Strain identifier

BacDive ID: 3150

Type strain: No

Species: Corynebacterium urealyticum

Strain Designation: Garcia

Strain history: <- ATCC <- F. Soriano, 3 (Corynebacterium group D2). (Garcia strain)

NCBI tax ID(s): 1267754 (strain), 43771 (species)

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General

@ref: 2988

BacDive-ID: 3150

DSM-Number: 7111

keywords: genome sequence, Bacteria, mesophilic, human pathogen

description: Corynebacterium urealyticum Garcia is a mesophilic human pathogen that was isolated from urine.

NCBI tax id

NCBI tax idMatching level
1267754strain
43771species

strain history

  • @ref: 2988
  • history: <- ATCC <- F. Soriano, 3 (Corynebacterium group D2). (Garcia strain)

doi: 10.13145/bacdive3150.20230509.8.1

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 urealyticum
  • full scientific name: Corynebacterium urealyticum Pitcher et al. 1992

@ref: 2988

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Corynebacteriaceae

genus: Corynebacterium

species: Corynebacterium urealyticum

full scientific name: Corynebacterium urealyticum Pitcher et al. 1992 emend. Nouioui et al. 2018

strain designation: Garcia

type strain: no

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no92.676
69480100positive

multimedia

  • @ref: 2988
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_7111.jpg
  • caption: Medium 693 37°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

  • @ref: 2988
  • name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/693
  • composition: Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base

culture temp

  • @ref: 2988
  • growth: positive
  • type: growth
  • temperature: 37
  • range: mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no100
69480no99.989

murein

  • @ref: 2988
  • murein short key: A31
  • type: A1gamma m-Dpm-direct

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6837917632nitrate-reduction
683794853esculin-hydrolysis
6837916199urea+hydrolysis
683795291gelatin-hydrolysis
6837917634D-glucose-fermentation
6837916988D-ribose-fermentation
6837965327D-xylose-fermentation
6837916899D-mannitol-fermentation
6837917306maltose-fermentation
6837917716lactose-fermentation
6837917992sucrose-fermentation
6837928087glycogen-fermentation

enzymes

@refvalueactivityec
68379catalase+1.11.1.6
68379gelatinase-
68379urease+3.5.1.5
68379beta-glucosidase-3.2.1.21
68379N-acetyl-beta-glucosaminidase-3.2.1.52
68379alpha-glucosidase-3.2.1.20
68379beta-galactosidase-3.2.1.23
68379beta-glucuronidase-3.2.1.31
68379alkaline phosphatase-3.1.3.1
68379pyrrolidonyl arylamidase-3.4.19.3
68379pyrazinamidase+3.5.1.B15

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELControlGLURIBXYLMANMALLACSACGLYGCAT
2988-+-------+----------+

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
2988urine
46775Human urine,alkaline-encrusted cystitisSpainESPEurope

isolation source categories

  • Cat1: #Host Body Product
  • Cat2: #Fluids
  • Cat3: #Urine

Safety information

risk assessment

  • @ref: 2988
  • pathogenicity human: yes
  • pathogenicity animal: yes
  • biosafety level: 2
  • biosafety level comment: Risk group (German classification)

Sequence information

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Corynebacterium urealyticum DSM 7111GCA_000338095completencbi1267754
66792Corynebacterium urealyticum DSM 71111267754.3completepatric1267754
66792Corynebacterium urealyticum strain FDAARGOS_99643771.86completepatric43771
66792Corynebacterium urealyticum DSM 71112529292687completeimg1267754

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno95.377no
flagellatedno98.21no
gram-positiveyes94.054no
anaerobicno99.163no
aerobicno73.515no
halophileyes82.222no
spore-formingno90.712no
thermophileno92.021yes
glucose-utilyes85.044no
glucose-fermentno70.427yes

External links

@ref: 2988

culture collection no.: DSM 7111, ATCC 43044, CCUG 18159

straininfo link

  • @ref: 72666
  • straininfo: 41614

literature

topicPubmed-IDtitleauthorsjournalDOIyeartopic2mesh
Genetics23704183Complete Genome Sequence of Corynebacterium urealyticum Strain DSM 7111, Isolated from a 9-Year-Old Patient with Alkaline-Encrusted Cystitis.Guimaraes LC, Soares SC, Albersmeier A, Blom J, Jaenicke S, Azevedo V, Soriano F, Tauch A, Trost EGenome Announc10.1128/genomeA.00264-132013Phylogeny
Genetics26041051Genome informatics and vaccine targets in Corynebacterium urealyticum using two whole genomes, comparative genomics, and reverse vaccinology.Guimaraes L, Soares S, Trost E, Blom J, Ramos R, Silva A, Barh D, Azevedo VBMC Genomics10.1186/1471-2164-16-S5-S72015PathogenicityComparative Genomic Hybridization/*methods, Computational Biology/*methods, Corynebacterium/classification/*genetics/pathogenicity, Corynebacterium Infections/drug therapy/microbiology, Drug Resistance, Multiple, Bacterial/genetics, Genome, Bacterial/*genetics, Genomics/methods, Humans, Virulence Factors/*genetics

Reference

@idauthorscataloguedoi/urltitle
2988Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 7111)https://www.dsmz.de/collection/catalogue/details/culture/DSM-7111
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
46775Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 18159)https://www.ccug.se/strain?id=18159
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)
68379Automatically annotated from API Coryne
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
72666Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID41614.1StrainInfo: A central database for resolving microbial strain identifiers