella halotolerans WS 4616 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from pharmaceutical clean room.

NCBI tax id

  • NCBI tax id: 993414
  • Matching level: species

strain history

@refhistory
17435<- S. Scherer, Research Center for Nutrition and Food Sci. (ZIEL), TU Munich, Germany; WS4616 <- G. Rieser
67770LMG 26184 <-- S. Scherer; Tech. Univ. of Munich, Germany <-- G. Rieser; Tech. Univ. of Munich, Germany; WS4616.

doi: 10.13145/bacdive12674.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Propionibacteriales
  • family: Propionibacteriaceae
  • genus: Naumannella
  • species: Naumannella halotolerans
  • full scientific name: Naumannella halotolerans Rieser et al. 2012

@ref: 17435

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Propionibacteriaceae

genus: Naumannella

species: Naumannella halotolerans

full scientific name: Naumannella halotolerans Rieser et al. 2012

strain designation: WS 4616

type strain: yes

Morphology

cell morphology

@refgram staincell widthcell shapemotilityconfidence
30487positive1.15 µmcoccus-shapedno
69480no94.063
69480positive100

pigmentation

  • @ref: 30487
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 17435
  • name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/92
  • composition: Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
17435positivegrowth28mesophilic
30487positivegrowth15-37
67770positivegrowth28mesophilic

culture pH

  • @ref: 30487
  • ability: positive
  • type: growth
  • pH: 06-08

Physiology and metabolism

oxygen tolerance

  • @ref: 30487
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
30487no
69481no100
69480no99.984

halophily

  • @ref: 30487
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-10 %

observation

  • @ref: 67770
  • observation: quinones: MK-9(H4), MK-8(H4)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3048715963ribitol+carbon source
3048722599arabinose+carbon source
3048718403L-arabitol+carbon source
3048728757fructose+carbon source
3048728260galactose+carbon source
3048717234glucose+carbon source
3048717754glycerol+carbon source
3048717306maltose+carbon source
3048729864mannitol+carbon source
3048737684mannose+carbon source
3048733942ribose+carbon source
3048730911sorbitol+carbon source
3048717992sucrose+carbon source
3048727082trehalose+carbon source
304874853esculin+hydrolysis

enzymes

@refvalueactivityec
30487catalase+1.11.1.6
30487cytochrome oxidase+1.9.3.1
30487urease+3.5.1.5

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
17435pharmaceutical clean roomSachsen-AnhaltGermanyDEUEurope
67770Pharmaceutical clean room

isolation source categories

  • Cat1: #Engineered
  • Cat2: #Built environment
  • Cat3: #Clean room

taxonmaps

  • @ref: 69479
  • File name: preview.99_26271.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_72;96_10225;97_15937;98_19732;99_26271&stattab=map
  • Last taxonomy: Naumannella halotolerans subclade
  • 16S sequence: FR832425
  • Sequence Identity:
  • Total samples: 289
  • soil counts: 51
  • aquatic counts: 58
  • animal counts: 173
  • plant counts: 7

Safety information

risk assessment

  • @ref: 17435
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 17435
  • description: Naumannella halotolerans partial 16S rRNA gene, type strain WS4616T
  • accession: FR832425
  • length: 1407
  • database: ena
  • NCBI tax ID: 993414

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Naumannella halotolerans strain DSM 24323993414.3wgspatric993414
66792Naumannella halotolerans DSM 243232731957515draftimg993414
67770Naumannella halotolerans DSM 24323GCA_004364645contigncbi993414

GC content

@refGC-contentmethod
1743567.7high performance liquid chromatography (HPLC)
3048767.7

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno95.044yes
flagellatedno98.332no
gram-positiveyes95.53yes
anaerobicno99.689yes
halophileno82.539no
spore-formingno92.795yes
glucose-utilyes84.672no
aerobicyes95.298no
thermophileno97.058no
glucose-fermentno87.79no

External links

@ref: 17435

culture collection no.: DSM 24323, LMG 26184, JCM 30997

straininfo link

  • @ref: 81885
  • straininfo: 374254

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny22307502Naumannella halotolerans gen. nov., sp. nov., a Gram-positive coccus of the family Propionibacteriaceae isolated from a pharmaceutical clean room and from food.Rieser G, Scherer S, Wenning MInt J Syst Evol Microbiol10.1099/ijs.0.037218-02012Bacterial Typing Techniques, Base Composition, Carbohydrates/analysis, DNA, Bacterial/genetics, Dairy Products/*microbiology, *Environment, Controlled, Fatty Acids/analysis, Molecular Sequence Data, Peptidoglycan/analysis, *Phylogeny, Propionibacteriaceae/*classification/genetics/isolation & purification, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAGenetics
Phylogeny28629493Naumannella huperziae sp. nov., an endophytic actinobacterium isolated from Huperzia serrata (Thunb.).Sun Y, Chen HH, Sun HM, Ai MJ, Su J, Yu LY, Zhang YQInt J Syst Evol Microbiol10.1099/ijsem.0.0018822017Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Glycolipids/chemistry, Huperzia/*microbiology, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, Plants, Medicinal/microbiology, Propionibacteriaceae/*classification/genetics/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNATranscriptome
Phylogeny28792371Description of Naumannella cuiyingiana sp. nov., isolated from a ca. 1500-year-old mural painting, and emended description of the genus Naumannella.Tian T, Wu F, Ma Y, Xiang T, Ma W, Hu W, Wu G, An L, Wang W, Feng HInt J Syst Evol Microbiol10.1099/ijsem.0.0019642017Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, Cemeteries, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, *Paintings, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, Propionibacteriaceae/*classification/genetics/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNATranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
17435Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 24323)https://www.dsmz.de/collection/catalogue/details/culture/DSM-24323
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
30487Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2682028776041
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updates33211880Nucleic Acids Res. 49: D498-D508 2020
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
81885Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID374254.1StrainInfo: A central database for resolving microbial strain identifiers