Strain identifier

BacDive ID: 4264

Type strain: Yes

Species: Dietzia lutea

Strain history: <- SK Tang, Yunnan Inst. Microbiol., China

NCBI tax ID(s): 546160 (species)

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

@ref: 12317

BacDive-ID: 4264

DSM-Number: 45074

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

description: Dietzia lutea DSM 45074 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from desert soil.

NCBI tax id

  • NCBI tax id: 546160
  • Matching level: species

strain history

@refhistory
12317<- YIM <- C. Chen
67770KCTC 19232 <-- YIM 80766 <-- C. Chen.
67771<- SK Tang, Yunnan Inst. Microbiol., China

doi: 10.13145/bacdive4264.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Mycobacteriales
  • family: Dietziaceae
  • genus: Dietzia
  • species: Dietzia lutea
  • full scientific name: Dietzia lutea Li et al. 2011

@ref: 12317

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Dietziaceae

genus: Dietzia

species: Dietzia lutea

full scientific name: Dietzia lutea Li et al. 2011

type strain: yes

Morphology

cell morphology

@refgram stainmotilityconfidence
67771positive
69480no94.69
69480positive100

Culture and growth conditions

culture medium

  • @ref: 12317
  • name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/535
  • composition: Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
12317positivegrowth28mesophilic
67770positivegrowth28mesophilic
67771positivegrowth28mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 67771
  • oxygen tolerance: aerobe

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 99.966

observation

  • @ref: 67770
  • observation: quinones: MK-8(H2)

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
12317desert soilEgyptEGYAfrica
67770Soil from the eastern desert of Egypt
67771From alkaline desert soilEgyptEGYAfrica

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Desert
#Environmental#Terrestrial#Soil
#Condition#Xerophilic

Safety information

risk assessment

  • @ref: 12317
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 12317
  • description: Dietzia lutea strain YIM 80766 16S ribosomal RNA gene, partial sequence
  • accession: EU821598
  • length: 1396
  • database: ena
  • NCBI tax ID: 546160

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Dietzia lutea YIM 80766GCA_003096075completencbi546160
66792Dietzia lutea YIM 80766GCA_009806405scaffoldncbi546160
66792Dietzia lutea strain YIM 80766546160.4wgspatric546160
66792Dietzia lutea strain YIM 80766546160.3completepatric546160
66792Dietzia lutea YIM 807662841082593completeimg546160

GC content

  • @ref: 12317
  • GC-content: 70.5
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes51no
flagellatedno98.736no
gram-positiveyes89.962yes
anaerobicno98.908no
halophileno55.59no
spore-formingno87.63no
glucose-utilyes87.268no
aerobicyes90.922no
thermophileno98.462no
motileno94.442no
glucose-fermentno89.194no

External links

@ref: 12317

culture collection no.: DSM 45074, CCTCC AA 207008, KCTC 19232, YIM 80766, JCM 19954

straininfo link

  • @ref: 73759
  • straininfo: 407891

literature

  • topic: Phylogeny
  • Pubmed-ID: 19157741
  • title: Description of Dietzia lutea sp. nov., isolated from a desert soil in Egypt.
  • authors: Li J, Chen C, Zhao GZ, Klenk HP, Pukall R, Zhang YQ, Tang SK, Li WJ
  • journal: Syst Appl Microbiol
  • DOI: 10.1016/j.syapm.2008.11.007
  • year: 2009
  • mesh: Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, DNA, Bacterial/analysis, DNA, Ribosomal/genetics, *Desert Climate, Egypt, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Species Specificity
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitle
12317Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45074)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45074
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
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)
73759Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID407891.1StrainInfo: A central database for resolving microbial strain identifiers