Strain identifier

BacDive ID: 10545

Type strain: No

Species: Gordonia bronchialis

Strain Designation: 50006, Gdf N885

Strain history: CIP <- 1995, DSM <- IMET <- M. Tsukamura: strain 50006

NCBI tax ID(s): 2054 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 9.1 (current version):
version 9:
version 8.1:
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 9.1 (current version)

General

@ref: 12400

BacDive-ID: 10545

DSM-Number: 46035

keywords: genome sequence, Bacteria, obligate aerobe

description: Gordonia bronchialis 50006 is an obligate aerobe bacterium that was isolated from human sputum.

NCBI tax id

  • NCBI tax id: 2054
  • Matching level: species

strain history

@refhistory
12400<- IMET <- M. Tsukamura, 50006
117051CIP <- 1995, DSM <- IMET <- M. Tsukamura: strain 50006

doi: 10.13145/bacdive10545.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Mycobacteriales
  • family: Gordoniaceae
  • genus: Gordonia
  • species: Gordonia bronchialis
  • full scientific name: Gordonia bronchialis corrig. (Tsukamura 1971) Stackebrandt et al. 1989

  • synonyms

    @refsynonym
    20215Gordona bronchialis
    20215Rhodococcus bronchialis

@ref: 12400

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Gordoniaceae

genus: Gordonia

species: Gordonia bronchialis

full scientific name: Gordonia bronchialis (Tsukamura 1971) Stackebrandt et al. 1989 emend. Nouioui et al. 2018

strain designation: 50006, Gdf N885

type strain: no

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
117051positiverod-shapedno
69480no91.5
69480positive91.718

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
12400ORGANIC MEDIUM 79 (DSMZ Medium 426)yeshttps://mediadive.dsmz.de/medium/426Name: ORGANIC MEDIUM 79 (DSMZ Medium 426) Composition: Agar 15.0 g/l Peptone 10.0 g/l Dextrose 10.0 g/l NaCl 6.0 g/l Yeast extract 2.0 g/l Casein peptone 2.0 g/l Distilled water
39074MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
117051CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperature
12400positivegrowth28
39074positivegrowth30
117051positivegrowth30-41
117051nogrowth10
117051nogrowth45

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
117051obligate aerobe
69480aerobe91.321

halophily

@refsaltgrowthtested relationconcentration
117051NaClpositivegrowth0-6 %
117051NaClnogrowth8 %
117051NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
11705116947citrate-carbon source
11705117632nitrate+reduction
11705116301nitrite-reduction
117051132112sodium thiosulfate+builds gas from

metabolite production

  • @ref: 117051
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11705115688acetoin-
11705117234glucose-

enzymes

@refvalueactivityec
117051oxidase-
117051beta-galactosidase-3.2.1.23
117051alcohol dehydrogenase-1.1.1.1
117051gelatinase-
117051amylase-
117051DNase-
117051caseinase-3.4.21.50
117051catalase+1.11.1.6
117051lecithinase-
117051lipase-
117051lysine decarboxylase-4.1.1.18
117051ornithine decarboxylase-4.1.1.17
117051tryptophan deaminase-
117051urease+3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)+
68382leucine arylamidase+3.4.11.1
68382valine arylamidase-
68382cystine arylamidase+3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
117051-+++++-+--++---+----

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
117051++-++---------------------------+----------------+---+-------------+-------+---++-------+-+-----+--

Isolation, sampling and environmental information

isolation

@refsample typeisolation date
12400human sputum
117051Human, Sputum1979

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body Product#Fluids#Sputum

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
124002Risk group (German classification)
1170511Risk group (French classification)

Sequence information

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Gordonia bronchialis strain FDAARGOS_14762054.8completepatric2054
66792Gordonia bronchialis strain FDAARGOS_14762054.14completepatric2054
66792Gordonia bronchialis strain FDAARGOS_14762054.16completepatric2054
66792Gordonia bronchialis strain FDAARGOS_14762054.13completepatric2054

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesno68no
69480gram-positivegram-positivePositive reaction to Gram-stainingyes91.718no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no98.803yes
69480spore-formingspore-formingAbility to form endo- or exosporesno61.335no
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes91.321no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno95.5yes
69480flagellatedmotile2+Ability to perform flagellated movementno91.5no

External links

@ref: 12400

culture collection no.: DSM 46035, CIP 104658, IMET 7420, Tsukamura 50006, Tsukamura E3413

straininfo link

  • @ref: 79821
  • straininfo: 50709

Reference

@idauthorscataloguedoi/urltitle
12400Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 46035)https://www.dsmz.de/collection/catalogue/details/culture/DSM-46035
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
39074Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/16591
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)
68382Automatically annotated from API zym
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
79821Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID50709.1StrainInfo: A central database for resolving microbial strain identifiers
117051Curators of the CIPCollection of Institut Pasteur (CIP 104658)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104658