Strain identifier

BacDive ID: 13306

Type strain: Yes

Species: Lentzea atacamensis

Strain Designation: C68

Strain history: CGMCC 4.5535 <-- M. Goodfellow C68.

NCBI tax ID(s): 531938 (species)

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General

@ref: 17321

BacDive-ID: 13306

DSM-Number: 45480

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

description: Lentzea atacamensis C68 is an aerobe, spore-forming, Gram-positive bacterium that was isolated from desert soil.

NCBI tax id

  • NCBI tax id: 531938
  • Matching level: species

strain history

@refhistory
17321<- NRRL; NRRL B-24707 <- M. Goodfellow, Univ. Newcastle, Newcastle upon Tyne, UK; C68
67770CGMCC 4.5535 <-- M. Goodfellow C68.

doi: 10.13145/bacdive13306.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Pseudonocardiales
  • family: Pseudonocardiaceae
  • genus: Lentzea
  • species: Lentzea atacamensis
  • full scientific name: Lentzea atacamensis (Okoro et al. 2010) Nouioui et al. 2018

  • synonyms

    @refsynonym
    20215Lechevalieria atacamensis
    20215Lechevalieria deserti
    20215Lentzea deserti

@ref: 17321

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Pseudonocardiaceae

genus: Lentzea

species: Lentzea deserti

full scientific name: Lechevalieria deserti Okoro et al. 2010

strain designation: C68

type strain: yes

Morphology

cell morphology

@refgram stainmotilityconfidence
29271positiveno
69480no90.379
69480positive100

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
29271positivegrowth20-40
29271positiveoptimum30mesophilic
67770positivegrowth28mesophilic

culture pH

@refabilitytypepHPH range
29271positivegrowth05-11alkaliphile
29271positiveoptimum7.5

Physiology and metabolism

oxygen tolerance

  • @ref: 29271
  • oxygen tolerance: aerobe

spore formation

  • @ref: 69480
  • spore formation: yes
  • confidence: 100

halophily

  • @ref: 29271
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 04-05 %

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2927115963ribitol+carbon source
2927118403L-arabitol+carbon source
2927116947citrate+carbon source
2927117754glycerol+carbon source
2927116634raffinose+carbon source
2927126546rhamnose+carbon source
2927130911sorbitol+carbon source
2927130031succinate+carbon source
2927117151xylitol+carbon source
2927118222xylose+carbon source
292714853esculin+hydrolysis

enzymes

  • @ref: 29271
  • value: catalase
  • activity: +
  • ec: 1.11.1.6

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
17321desert soilAtacama Desert, Salar de AtacamaChileCHLMiddle and South America
67770Hyperarid soil from the Salar de Atacama region of the Atacama DesertChileCHLMiddle and South America

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_34377.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_840;97_982;98_2059;99_34377&stattab=map
  • Last taxonomy: Lentzea
  • 16S sequence: EU551682
  • Sequence Identity:
  • Total samples: 121
  • soil counts: 55
  • aquatic counts: 2
  • animal counts: 4
  • plant counts: 60

Safety information

risk assessment

  • @ref: 17321
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 17321
  • description: Lechevalieria deserti strain C68 16S ribosomal RNA gene, partial sequence
  • accession: EU551682
  • length: 1463
  • database: ena
  • NCBI tax ID: 531939

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Lechevalieria deserti strain DSM 45480531939.3wgspatric531939
66792Lechevalieria deserti DSM 454802756170278draftimg531939
67770Lentzea atacamensis DSM 45480GCA_003148865scaffoldncbi531938

GC content

  • @ref: 67770
  • GC-content: 68.8
  • method: genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes84no
gram-positiveyes89.887yes
anaerobicno99.155yes
halophileno86.223no
spore-formingyes93.91no
glucose-utilyes88.334no
thermophileno98.948yes
motileno90.9yes
flagellatedno96.667yes
aerobicyes93.75yes
glucose-fermentno90.198no

External links

@ref: 17321

culture collection no.: DSM 45480, CGMCC 4.5535, NRRL B-24707, JCM 17493

literature

  • topic: Phylogeny
  • Pubmed-ID: 19651742
  • title: Lechevalieria atacamensis sp. nov., Lechevalieria deserti sp. nov. and Lechevalieria roselyniae sp. nov., isolated from hyperarid soils.
  • authors: Okoro CK, Bull AT, Mutreja A, Rong X, Huang Y, Goodfellow M
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.009985-0
  • year: 2009
  • mesh: Actinomycetales/*classification/genetics/physiology, Base Sequence, Chile, Desert Climate, Molecular Sequence Data, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, *Soil Microbiology
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
17321Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45480)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45480
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
29271Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2568828776041
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)