Strain identifier

BacDive ID: 8226

Type strain: Yes

Species: Mycobacterium diernhoferi

Strain Designation: 14 117 0001

Strain history: CIP <- 1998, V. Vincent, Inst. Pasteur, Paris, France: strain 14 117 0001 <- ATCC <- R. Bonicke: strain SN 1418 <- K. Diernhofer

NCBI tax ID(s): 1801 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 11112

BacDive-ID: 8226

DSM-Number: 43524

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

description: Mycobacterium diernhoferi 14 117 0001 is an obligate aerobe, mesophilic bacterium that was isolated from drinking trough for cows.

NCBI tax id

  • NCBI tax id: 1801
  • Matching level: species

strain history

@refhistory
11112<- I. Tarnok, SN 1418 <- K. Diernhofer <- M. Tsukamura, 41001
67770M. Tsukamura 41001 <-- ATCC 19340 <-- R. Bonicke SN 1418 <-- K. Diernhofer.
118931CIP <- 1998, V. Vincent, Inst. Pasteur, Paris, France: strain 14 117 0001 <- ATCC <- R. Bonicke: strain SN 1418 <- K. Diernhofer

doi: 10.13145/bacdive8226.20230509.8.1

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 diernhoferi
  • full scientific name: Mycobacterium diernhoferi (ex Bönicke and Juhasz 1965) Tsukamura et al. 1983

  • synonyms

    • @ref: 20215
    • synonym: Mycolicibacterium diernhoferi

@ref: 11112

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Mycobacteriaceae

genus: Mycobacterium

species: Mycobacterium diernhoferi

full scientific name: Mycobacterium diernhoferi (ex Bönicke and Juhasz 1965) Tsukamura et al. 1983

strain designation: 14 117 0001

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no92.433
69480100positive
118931norod-shaped

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
11112LÖWENSTEIN-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
36369MEDIUM 55 - for Mycobacteriumyes
118931CIP Medium 55yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=55

culture temp

@refgrowthtypetemperaturerange
11112positivegrowth37mesophilic
36369positivegrowth37mesophilic
67770positivegrowth37mesophilic
118931positivegrowth22-37
118931nogrowth10psychrophilic
118931nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 118931
  • oxygen tolerance: obligate aerobe

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 99.952

observation

  • @ref: 67770
  • observation: quinones: MK-9(H2)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836925115malate-assimilation
6836927689decanoate-assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine-assimilation
6836916024D-mannose-assimilation
683695291gelatin-hydrolysis
6836916199urea+hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate+reduction
118931606565hippurate-hydrolysis
11893117632nitrate+reduction
11893116301nitrite-reduction
11893117632nitrate-respiration

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
11893135581indoleno

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
68369gelatinase-
68369urease+3.5.1.5
68369arginine dihydrolase-3.5.3.6
118931oxidase-
118931beta-galactosidase-3.2.1.23
118931gelatinase+/-
118931amylase-
118931DNase-
118931caseinase-3.4.21.50
118931catalase+1.11.1.6
118931tween esterase-
118931gamma-glutamyltransferase-2.3.2.2
118931lecithinase+
118931lipase-
118931urease+3.5.1.5
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
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
11112--+/-+-+----+---------
11112--+/-+-+----+---------
118931--++-+----++--------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPAC
11112+---++/---+/-+/--+/---+/--+/--+/--
11112+---++--+/-+/--+--+---+/--

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
118931++--+---------------++-----------+--------------------------+-----------+--+--+-----+---+--+----+--

Isolation, sampling and environmental information

isolation

@refsample type
11112drinking trough for cows
67770Drinking trough for cows
118931Drinking trough for cows

isolation source categories

  • Cat1: #Host
  • Cat2: #Mammals
  • Cat3: #Bovinae (Cow, Cattle)

taxonmaps

  • @ref: 69479
  • File name: preview.99_647.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_115;97_219;98_248;99_647&stattab=map
  • Last taxonomy: Mycolicibacterium
  • 16S sequence: AF480599
  • Sequence Identity:
  • Total samples: 70
  • soil counts: 22
  • aquatic counts: 26
  • animal counts: 16
  • plant counts: 6

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
111121Risk group (German classification)
1189311Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Mycobacterium diernhoferi 16S ribosomal RNA gene, partial sequenceAF4805991458ena1801
20218M.diernhoferi 16S ribosomal RNA, partX555931458ena1801
20218Mycobacterium diernhoferi strain CIP 105384 16S ribosomal RNA gene, partial sequenceAF547916540ena1801

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Mycolicibacterium diernhoferi ATCC 19340GCA_019456655completencbi1801
66792Mycolicibacterium diernhoferi strain ATCC 193401801.9completepatric1801
66792Mycolicibacterium diernhoferi DSM 43524GCA_025822385contigncbi1801

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno89no
flagellatedno98.291no
gram-positiveyes89.868no
anaerobicno99.346no
aerobicyes89.382no
halophileno88.374no
spore-formingno82.897no
motileno92.908no
thermophileno99.35no
glucose-utilyes88.868no
glucose-fermentno89.503yes

External links

@ref: 11112

culture collection no.: DSM 43524, ATCC 19340, JCM 6371, SN 1418, BCRC 16395, CGMCC 4.1179, CIP 105384, HAMBI 2269, IFO 14756, KCTC 9506, NBRC 14756, ATCC 41001

straininfo link

  • @ref: 77629
  • straininfo: 92857

literature

topicPubmed-IDtitleauthorsjournalDOIyearmesh
Pathogenicity6520602Mechanism of mycobacteriocin and Tween 80 mediated antimycobacterial activity.Tomioka H, Saito HJ Gen Microbiol10.1099/00221287-130-12-30851984Bacteriocins/genetics/*pharmacology, Drug Resistance, Microbial, Mutation, Mycobacterium/*drug effects/genetics, Oleic Acid, Oleic Acids/pharmacology, Polysorbates/*pharmacology
Metabolism7419493Characterization of binding sites for a bacteriocin produced by Mycobacterium smegmatis.Watanabe T, Saito HJ Bacteriol10.1128/jb.144.1.428-431.19801980Amino Sugars/pharmacology, Bacteriocins/*metabolism, Binding Sites, Carbohydrates/pharmacology, Cell Membrane/metabolism, Cell Wall/metabolism, Glucose/pharmacology, Mycobacterium/*metabolism, Structure-Activity Relationship

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
11112Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 43524)https://www.dsmz.de/collection/catalogue/details/culture/DSM-43524
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
36369Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/17397
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/
68369Automatically annotated from API 20NE
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)
77629Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID92857.1StrainInfo: A central database for resolving microbial strain identifiers
118931Curators of the CIPCollection of Institut Pasteur (CIP 105384)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105384