Strain identifier

BacDive ID: 8494

Type strain: Yes

Species: Mycobacterium fluoranthenivorans

Strain Designation: FA4

Strain history: CIP <- 2003, DSMZ

NCBI tax ID(s): 258505 (species)

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General

@ref: 11753

BacDive-ID: 8494

DSM-Number: 44556

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-positive

description: Mycobacterium fluoranthenivorans FA4 is a facultative anaerobe, mesophilic, Gram-positive bacterium that was isolated from PAH contaminated soil.

NCBI tax id

  • NCBI tax id: 258505
  • Matching level: species

strain history

@refhistory
11753<- G. W. Kohring, Univ. Saarland; FA-4
363902003, DSMZ
67770CIP 108203 <-- DSM 44556 <-- G. W. Kohring FA-4.
119407CIP <- 2003, DSMZ

doi: 10.13145/bacdive8494.20230509.8.1

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 fluoranthenivorans
  • full scientific name: Mycobacterium fluoranthenivorans Hormisch et al. 2006

  • synonyms

    • @ref: 20215
    • synonym: Mycolicibacterium fluoranthenivorans

@ref: 11753

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Mycobacteriaceae

genus: Mycobacterium

species: Mycobacterium fluoranthenivorans

full scientific name: Mycobacterium fluoranthenivorans Hormisch et al. 2006

strain designation: FA4

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480positive100
119407rod-shapedno

multimedia

@refmultimedia contentintellectual property rightscaption
11753https://www.dsmz.de/microorganisms/photos/DSM_44556-1.jpg© Leibniz-Institut DSMZ
11753https://www.dsmz.de/microorganisms/photos/DSM_44556.jpg© Leibniz-Institut DSMZMedium 645 37°C

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
11753MIDDLEBROOK 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
36390MEDIUM 55 - for Mycobacteriumyes
119407CIP Medium 55yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=55

culture temp

@refgrowthtypetemperaturerange
11753positivegrowth37mesophilic
36390positivegrowth30mesophilic
67770positivegrowth30mesophilic
119407positivegrowth22-30
119407nogrowth10psychrophilic
119407nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 119407
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore formationconfidence
69481no90
69480no98.807

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
119407606565hippurate-hydrolysis
11940717632nitrate-reduction
11940716301nitrite-reduction
11940717632nitrate+respiration

metabolite production

  • @ref: 119407
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
119407oxidase-
119407beta-galactosidase-3.2.1.23
119407catalase+1.11.1.6
119407gamma-glutamyltransferase-2.3.2.2
119407urease+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
119407--++-+--+-++---++---

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
119407++------------------++---------+++---------------+++--------+---+-------+------++---+---+-------+--

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
11753PAH contaminated soilBurbachGermanyDEUEurope
67770Polycyclic aromatic hydrocarbon (PAH)-contaminated soil from a former coal gas plantSaarbruecken-BurbachGermanyDEUEurope
119407Environment, Polluted soilSaarbrücken BurbachGermanyDEUEurope

isolation source categories

Cat1Cat2Cat3
#Engineered#Contamination
#Environmental#Terrestrial#Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_62706.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_115;97_219;98_248;99_62706&stattab=map
  • Last taxonomy: Mycolicibacterium
  • 16S sequence: AJ617741
  • Sequence Identity:
  • Total samples: 2529
  • soil counts: 931
  • aquatic counts: 659
  • animal counts: 305
  • plant counts: 634

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
117531Risk group (German classification)
1194071Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Mycobacterium fluoranthenivorans strain DSM 44556 16S ribosomal RNA gene, partial sequenceDQ350149485ena258505
20218Mycobacterium fluoranthenivorans 16S rRNA gene, type strain FA-4AJ6177411494ena258505

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Mycolicibacterium flavescens JCM 14741GCA_001313385contigncbi1303678
66792Mycolicibacterium flavescens JCM 147411303678.5wgspatric1303678
66792Mycolicibacterium fluoranthenivorans strain DSM 44556258505.4wgspatric258505
66792Mycolicibacterium fluoranthenivorans JCM 147412734481944draftimg1303678
66792Mycolicibacterium fluoranthenivorans DSM 445562821251827draftimg258505
67770Mycolicibacterium fluoranthenivorans DSM 44556GCA_011758805contigncbi258505
66792Mycolicibacterium fluoranthenivorans DSM 44556GCA_025823075scaffoldncbi258505

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno90no
motileno91.361no
gram-positiveyes83.27no
anaerobicno98.844no
halophileno97.057no
spore-formingno92.272no
thermophileno99.779yes
glucose-utilyes83.947no
aerobicyes91.493no
flagellatedno97.746no
glucose-fermentno91.727no

External links

@ref: 11753

culture collection no.: DSM 44556, CIP 108203, JCM 14741

straininfo link

  • @ref: 77888
  • straininfo: 215502

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny15612622Mycobacterium fluoranthenivorans sp. nov., a fluoranthene and aflatoxin B1 degrading bacterium from contaminated soil of a former coal gas plant.Hormisch D, Brost I, Kohring GW, Giffhorn F, Kroppenstedt RM, Stackebrandt E, Farber P, Holzapfel WHSyst Appl Microbiol10.1078/07232020423698662004Aflatoxin B1/*metabolism, Bacterial Typing Techniques, Biodegradation, Environmental, Cell Wall/chemistry, DNA, Bacterial/chemistry/isolation & purification, DNA, Ribosomal/chemistry/isolation & purification, Fatty Acids/analysis/isolation & purification, Fluorenes/*metabolism, Genes, rRNA, Molecular Sequence Data, Mycobacterium/*classification/*isolation & purification/metabolism, Mycolic Acids/analysis/isolation & purification, Phylogeny, *Polycyclic Aromatic Hydrocarbons, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, *Soil PollutantsEnzymology
Metabolism16061299Degradation of aflatoxin B(1) by cell-free extracts of Rhodococcus erythropolis and Mycobacterium fluoranthenivorans sp. nov. DSM44556(T).Teniola OD, Addo PA, Brost IM, Farber P, Jany KD, Alberts JF, van Zyl WH, Steyn PS, Holzapfel WHInt J Food Microbiol10.1016/j.ijfoodmicro.2005.05.0042005Aflatoxin B1/antagonists & inhibitors/*metabolism, *Biodegradation, Environmental, Mycobacterium/metabolism/*physiology, Nocardia/metabolism/physiology, Rhodococcus/metabolism/*physiology, Temperature, Time FactorsPhylogeny

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
11753Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44556)https://www.dsmz.de/collection/catalogue/details/culture/DSM-44556
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
36390Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5800
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
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
77888Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID215502.1StrainInfo: A central database for resolving microbial strain identifiers
119407Curators of the CIPCollection of Institut Pasteur (CIP 108203)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108203