Strain identifier

BacDive ID: 8452

Type strain: Yes

Species: Mycobacterium paraffinicum

Strain history: NCIBM 10420 <-- ATCC 12670 <-- Magnolia Petroleum Co..

NCBI tax ID(s): 53378 (species)

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General

@ref: 11579

BacDive-ID: 8452

DSM-Number: 44181

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

description: Mycobacterium paraffinicum DSM 44181 is a mesophilic human pathogen that was isolated from soil.

NCBI tax id

  • NCBI tax id: 53378
  • Matching level: species

strain history

@refhistory
11579<- G. Haase <- ATCC <- Magnolia Petroleum Co.
67770NCIBM 10420 <-- ATCC 12670 <-- Magnolia Petroleum Co..

doi: 10.13145/bacdive8452.20230509.8.1

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 paraffinicum
  • full scientific name: Mycobacterium paraffinicum (ex Davis et al. 1956) Toney et al. 2010

@ref: 11579

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Mycobacteriaceae

genus: Mycobacterium

species: Mycobacterium paraffinicum

full scientific name: Mycobacterium paraffinicum (ex Davis et al. 1956) Toney et al. 2010

type strain: yes

Morphology

multimedia

  • @ref: 11579
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_44181.jpg
  • caption: Medium 645 37°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

  • @ref: 11579
  • name: MIDDLEBROOK MEDIUM (DSMZ Medium 645)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/645
  • composition: Name: MIDDLEBROOK MEDIUM (DSMZ Medium 645) Composition: Bacto Middlebrook 7H10 agar 20.9945 g/l Glycerol Distilled water

culture temp

@refgrowthtypetemperaturerange
11579positivegrowth37mesophilic
67770positivegrowth35mesophilic

Physiology and metabolism

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6837917632nitrate-reduction
683794853esculin-hydrolysis
6837916199urea-hydrolysis
683795291gelatin-hydrolysis
6837917634D-glucose-fermentation
6837916988D-ribose-fermentation
6837965327D-xylose-fermentation
6837916899D-mannitol-fermentation
6837917306maltose-fermentation
6837917716lactose-fermentation
6837917992sucrose-fermentation
6837928087glycogen-fermentation

enzymes

@refvalueactivityec
68379gelatinase-
68379urease-3.5.1.5
68379beta-glucosidase-3.2.1.21
68379N-acetyl-beta-glucosaminidase-3.2.1.52
68379alpha-glucosidase-3.2.1.20
68379beta-galactosidase-3.2.1.23
68379beta-glucuronidase-3.2.1.31
68379alkaline phosphatase-3.1.3.1
68379pyrrolidonyl arylamidase-3.4.19.3
68379pyrazinamidase-3.5.1.B15
68382alkaline phosphatase-3.1.3.1
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 coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELControlGLURIBXYLMANMALLACSACGLYG
11579--------------------

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
11579--+/-+----------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
11579soilLos Angeles/EastonUSAUSANorth America
67770SoilEaston, LAUSAUSANorth America

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_475.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_37;97_39;98_43;99_475&stattab=map
  • Last taxonomy: Mycobacterium
  • 16S sequence: GQ153270
  • Sequence Identity:
  • Total samples: 2232
  • soil counts: 1602
  • aquatic counts: 300
  • animal counts: 128
  • plant counts: 202

Safety information

risk assessment

  • @ref: 11579
  • pathogenicity human: yes, in single cases
  • pathogenicity animal: yes, in single cases
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218M.paraffinicum 16S rRNA geneX889251415ena53378
11579Mycobacterium paraffinicum strain ATCC 12670 16S ribosomal RNA gene, partial sequenceGQ1532701492ena53378

Genome sequences

  • @ref: 66792
  • description: Mycobacterium paraffinicum DSM 44181
  • accession: GCA_025822865
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 53378

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno94.197no
flagellatedno98.937no
gram-positiveyes89.456no
anaerobicno98.811no
aerobicyes87.062no
halophileno93.499no
spore-formingno87.449no
glucose-fermentno92.452yes
thermophileno97.52no
glucose-utilyes70.143no

External links

@ref: 11579

culture collection no.: DSM 44181, ATCC 12670, NCIMB 10420, JCM 17782

straininfo link

  • @ref: 77849
  • straininfo: 44432

literature

  • topic: Phylogeny
  • Pubmed-ID: 19915104
  • title: Revival and emended description of 'Mycobacterium paraffinicum' Davis, Chase and Raymond 1956 as Mycobacterium paraffinicum sp. nov., nom. rev.
  • authors: Toney N, Adekambi T, Toney S, Yakrus M, Butler WR
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.016972-0
  • year: 2009
  • mesh: Amidohydrolases/metabolism, Anti-Bacterial Agents/pharmacology, Bacterial Proteins/genetics, Bacterial Typing Techniques, Chaperonin 60/genetics, Chromatography, High Pressure Liquid, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, DNA-Directed RNA Polymerases/genetics, Molecular Sequence Data, Mycobacterium/chemistry/*classification/genetics/physiology, Mycolic Acids/analysis, Nicotinamidase/metabolism, Phylogeny, Pigments, Biological/biosynthesis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Temperature, Urease/metabolism
  • topic2: Metabolism

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
11579Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44181)https://www.dsmz.de/collection/catalogue/details/culture/DSM-44181
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
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/
68379Automatically annotated from API Coryne
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
77849Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID44432.1StrainInfo: A central database for resolving microbial strain identifiers