Strain identifier

BacDive ID: 8426

Type strain: Yes

Species: Mycobacterium intermedium

Strain Designation: 1669/91

Strain history: CIP <- 1995, DSMZ <- K.H. Schröder: strain 1669/91

NCBI tax ID(s): 28445 (species)

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General

@ref: 11463

BacDive-ID: 8426

DSM-Number: 44049

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, rod-shaped

description: Mycobacterium intermedium 1669/91 is an obligate aerobe, mesophilic, rod-shaped bacterium that was isolated from sputum of a patient with pulmonary disease.

NCBI tax id

  • NCBI tax id: 28445
  • Matching level: species

strain history

@refhistory
11463<- K.-H. Schröder, Wulff 1669/91
67770CIP 104542 <-- DSM 44049 <-- K.-H. Schröder 1669/91.
120149CIP <- 1995, DSMZ <- K.H. Schröder: strain 1669/91

doi: 10.13145/bacdive8426.20230509.8.1

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 intermedium
  • full scientific name: Mycobacterium intermedium Meier et al. 1993

@ref: 11463

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Mycobacteriaceae

genus: Mycobacterium

species: Mycobacterium intermedium

full scientific name: Mycobacterium intermedium Meier et al. 1993 emend. Nouioui et al. 2018

strain designation: 1669/91

type strain: yes

Morphology

cell morphology

  • @ref: 120149
  • cell shape: rod-shaped
  • motility: no

multimedia

  • @ref: 11463
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_44049.jpg
  • caption: Medium 645 37°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
11463MIDDLEBROOK 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
11463LÖWENSTEIN-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
42285MEDIUM 55 - for Mycobacteriumyes
120149CIP Medium 55yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=55

culture temp

@refgrowthtypetemperaturerange
11463positivegrowth37mesophilic
42285positivegrowth37mesophilic
67770positivegrowth37mesophilic
120149positivegrowth37-45
120149nogrowth10psychrophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 120149
  • oxygen tolerance: obligate aerobe

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12014916947citrate-carbon source
1201494853esculin-hydrolysis
12014917632nitrate-reduction
12014916301nitrite-reduction
12014917632nitrate-respiration

metabolite production

  • @ref: 120149
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 120149
  • Chebi-ID: 15688
  • metabolite: acetoin
  • voges-proskauer-test: -

enzymes

@refvalueactivityec
120149oxidase-
120149beta-galactosidase+3.2.1.23
120149alcohol dehydrogenase-1.1.1.1
120149gelatinase-
120149amylase-
120149DNase-
120149caseinase-3.4.21.50
120149catalase+1.11.1.6
120149tween esterase+
120149lecithinase-
120149lysine decarboxylase-4.1.1.18
120149ornithine decarboxylase-4.1.1.17
120149urease-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
120149-+++++++--+-----+---

Isolation, sampling and environmental information

isolation

@refsample type
11463sputum of a patient with pulmonary disease
53748Human sputum
67770Sputum from a patient with pulmonary disease
120149Human, Sputum

isolation source categories

Cat1Cat2Cat3
#Infection#Inflammation
#Infection#Patient
#Host Body-Site#Oral cavity and airways#Airways
#Host Body Product#Fluids#Sputum

taxonmaps

  • @ref: 69479
  • File name: preview.99_3424.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_115;97_122;98_137;99_3424&stattab=map
  • Last taxonomy: Mycobacterium intermedium
  • 16S sequence: X67847
  • Sequence Identity:
  • Total samples: 3266
  • soil counts: 988
  • aquatic counts: 1793
  • animal counts: 242
  • plant counts: 243

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
114632Risk group (German classification)
1201491Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218M.intermedium DNA for 16S rRNAX678471441ena28445
20218Mycobacterium intermedium strain CIP 104542 16S ribosomal RNA gene, partial sequenceAF547938543ena28445
20218Mycobacterium intermedium strain DSM 44049 16S-23S ribosomal RNA intergenic spacer, partial sequenceHM022204277ena28445

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Mycobacterium intermedium strain DSM 4404928445.6wgspatric28445
67770Mycobacterium intermedium DSM 44049GCA_002086275contigncbi28445
66792Mycobacterium intermedium DSM 44049GCA_025822065scaffoldncbi28445

GC content

  • @ref: 67770
  • GC-content: 65.8
  • method: genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno95.64no
gram-positiveyes91.802no
anaerobicno98.93no
halophileno93.258no
spore-formingno76.477no
glucose-utilyes58.814no
aerobicyes91.072no
thermophileno98.336yes
flagellatedno98.923no
glucose-fermentno93.012no

External links

@ref: 11463

culture collection no.: DSM 44049, ATCC 51848, CIP 104542, CCUG 37583, JCM 13572

straininfo link

  • @ref: 77825
  • straininfo: 43212

literature

  • topic: Phylogeny
  • Pubmed-ID: 8494735
  • title: Mycobacterium intermedium sp. nov.
  • authors: Meier A, Kirschner P, Schroder KH, Wolters J, Kroppenstedt RM, Bottger EC
  • journal: Int J Syst Bacteriol
  • DOI: 10.1099/00207713-43-2-204
  • year: 1993
  • mesh: Bacterial Typing Techniques, Base Sequence, Fatty Acids/analysis, Humans, Lung Diseases/microbiology, Molecular Sequence Data, Mycobacterium/*classification/*isolation & purification, Mycolic Acids/analysis, Phylogeny, Polymerase Chain Reaction, RNA, Ribosomal/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, RNA, Sputum/microbiology
  • topic2: Pathogenicity

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
11463Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44049)https://www.dsmz.de/collection/catalogue/details/culture/DSM-44049
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
42285Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/16462
53748Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 37583)https://www.ccug.se/strain?id=37583
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68382Automatically annotated from API zym
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
77825Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID43212.1StrainInfo: A central database for resolving microbial strain identifiers
120149Curators of the CIPCollection of Institut Pasteur (CIP 104542)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104542