Strain identifier

BacDive ID: 158502

Type strain: Yes

Species: Mycobacterium basiliense

Strain Designation: 2013500264, 901379

Strain history: CIP <- 2017, F. Imkamp, Zurich Univ., Zurich, Switzerland: strain 901379 <- Basel Univ. Hosp., Basel, Switzerland

NCBI tax ID(s): 2094119 (species)

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General

@ref: 65178

BacDive-ID: 158502

DSM-Number: 104308

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

description: Mycobacterium basiliense 2013500264 is a mesophilic bacterium that was isolated from human bronchoalveolar lavage.

NCBI tax id

  • NCBI tax id: 2094119
  • Matching level: species

strain history

@refhistory
65178<- F. Imkamp; University of Zurich, Zurich, SWITZERLAND; Mycobacterium basiliskii<-A. Egli, University Hospital Basel, Clinical Microbiology; University Hospital Basel/Schweiz
116738CIP <- 2017, F. Imkamp, Zurich Univ., Zurich, Switzerland: strain 901379 <- Basel Univ. Hosp., Basel, Switzerland

doi: 10.13145/bacdive158502.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Mycobacteriales
  • family: Mycobacteriaceae
  • genus: Mycobacterium
  • species: Mycobacterium basiliense
  • full scientific name: Mycobacterium basiliense Seth-Smith et al. 2019

@ref: 65178

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Mycobacteriaceae

genus: Mycobacterium

species: Mycobacterium basiliense

full scientific name: Mycobacterium basiliense Seth-Smith et al. 2019

strain designation: 2013500264, 901379

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no97.403
69480100positive
116738positiverod-shaped

multimedia

  • @ref: 65178
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_104308.jpg
  • caption: Medium 645 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
65178MIDDLEBROOK MEDIUM (DSMZ Medium 645)yeshttps://mediadive.dsmz.de/medium/645Name: MIDDLEBROOK MEDIUM (DSMZ Medium 645) Composition: Bacto Middlebrook 7H10 agar 20.9945 g/l Glycerol Distilled water
116738CIP Medium 93yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=93

culture temp

  • @ref: 65178
  • growth: positive
  • type: growth
  • temperature: 28
  • range: mesophilic

Physiology and metabolism

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 99.946

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic locationisolation date
65178human bronchoalveolar lavageSwitzerlandCHEEurope
116738Human, Bronchoalveolar lavageSwitzerlandCHEEuropeBasel2013-09-01

isolation source categories

Cat1Cat2Cat3
#Host Body-Site#Oral cavity and airways#Lung
#Infection#Medical environment#Medical practice
#Host#Human

taxonmaps

  • @ref: 69479
  • File name: preview.99_691.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_37;97_39;98_43;99_691&stattab=map
  • Last taxonomy: Mycobacterium
  • 16S sequence: LR130759
  • Sequence Identity:
  • Total samples: 2597
  • soil counts: 1494
  • aquatic counts: 660
  • animal counts: 250
  • plant counts: 193

Safety information

risk assessment

  • @ref: 116738
  • biosafety level: 1
  • biosafety level comment: Risk group (French classification)

Sequence information

16S sequences

  • @ref: 65178
  • description: Mycobacterium sp. DSM 104308 isolate 901379 genome assembly, chromosome: I
  • accession: LR130759
  • length: 5607630
  • database: ena
  • NCBI tax ID: 2094119

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Mycobacterium basiliense 901379GCA_900292015completencbi2094119
66792Mycobacterium sp. DSM 104308 strain 9013792094119.3completepatric2094119
66792Mycobacterium basiliense 9013792875597469completeimg2094119

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno80no
flagellatedno98.641no
gram-positiveyes87.569no
anaerobicno98.471no
aerobicyes87.648no
halophileno83.018no
spore-formingno84.434no
thermophileno97.738no
glucose-utilyes67.467no
motileno95.42no
glucose-fermentno92.174no

External links

@ref: 65178

culture collection no.: DSM 104308, CCOS 1136, CIP 111488

straininfo link

  • @ref: 111297
  • straininfo: 401212

Reference

@idauthorstitledoi/urlcatalogue
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
65178Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-104308Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 104308)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
111297Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID401212.1
116738Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20111488Collection of Institut Pasteur (CIP 111488)