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/bacdive8582.20230509.8.1

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 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 shapemotility
29309positive0.98 µm0.52 µm
120843positiverod-shapedno

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

@refgrowthtypetemperaturerange
16815positivegrowth28mesophilic
41748positivegrowth30mesophilic
67770positivegrowth30mesophilic

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
120843oxidase-
120843catalase+1.11.1.6
120843urease-3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)-
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
68382naphthol-AS-BI-phosphohydrolase+
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
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: ena
  • 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

traitpredictionconfidencetraining_data
motileno95.29no
flagellatedno99.088no
gram-positiveyes90.934yes
anaerobicno99.389no
aerobicyes90.861no
halophileno91.716no
spore-formingno87.145no
glucose-utilyes64.874no
thermophileno97.075yes
glucose-fermentno91.825no

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
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