Strain identifier

BacDive ID: 8582

Type strain: Yes

Species: Mycobacterium marseillense

Strain Designation: 5356591

Strain history: CIP <- 2008, M. Drancourt, Timone Hosp., Marseille, France: strain 5356591

NCBI tax ID(s): 701042 (species)

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General

@ref: 16815

BacDive-ID: 8582

DSM-Number: 45437

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, Gram-positive

description: Mycobacterium marseillense 5356591 is an obligate aerobe, mesophilic, Gram-positive bacterium that was isolated from human sputum.

NCBI tax id

  • NCBI tax id: 701042
  • Matching level: species

strain history

@refhistory
417482008, M. Drancourt, La Timone Hosp, Marseille, France: strain 5356591
16815<- CCUG; CCUG 56325 <- M. Drancourt, Timone Hospital , Marseille; 5356591
67770CCUG 56325 <-- I. Ben Salah and M. Drancourt 5356591.
120843CIP <- 2008, M. Drancourt, Timone Hosp., Marseille, France: strain 5356591

doi: 10.13145/bacdive8582.20241212.9.2

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 marseillense
  • full scientific name: Mycobacterium marseillense Ben Salah et al. 2009

@ref: 16815

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Mycobacteriaceae

genus: Mycobacterium

species: Mycobacterium marseillense

full scientific name: Mycobacterium marseillense Ben Salah et al. 2009 emend. Nouioui et al. 2018

strain designation: 5356591

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
29309positive0.98 µm0.52 µm
120843positiverod-shapedno
69480no90

pigmentation

  • @ref: 29309
  • production: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
16815MIDDLEBROOK 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
41748MEDIUM 93 - for Mycobacterium avium subsp. sylvaticumyesDistilled water make up to (900.000 ml);Glycerol (4.500 ml);Middlebrook7H10 agar (17.000 g);Middelbrook OADC enrichment (100.000 ml)
120843CIP Medium 93yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=93

culture temp

@refgrowthtypetemperature
16815positivegrowth28
41748positivegrowth30
67770positivegrowth30

Physiology and metabolism

oxygen tolerance

  • @ref: 120843
  • oxygen tolerance: obligate aerobe

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2930933942ribose+carbon source
2930953426tween 80+carbon source
293094853esculin+hydrolysis
12084317632nitrate-reduction
12084316301nitrite-reduction

metabolite production

  • @ref: 120843
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
29309acid phosphatase+3.1.3.2
29309alkaline phosphatase+3.1.3.1
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase-3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382trypsin-3.4.21.4
68382cystine arylamidase+3.4.11.3
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)-
120843oxidase-
120843catalase+1.11.1.6
120843urease-3.5.1.5
68382alpha-chymotrypsin-3.4.21.1

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
120843-+-+-+-+--++--------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
16815human sputumMarseilleFranceFRAEurope
60919Human sputumMarseilleFranceFRAEurope2000
67770Sputum
120843Human, SpitMarseilleFranceFRAEurope

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body Product#Fluids#Sputum

taxonmaps

  • @ref: 69479
  • File name: preview.99_402.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_37;97_39;98_43;99_402&stattab=map
  • Last taxonomy: Mycobacterium
  • 16S sequence: EU266632
  • Sequence Identity:
  • Total samples: 24078
  • soil counts: 12779
  • aquatic counts: 4789
  • animal counts: 3677
  • plant counts: 2833

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
168152Risk group (German classification)
1208432Risk group (French classification)

Sequence information

16S sequences

  • @ref: 16815
  • description: Mycobacterium marseillense strain 5356591 16S ribosomal RNA gene, partial sequence
  • accession: EU266632
  • length: 1440
  • database: nuccore
  • NCBI tax ID: 701042

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Mycobacterium marseillense JCM 17324GCA_010731675completencbi701042
66792Mycobacterium marseillense strain DSM 45437701042.3wgspatric701042
66792Mycobacterium marseillense strain JCM 17324701042.13wgspatric701042
67770Mycobacterium marseillense DSM 45437GCA_002086345contigncbi701042
66792Mycobacterium marseillense DSM 45437GCA_025823125contigncbi701042

GC content

  • @ref: 67770
  • GC-content: 67.7
  • method: genome sequence analysis

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69480gram-positivegram-positivePositive reaction to Gram-stainingyes89.824yes
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no95.84no
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes76.998no
69480spore-formingspore-formingAbility to form endo- or exosporesno64.259no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno97yes
69480flagellatedmotile2+Ability to perform flagellated movementno90no

External links

@ref: 16815

culture collection no.: JCM 17324, DSM 45437, CCUG 56325, CIP 109828, CSUR P30

straininfo link

  • @ref: 77966
  • straininfo: 364722

literature

  • topic: Phylogeny
  • Pubmed-ID: 19628609
  • title: Mycobacterium marseillense sp. nov., Mycobacterium timonense sp. nov. and Mycobacterium bouchedurhonense sp. nov., members of the Mycobacterium avium complex.
  • authors: Ben Salah I, Cayrou C, Raoult D, Drancourt M
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.010637-0
  • year: 2009
  • mesh: Bacterial Proteins/genetics/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Humans, Molecular Sequence Data, Mycobacterium avium Complex/*classification/enzymology/genetics/*isolation & purification, Mycobacterium avium-intracellulare Infection/*microbiology, Phylogeny, RNA, Ribosomal, 16S/genetics, Respiratory System/microbiology
  • topic2: Pathogenicity

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
16815Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45437)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45437
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
29309Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2572228776041
41748Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7615
60919Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 56325)https://www.ccug.se/strain?id=56325
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)
77966Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID364722.1StrainInfo: A central database for resolving microbial strain identifiers
120843Curators of the CIPCollection of Institut Pasteur (CIP 109828)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109828