Strain identifier

BacDive ID: 8461

Type strain: Yes

Species: Mycobacterium conspicuum

Strain Designation: 3895/92

Strain history: CIP <- 1997, DSMZ <- E.C. Böttger: strain 3895/92

NCBI tax ID(s): 44010 (species)

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General

@ref: 11516

BacDive-ID: 8461

DSM-Number: 44136

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

description: Mycobacterium conspicuum 3895/92 is a microaerophile, mesophilic bacterium that was isolated from patients with disseminated infection.

NCBI tax id

  • NCBI tax id: 44010
  • Matching level: species

strain history

@refhistory
11516<- E. C. Böttger, 3895/92 (E27; E100)
67770CIP 105165 <-- DSM 44136 <-- E. C. Böttger 3895/92.
118733CIP <- 1997, DSMZ <- E.C. Böttger: strain 3895/92

doi: 10.13145/bacdive8461.20230509.8.1

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 conspicuum
  • full scientific name: Mycobacterium conspicuum Springer et al. 1996

@ref: 11516

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Mycobacteriaceae

genus: Mycobacterium

species: Mycobacterium conspicuum

full scientific name: Mycobacterium conspicuum Springer et al. 1996 emend. Nouioui et al. 2018

strain designation: 3895/92

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no93.596
69480100positive
118733rod-shaped

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
11516LÖWENSTEIN-JENSEN MEDIUM (DSMZ Medium 354)yeshttps://mediadive.dsmz.de/medium/354Name: LÖWENSTEIN-JENSEN MEDIUM (DSMZ Medium 354) Composition: Potato flour 18.6104 g/l L-Asparagin 2.23325 g/l KH2PO4 1.55087 g/l Mg-citrate 0.372208 g/l Malachite green 0.248139 g/l MgSO4 0.148883 g/l Glycerol Fresh egg mixture Distilled water
11516MIDDLEBROOK 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
36350MEDIUM 55 - for Mycobacteriumyes
118733CIP Medium 55yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=55

culture temp

@refgrowthtypetemperaturerange
11516positivegrowth37mesophilic
36350positivegrowth30mesophilic
67770positivegrowth30mesophilic
118733positivegrowth22-30
118733nogrowth10psychrophilic
118733nogrowth15psychrophilic
118733nogrowth37mesophilic
118733nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 118733
  • oxygen tolerance: microaerophile

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 99.897

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
11873317632nitrate-reduction
11873316301nitrite-reduction

metabolite production

  • @ref: 118733
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
118733oxidase-
118733beta-galactosidase+3.2.1.23
118733gelatinase-
118733catalase+1.11.1.6
118733gamma-glutamyltransferase-2.3.2.2
118733urease-3.5.1.5

Isolation, sampling and environmental information

isolation

@refsample type
11516patients with disseminated infection
53710Human with disseminated infection
67770Blood of a patient with disseminated infection
118733Human, Disseminated infection

isolation source categories

Cat1Cat2
#Infection#Disease
#Infection#Patient

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
115162Risk group (German classification)
1187331Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218M.conspicuum 16S rRNA geneX889221433ena44010
20218Mycobacterium conspicuum strain CIP 105165 16S ribosomal RNA gene, partial sequenceAF547914554ena44010

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Mycobacterium conspicuum JCM 14738GCA_010730195completencbi44010
66792Mycobacterium conspicuum strain DSM 4413644010.3wgspatric44010
66792Mycobacterium conspicuum strain JCM 1473844010.9completepatric44010
66792Mycobacterium conspicuum DSM 441362865357517draftimg44010
67770Mycobacterium conspicuum DSM 44136GCA_002102095contigncbi44010
66792Mycobacterium conspicuum DSM 44136GCA_025821765scaffoldncbi44010

GC content

  • @ref: 67770
  • GC-content: 67.4
  • method: genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno88no
motileno95.387no
flagellatedno98.871no
gram-positiveyes90.726no
anaerobicno99.103no
aerobicyes88.458no
halophileno94.436no
spore-formingno85.688no
thermophileno97.509yes
glucose-utilyes66.166no
glucose-fermentno91.93no

External links

@ref: 11516

culture collection no.: DSM 44136, ATCC 700090, CIP 105165, CCUG 37516, JCM 14738

straininfo link

  • @ref: 77856
  • straininfo: 43767

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
11516Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44136)https://www.dsmz.de/collection/catalogue/details/culture/DSM-44136
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
36350Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/17154
53710Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 37516)https://www.ccug.se/strain?id=37516
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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)
77856Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID43767.1StrainInfo: A central database for resolving microbial strain identifiers
118733Curators of the CIPCollection of Institut Pasteur (CIP 105165)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105165