Strain identifier

BacDive ID: 8513

Type strain: Yes

Species: Mycobacterium haemophilum

Strain Designation: 1, 141420001

Strain history: NCTC 11185 <-- D. Sompolinsky strain 1.

NCBI tax ID(s): 1202450 (strain), 29311 (species)

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General

@ref: 11943

BacDive-ID: 8513

DSM-Number: 44634

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

description: Mycobacterium haemophilum 1 is an aerobe, mesophilic human pathogen that was isolated from subcutaneous granuloma.

NCBI tax id

NCBI tax idMatching level
29311species
1202450strain

strain history

@refhistory
11943<- CIP <- V. Vincent, Inst. Pasteur, Paris; 141420001 <- ATCC <- D. Sompolinsky; 1
67770NCTC 11185 <-- D. Sompolinsky strain 1.

doi: 10.13145/bacdive8513.20230509.8.1

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 haemophilum
  • full scientific name: Mycobacterium haemophilum Sompolinsky et al. 1978 (Approved Lists 1980)

@ref: 11943

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Mycobacteriaceae

genus: Mycobacterium

species: Mycobacterium haemophilum

full scientific name: Mycobacterium haemophilum Sompolinsky et al. 1978 emend. Nouioui et al. 2018

strain designation: 1, 141420001

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no94.686
69480100positive

colony morphology

  • @ref: 57697
  • incubation period: 17 days

multimedia

  • @ref: 11943
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_44634.jpg
  • caption: Medium 645a 30°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

  • @ref: 11943
  • name: HEMIN MEDIUM FOR MYCOBACTERIUM (DSMZ Medium 645a)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/645a
  • composition: Name: HEMIN MEDIUM FOR MYCOBACTERIUM (DSMZ Medium 645a) Composition: Haemin OADC Enrichment Middlebrook 7H10 agar

culture temp

@refgrowthtypetemperaturerange
11943positivegrowth30mesophilic
57697positivegrowth30mesophilic
67770positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 57697
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no94
69480no99.86

Isolation, sampling and environmental information

isolation

@refsample type
11943subcutaneous granuloma
57697Subcutaneous granuloma
67770Subcutaneous granuloma

isolation source categories

Cat1Cat2Cat3
#Infection#Inflammation
#Host Body-Site#Organ#Skin, Nail, Hair

Safety information

risk assessment

  • @ref: 11943
  • pathogenicity human: yes
  • pathogenicity animal: yes
  • biosafety level: 2
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Mycobacterium haemophilum strain CIP 105049 16S ribosomal RNA gene, partial sequenceAF547932555ena1202450
20218Mycobacterium haemophilum partial 16S rRNA gene, strain DSM 44634HE8622321526ena1202450
20218Bacteroides eggerthii NCTC 11185 16S ribosomal RNA gene, complete sequenceL164851473ena28111

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Mycobacterium haemophilum DSM 44634 ATCC 29548GCA_000340435completencbi1202450
66792Mycobacterium haemophilum DSM 44634 = ATCC 295481202450.10completepatric1202450
66792Mycobacterium haemophilum DSM 44634 ATCC 295482645727719completeimg1202450
66792Mycobacterium haemophilum DSM 44634GCA_025823035scaffoldncbi1202450

GC content

@refGC-contentmethod
6777066thermal denaturation, midpoint method (Tm)
6777063.9genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno94no
motileno95.422no
motileno95.422no
flagellatedno99.149no
flagellatedno99.149no
gram-positiveyes88.562no
gram-positiveyes88.562no
anaerobicno97.521no
anaerobicno97.521no
aerobicyes86.503yes
aerobicyes86.503yes
halophileno88.561no
halophileno88.561no
spore-formingno88.575no
spore-formingno88.575no
thermophileno93.727yes
glucose-utilyes67.133no
glucose-utilyes67.133no
thermophileno93.727yes
glucose-fermentno92.2no
glucose-fermentno92.2no

External links

@ref: 11943

culture collection no.: DSM 44634, ATCC 29548, CCUG 47452, CIP 105049, TMC 804, JCM 15465, NCTC 11185

straininfo link

  • @ref: 77903
  • straininfo: 39585

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
11943Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44634)https://www.dsmz.de/collection/catalogue/details/culture/DSM-44634
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
57697Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 47452)https://www.ccug.se/strain?id=47452
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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
77903Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID39585.1StrainInfo: A central database for resolving microbial strain identifiers