Strain identifier

BacDive ID: 8347

Type strain: Yes

Species: Mycobacterium iranicum

Strain Designation: M05

Strain history: H. Shojaei M05.

NCBI tax ID(s): 912594 (species)

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General

@ref: 17617

BacDive-ID: 8347

DSM-Number: 45541

keywords: genome sequence, 16S sequence, Bacteria, microaerophile, mesophilic, Gram-positive, ovoid-shaped, human pathogen

description: Mycobacterium iranicum M05 is a microaerophile, mesophilic, Gram-positive human pathogen that was isolated from bronchoalveolar lavage of a 60-year-old, HIV-negative, female patient suffering from chronic pulmonary disease.

NCBI tax id

  • NCBI tax id: 912594
  • Matching level: species

strain history

@refhistory
17617<- H. Shojaei, Isfahan Univ. of Medical Sciences, Iran; M05 <- P. Heidarieh
67770H. Shojaei M05.

doi: 10.13145/bacdive8347.20230509.8.1

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 iranicum
  • full scientific name: Mycobacterium iranicum Shojaei et al. 2013

  • synonyms

    • @ref: 20215
    • synonym: Mycolicibacterium iranicum

@ref: 17617

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Mycobacteriaceae

genus: Mycobacterium

species: Mycobacterium iranicum

full scientific name: Mycobacterium iranicum Shojaei et al. 2013 emend. Nouioui et al. 2018

strain designation: M05

type strain: yes

Morphology

cell morphology

  • @ref: 30747
  • gram stain: positive
  • cell shape: ovoid-shaped
  • motility: no

colony morphology

  • @ref: 62781
  • incubation period: 3 days

pigmentation

  • @ref: 30747
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 17617
  • 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
17617positivegrowth37mesophilic
30747positivegrowth25-40
30747positiveoptimum37mesophilic
62781positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 62781
  • oxygen tolerance: microaerophile

spore formation

  • @ref: 30747
  • spore formation: no

halophily

  • @ref: 30747
  • salt: NaCl
  • growth: positive
  • tested relation: optimum
  • concentration: 5 %

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
30747arylsulfatase+3.1.6.1
30747catalase+1.11.1.6
30747urease+3.5.1.5
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
68379pyrazinamidase-3.5.1.B15
68382alkaline phosphatase-3.1.3.1
68382esterase (C 4)-
68382esterase lipase (C 8)+
68382lipase (C 14)-
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
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
17617--+/-+/---+-------------

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
17617---+-+/----------+/-----

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
17617bronchoalveolar lavage of a 60-year-old, HIV-negative, female patient suffering from chronic pulmonary diseaseIsfahanIranIRNAsia
62781Clinical sampleIranIRNAsia
67770Bronchoalveolar lavage of a patient suffering from chronic pulmonary diseaseIranIRNAsia

isolation source categories

Cat1Cat2Cat3
#Infection#Patient
#Host#Human#Female
#Host Body-Site#Oral cavity and airways
#Host Body Product#Oral cavity and Airways#Bronchial wash

Safety information

risk assessment

  • @ref: 17617
  • pathogenicity human: yes, in single cases
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 17617
  • description: Mycobacterium iranicum strain M05 16S ribosomal RNA gene, partial sequence
  • accession: HQ009482
  • length: 1450
  • database: ena
  • NCBI tax ID: 912594

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Mycobacterium iranicum strain DSM 45541912594.4wgspatric912594
67770Mycolicibacterium iranicum DSM 45541GCA_002101705contigncbi912594

GC content

  • @ref: 67770
  • GC-content: 66.1
  • method: genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno90.736no
flagellatedno97.532yes
gram-positiveyes88.89yes
anaerobicno99.004no
halophileno92.608no
spore-formingno86.012yes
thermophileno99.63no
glucose-utilyes84.068no
aerobicyes85.541yes
glucose-fermentno91.642yes

External links

@ref: 17617

culture collection no.: DSM 45541, CCUG 62053, JCM 17461

straininfo link

  • @ref: 77749
  • straininfo: 396766

literature

  • topic: Phylogeny
  • Pubmed-ID: 22843713
  • title: Mycobacterium iranicum sp. nov., a rapidly growing scotochromogenic species isolated from clinical specimens on three different continents.
  • authors: Shojaei H, Daley C, Gitti Z, Hashemi A, Heidarieh P, Moore ERB, Naser AD, Russo C, van Ingen J, Tortoli E
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.043562-0
  • year: 2012
  • mesh: Adolescent, Adult, Aged, Aged, 80 and over, Bacterial Typing Techniques, Cerebrospinal Fluid/microbiology, DNA, Bacterial/genetics, DNA, Ribosomal Spacer/genetics, DNA-Directed RNA Polymerases/genetics, Fatty Acids/analysis, Female, Greece, Heat-Shock Proteins/genetics, Humans, Iran, Italy, Male, Microbial Sensitivity Tests, Middle Aged, Molecular Sequence Data, Mycobacterium/*classification/genetics/*isolation & purification, Mycobacterium Infections/microbiology, Mycolic Acids/analysis, Netherlands, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sputum/microbiology, Sweden, United States, Wounds and Injuries/microbiology, Young Adult
  • topic2: Pathogenicity

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
17617Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45541)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45541
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
30747Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2707828776041
62781Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 62053)https://www.ccug.se/strain?id=62053
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
77749Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID396766.1StrainInfo: A central database for resolving microbial strain identifiers