Strain identifier

BacDive ID: 3242

Type strain: Yes

Species: Corynebacterium deserti

Strain Designation: GIMN1.010

Strain history: <- J. Sweezy, NRRL; NRRL B-59552

NCBI tax ID(s): 1408191 (species)

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General

@ref: 18077

BacDive-ID: 3242

DSM-Number: 45689

keywords: genome sequence, 16S sequence, Bacteria, mesophilic

description: Corynebacterium deserti GIMN1.010 is a mesophilic bacterium that was isolated from desert sand.

NCBI tax id

  • NCBI tax id: 1408191
  • Matching level: species

strain history

  • @ref: 18077
  • history: <- J. Sweezy, NRRL; NRRL B-59552

doi: 10.13145/bacdive3242.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Mycobacteriales
  • family: Corynebacteriaceae
  • genus: Corynebacterium
  • species: Corynebacterium deserti
  • full scientific name: Corynebacterium deserti Zhou et al. 2012

@ref: 18077

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Corynebacteriaceae

genus: Corynebacterium

species: Corynebacterium deserti

full scientific name: Corynebacterium deserti Zhou et al. 2012 emend. Nouioui et al. 2018

strain designation: GIMN1.010

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no93.899
69480100positive

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
18077TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://mediadive.dsmz.de/medium/535Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
18077TRYPTICASE SOY BROTH AGAR+BLOOD (DSMZ Medium 535a)yeshttps://mediadive.dsmz.de/medium/535aName: TRYPTICASE SOY BROTH AGAR+BLOOD (DSMZ Medium 535a) Composition: None 50.0 g/l Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water

culture temp

  • @ref: 18077
  • growth: positive
  • type: growth
  • temperature: 37
  • range: mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no99
69480no99.994

Isolation, sampling and environmental information

isolation

  • @ref: 18077
  • sample type: desert sand
  • geographic location: western China
  • country: China
  • origin.country: CHN
  • continent: Asia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Desert
#Environmental#Terrestrial#Sandy
#Condition#Xerophilic

Safety information

risk assessment

  • @ref: 18077
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 18077
  • description: Corynebacterium deserti strain GIMN1.010 16S ribosomal RNA gene, partial sequence
  • accession: HQ612241
  • length: 1478
  • database: ena
  • NCBI tax ID: 931089

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Corynebacterium deserti GIMN1.010GCA_001277995completencbi931089
66792Corynebacterium deserti GIMN1.010931089.4completepatric931089
66792Corynebacterium deserti GIMN1.010931089.7plasmidpatric931089
66792Corynebacterium deserti GIMN1.010931089.6plasmidpatric931089
66792Corynebacterium deserti GIMN1.0102654588031completeimg931089

GC content

  • @ref: 18077
  • GC-content: 61.7
  • method: thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno99no
motileno93.81no
flagellatedno96.782no
gram-positiveyes92.059no
anaerobicno98.966no
halophileyes62.313no
spore-formingno93.227no
thermophileno97.887yes
glucose-utilyes88.474no
aerobicyes64.862no
glucose-fermentyes68.263no

External links

@ref: 18077

culture collection no.: DSM 45689, CCTCC AB 2010341, NRRL B-59552

straininfo link

  • @ref: 72755
  • straininfo: 402439

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny21571935Corynebacterium deserti sp. nov., isolated from desert sand.Zhou Z, Yuan M, Tang R, Chen M, Lin M, Zhang WInt J Syst Evol Microbiol10.1099/ijs.0.030429-02011Base Composition, China, Corynebacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Desert Climate, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Silicon Dioxide, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistryGenetics
Phylogeny27666312Corynebacterium crudilactis sp. nov., isolated from raw cow's milk.Zimmermann J, Ruckert C, Kalinowski J, Lipski AInt J Syst Evol Microbiol10.1099/ijsem.0.0015092016Animals, Bacterial Typing Techniques, Base Composition, Cattle, Corynebacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Germany, Milk/*microbiology, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/chemistryTranscriptome
Phylogeny28429167Corynebacterium defluvii sp. nov., isolated from Sewage.Yu QL, Yan ZF, He X, Tian FH, Jia CW, Li CTJ Microbiol10.1007/s12275-017-6592-32017Base Composition, China, *Corynebacterium/classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/analysis, Peptidoglycan/analysis, Phospholipids/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sewage/*microbiologyTranscriptome

Reference

@idauthorscataloguedoi/urltitle
18077Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45689)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45689
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)
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
72755Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID402439.1StrainInfo: A central database for resolving microbial strain identifiers