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, Gram-positive, ovoid-shaped, human pathogen

description: Mycobacterium iranicum M05 is a microaerophile, Gram-positive, ovoid-shaped 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/bacdive8347.20240916.9.1

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

@refgram staincell shapemotilityconfidence
30747positiveovoid-shapedno
69480positive91.608

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

@refgrowthtypetemperature
17617positivegrowth37
30747positivegrowth25-40
30747positiveoptimum37
62781positivegrowth37
67770positivegrowth37

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: nuccore
  • 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

@reftraitmodeldescriptionpredictionconfidencetraining_data
69480gram-positivegram-positivePositive reaction to Gram-stainingyes91.608no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no96.251yes
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes83.658yes
69480spore-formingspore-formingAbility to form endo- or exosporesno59.494yes
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno94.9no
69480flagellatedmotile2+Ability to perform flagellated movementno86.5no

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
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)
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