Strain identifier

BacDive ID: 8546

Type strain: Yes

Species: Mycobacterium abscessus subsp. massiliense

Strain history: CIP <- 2004, M. Drancourt, Timone Hosp., Marseille, France: strain LB, Mycobacterium massiliense

NCBI tax ID(s): 1962118 (subspecies)

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General

@ref: 12345

BacDive-ID: 8546

DSM-Number: 45103

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

description: Mycobacterium abscessus subsp. massiliense DSM 45103 is a microaerophile, mesophilic, Gram-positive human pathogen that was isolated from human sputum and bronchial alveolar lavage of 50 year old woman.

NCBI tax id

  • NCBI tax id: 1962118
  • Matching level: subspecies

strain history

@refhistory
12345<- CCUG <- M. Drancourt, Timone, Marseille
67770CCUG 48898 <-- M. Drancourt.
67771<- CCUG <- M Drancourt, Timone, Marseille, France 12 Mar 2004
115979CIP <- 2004, M. Drancourt, Timone Hosp., Marseille, France: strain LB, Mycobacterium massiliense

doi: 10.13145/bacdive8546.20230509.8.1

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 abscessus subsp. massiliense
  • full scientific name: Mycobacterium abscessus subsp. massiliense (Adékambi et al. 2006) Tortoli et al. 2016

  • synonyms

    @refsynonym
    20215Mycobacterium massiliense
    20215Mycobacteroides abscessus subsp. massiliense

@ref: 12345

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Mycobacteriaceae

genus: Mycobacterium

species: Mycobacterium abscessus subsp. massiliense

full scientific name: Mycobacterium abscessus subsp. massiliense (Adékambi et al. 2006) Tortoli et al. 2016 emend. Nouioui et al. 2018

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotility
67771positive
115979positiverod-shapedno

colony morphology

@refincubation periodhemolysis ability
583892-3 days
1159791

multimedia

@refmultimedia contentintellectual property rightscaption
12345https://www.dsmz.de/microorganisms/photos/DSM_45103-1.jpg© Leibniz-Institut DSMZ
12345https://www.dsmz.de/microorganisms/photos/DSM_45103-2.jpg© Leibniz-Institut DSMZ
12345https://www.dsmz.de/microorganisms/photos/DSM_45103-3.jpg© Leibniz-Institut DSMZ
12345https://www.dsmz.de/microorganisms/photos/DSM_45103-5.jpg© Leibniz-Institut DSMZ
12345https://www.dsmz.de/microorganisms/photos/DSM_45103.jpg© Leibniz-Institut DSMZMedium 645 37°C

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
12345MIDDLEBROOK 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
115979CIP Medium 45yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=45
115979CIP Medium 55yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=55

culture temp

@refgrowthtypetemperaturerange
12345positivegrowth37mesophilic
58389positivegrowth37mesophilic
67770positivegrowth37mesophilic
67771positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
58389microaerophile
67771aerobe
115979obligate aerobe

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
11597917632nitrate-reduction
11597916301nitrite-reduction

metabolite production

  • @ref: 115979
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
115979oxidase-
115979alcohol dehydrogenase-1.1.1.1
115979catalase+1.11.1.6
115979lysine decarboxylase-4.1.1.18
115979ornithine decarboxylase-4.1.1.17
115979urease-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
115979--++-+----++---+----

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic locationisolation date
12345human sputum and bronchial alveolar lavage of 50 year old womanFranceFRAEurope
58389Human sputum and bronchial alveolar lavage,50y.w.FranceFRAEuropeMarseille
67770Sputum of a patient with hemoptoic pneumonia
67771From Human sputum and bronchial alveolar lavage, 50y.w.FranceFRAEuropeMarseille
115979Human, SputumFranceFRAEuropeMarseille2001

isolation source categories

Cat1Cat2Cat3
#Host#Human#Female
#Host Body Product#Oral cavity and Airways#Bronchial wash
#Host Body Product#Fluids#Sputum

taxonmaps

  • @ref: 69479
  • File name: preview.99_54.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_44;97_46;98_50;99_54&stattab=map
  • Last taxonomy: Mycobacteroides
  • 16S sequence: AY593980
  • Sequence Identity:
  • Total samples: 21994
  • soil counts: 7046
  • aquatic counts: 6199
  • animal counts: 7007
  • plant counts: 1742

Safety information

risk assessment

@refpathogenicity humanpathogenicity animalbiosafety levelbiosafety level comment
12345yesyes2Risk group (German classification)
1159792Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Mycobacterium massiliense 16S-23S ribosomal RNA intergenic spacer, partial sequenceAY593978258ena319705
20218Mycobacterium massiliense strain CIP 108297 16S ribosomal RNA gene, partial sequenceEU191912457ena319705
12345Mycobacterium abscessus subsp. bolletii strain CCUG 48898 16S ribosomal RNA gene, partial sequenceAY5939801481ena1962118
67770Mycobacterium abscessus subsp. bolletii gene for 16S ribosomal RNA, partial sequence, strain: JCM 15300AB5486021468ena1001714

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Mycobacteroides abscessus subsp. massiliense CCUG 48898 = JCM 15300GCA_000497265completencbi1001714
66792Mycobacteroides abscessus subsp. massiliense CIP 108297GCA_001792625contigncbi1962118
66792Mycobacterium abscessus subsp. bolletii strain CIP 108297319705.17wgspatric319705
66792Mycobacterium abscessus subsp. massiliense strain CCUG 488981962118.3wgspatric1962118
66792Mycobacterium massiliense CCUG 48898 = JCM 153001001714.3wgspatric1001714
66792Mycobacterium massiliense CCUG 48898 = JCM 15300 [PRJDB747]1001714.4wgspatric1001714
66792Mycobacterium massiliense CCUG 48898 = JCM 15300 [PRJNA65215]1001714.6wgspatric1001714
67770Mycobacteroides abscessus subsp. massiliense CCUG 48898 = JCM 15300GCA_000239055contigncbi1001714
67770Mycobacteroides abscessus subsp. massiliense CCUG 48898 = JCM 15300 CCUG48898GCA_000270665contigncbi1001714
67770Mycobacteroides abscessus subsp. massiliense CCUG 48898GCA_002086375contigncbi1962118

GC content

@refGC-contentmethod
1234564.09sequence analysis
6777064.1genome sequence analysis
6777062-68high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno96.297no
motileno96.297no
flagellatedno98.466no
flagellatedno98.466no
gram-positiveyes91.065yes
gram-positiveyes91.065yes
anaerobicno99.525yes
anaerobicno99.525yes
aerobicyes90.22no
aerobicyes90.22no
halophileno94.501no
halophileno94.501no
spore-formingno83.836no
spore-formingno83.836no
thermophileno99.443yes
thermophileno99.443yes
glucose-utilyes82.938no
glucose-utilyes82.938no
glucose-fermentno93.641no
glucose-fermentno93.641no

External links

@ref: 12345

culture collection no.: DSM 45103, CCUG 48898, CIP 108297, KCTC 19086, JCM 15300, Timone LB, BCRC 16916

straininfo link

  • @ref: 77930
  • straininfo: 134242

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny15583272Amoebal coculture of "Mycobacterium massiliense" sp. nov. from the sputum of a patient with hemoptoic pneumonia.Adekambi T, Reynaud-Gaubert M, Greub G, Gevaudan MJ, La Scola B, Raoult D, Drancourt MJ Clin Microbiol10.1128/JCM.42.12.5493-5501.20042004Acanthamoeba/*growth & development/microbiology, Animals, Anti-Bacterial Agents/pharmacology, Bacterial Proteins/genetics, Base Sequence, Bronchoalveolar Lavage Fluid/microbiology, Coculture Techniques, DNA, Ribosomal/analysis, Female, Humans, Microbial Sensitivity Tests, Middle Aged, Molecular Sequence Data, Mycobacterium/*classification/genetics/*growth & development/isolation & purification, Mycobacterium Infections/*microbiology, Pneumonia, Bacterial/*microbiology, RNA, Ribosomal, 16S, Sequence Analysis, DNA, Sputum/*microbiologyPathogenicity
Transcriptome21106786Multilocus sequence analysis and rpoB sequencing of Mycobacterium abscessus (sensu lato) strains.Macheras E, Roux AL, Bastian S, Leao SC, Palaci M, Sivadon-Tardy V, Gutierrez C, Richter E, Rusch-Gerdes S, Pfyffer G, Bodmer T, Cambau E, Gaillard JL, Heym BJ Clin Microbiol10.1128/JCM.01274-102010Bacterial Proteins/genetics, *Bacterial Typing Techniques, Brazil, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA-Directed RNA Polymerases/*genetics, France, Germany, Humans, Molecular Sequence Data, *Multilocus Sequence Typing, Mycobacterium/*classification/*genetics, Phylogeny, Sequence Analysis, DNA, SwitzerlandPhylogeny
21931831Increased virulence of an epidemic strain of Mycobacterium massiliense in mice.Shang S, Gibbs S, Henao-Tamayo M, Shanley CA, McDonnell G, Duarte RS, Ordway DJ, Jackson MPLoS One10.1371/journal.pone.00247262011Animals, CD4-Positive T-Lymphocytes/immunology, CD8-Positive T-Lymphocytes/immunology, Cells, Cultured, Female, Lung/immunology/microbiology, Macrophages/microbiology, Mice, Mice, Knockout, Mycobacterium/*pathogenicity, Mycobacterium Infections/microbiology, Virulence
Genetics22965080Genomic insights into the emerging human pathogen Mycobacterium massiliense.Tettelin H, Sampaio EP, Daugherty SC, Hine E, Riley DR, Sadzewicz L, Sengamalay N, Shefchek K, Su Q, Tallon LJ, Conville P, Olivier KN, Holland SM, Fraser CM, Zelazny AMJ Bacteriol10.1128/JB.01200-122012Genome, Bacterial, Humans, Molecular Sequence Data, Mycobacterium/*classification/*genetics, Mycobacterium Infections/*microbiology, Phylogeny, Polymorphism, Single NucleotidePhylogeny
Genetics24197885Discrimination of Mycobacterium abscessus subsp. massiliense from Mycobacterium abscessus subsp. abscessus in clinical isolates by multiplex PCR.Nakanaga K, Sekizuka T, Fukano H, Sakakibara Y, Takeuchi F, Wada S, Ishii N, Makino M, Kuroda M, Hoshino YJ Clin Microbiol10.1128/JCM.01327-132013Bacteriological Techniques/*methods, DNA Primers/genetics, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Genome, Bacterial, Humans, Molecular Diagnostic Techniques/*methods, Molecular Sequence Data, Multiplex Polymerase Chain Reaction/*methods, Mycobacterium/*classification/genetics/*isolation & purification, Mycobacterium Infections, Nontuberculous/*microbiology, RNA, Ribosomal, 16S/genetics, Respiratory Tract Infections/microbiology, Sequence Analysis, DNA, Skin Diseases, Bacterial/microbiologyPhylogeny
Genetics24312320The genome sequence of 'Mycobacterium massiliense' strain CIP 108297 suggests the independent taxonomic status of the Mycobacterium abscessus complex at the subspecies level.Cho YJ, Yi H, Chun J, Cho SN, Daley CL, Koh WJ, Shin SJPLoS One10.1371/journal.pone.00815602013Genome, Bacterial/genetics, *Genomics, Nontuberculous Mycobacteria/*classification/*genetics, *Phylogeny, Sequence Homology, Nucleic AcidPhylogeny
Genetics25503461Complete genome sequence and comparative genomic analysis of Mycobacterium massiliense JCM 15300 in the Mycobacterium abscessus group reveal a conserved genomic island MmGI-1 related to putative lipid metabolism.Sekizuka T, Kai M, Nakanaga K, Nakata N, Kazumi Y, Maeda S, Makino M, Hoshino Y, Kuroda MPLoS One10.1371/journal.pone.01148482014DNA, Bacterial, *Genome, Bacterial, Genomic Islands/*genetics, Humans, Lipid Metabolism/genetics, Mycobacterium/*genetics, Nontuberculous Mycobacteria/*genetics, Phylogeny, Sequence Analysis, DNAMetabolism
Phylogeny27499141Emended description of Mycobacterium abscessus, Mycobacterium abscessus subsp. abscessus and Mycobacteriumabscessus subsp. bolletii and designation of Mycobacteriumabscessus subsp. massiliense comb. nov.Tortoli E, Kohl TA, Brown-Elliott BA, Trovato A, Leao SC, Garcia MJ, Vasireddy S, Turenne CY, Griffith DE, Philley JV, Baldan R, Campana S, Cariani L, Colombo C, Taccetti G, Teri A, Niemann S, Wallace RJ Jr, Cirillo DMInt J Syst Evol Microbiol10.1099/ijsem.0.0013762016Bacterial Proteins/genetics, Bacterial Typing Techniques, DNA, Bacterial/genetics, Humans, Mycobacterium/*classification/genetics, *Phylogeny, Sequence Analysis, DNAPathogenicity

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
12345Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45103)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45103
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
58389Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 48898)https://www.ccug.se/strain?id=48898
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/
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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
77930Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID134242.1StrainInfo: A central database for resolving microbial strain identifiers
115979Curators of the CIPCollection of Institut Pasteur (CIP 108297)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108297