Strain identifier

BacDive ID: 8517

Type strain: Yes

Species: Mycobacterium madagascariense

Strain Designation: 144040001, P2, 14 404 0001

Strain history: CIP <- 1995, V. Vincent, Inst. Pasteur, Paris, France: strain 14 404 0001 <- 1995, Borstel, Germany: strain P2

NCBI tax ID(s): 212765 (species)

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General

@ref: 15466

BacDive-ID: 8517

DSM-Number: 45167

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

description: Mycobacterium madagascariense 144040001 is an obligate aerobe, mesophilic bacterium that was isolated from sphagnum moss .

NCBI tax id

  • NCBI tax id: 212765
  • Matching level: species

strain history

@refhistory
15466<- JCM/RIKEN <- CIP <- V. Vincent; 144040001 <- J. Kazda; P2
67770CIP 104538 <-- V. Vincent 14 404 0001 <-- J. Kazda P2.
120744CIP <- 1995, V. Vincent, Inst. Pasteur, Paris, France: strain 14 404 0001 <- 1995, Borstel, Germany: strain P2

doi: 10.13145/bacdive8517.20230509.8.1

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 madagascariense
  • full scientific name: Mycobacterium madagascariense Kazda et al. 1992

  • synonyms

    • @ref: 20215
    • synonym: Mycolicibacterium madagascariense

@ref: 15466

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Mycobacteriaceae

genus: Mycobacterium

species: Mycobacterium madagascariense

full scientific name: Mycobacterium madagascariense Kazda et al. 1992

strain designation: 144040001, P2, 14 404 0001

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no92.517
69480100positive
120744nooval-shaped

multimedia

@refmultimedia contentintellectual property rightscaption
15466https://www.dsmz.de/microorganisms/photos/DSM_45167-1.jpg© Leibniz-Institut DSMZ
15466https://www.dsmz.de/microorganisms/photos/DSM_45167.jpg© Leibniz-Institut DSMZMedium 645 28°C

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
15466MIDDLEBROOK 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
36323MEDIUM 55 - for Mycobacteriumyes
120744CIP Medium 55yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=55

culture temp

@refgrowthtypetemperaturerange
15466positivegrowth28mesophilic
36323positivegrowth30mesophilic
67770positivegrowth30mesophilic
120744positivegrowth30mesophilic
120744nogrowth15psychrophilic
120744nogrowth37mesophilic
120744nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 120744
  • oxygen tolerance: obligate aerobe

spore formation

@refspore formationconfidence
69481no99
69480no99.945

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1207444853esculin-hydrolysis
12074417632nitrate-respiration

metabolite production

  • @ref: 120744
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
120744oxidase-
120744beta-galactosidase-3.2.1.23
120744alcohol dehydrogenase-1.1.1.1
120744catalase+1.11.1.6
120744lysine decarboxylase-4.1.1.18
120744ornithine decarboxylase-4.1.1.17
120744urease+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
120744--++++++--++---+----

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
120744+++----------------+---+--+++-+--+---+-++--------+------+---+---+--------+-+---++-----+---------+--

Isolation, sampling and environmental information

isolation

@refsample typehost speciescountryorigin.countrycontinent
15466sphagnum moss ( x Sphagnum obtusiusculum)Sphagnum obtusiusculumMadagascarMDGAfrica
67770Sphagnum (Sphagnum obtusiusculum)Sphagnum obtusiusculumMadagascarMDGAfrica
120744Sphagnum biotopeMadagascarMDGAfrica

isolation source categories

  • Cat1: #Host
  • Cat2: #Plants
  • Cat3: #Peat moss

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
154661Risk group (German classification)
1207441Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Mycobacterium madagascariense strain CIP 104538 16S ribosomal RNA gene, partial sequenceAF547943541ena212765
20218Mycobacterium madagascariense gene for 16S ribosomal RNA, partial sequenceAB5371701470ena212765

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Mycolicibacterium madagascariense JCM 13574GCA_010729665completencbi212765
66792Mycolicibacterium madagascariense strain JCM 13574212765.7wgspatric212765
66792Mycolicibacterium madagascariense DSM 45167GCA_025822085scaffoldncbi212765

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno99no
motileno93.424no
flagellatedno98.623no
gram-positiveyes90.306no
anaerobicno99.404no
aerobicyes88.759no
halophileno90.493no
spore-formingno89.359no
thermophileno99.359yes
glucose-utilyes85.773no
glucose-fermentno90.344no

External links

@ref: 15466

culture collection no.: DSM 45167, ATCC 49865, CIP 104538, DSM 44834, JCM 13574

straininfo link

  • @ref: 77907
  • straininfo: 42724

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
15466Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45167)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45167
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
36323Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/16458
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
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
77907Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID42724.1StrainInfo: A central database for resolving microbial strain identifiers
120744Curators of the CIPCollection of Institut Pasteur (CIP 104538)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104538