Strain identifier
BacDive ID: 8585
Type strain: 
Species: Mycobacterium europaeum
Strain Designation: FI-95228
Strain history: CCUG 58464 <-- E. Tortoli FI-95228.
NCBI tax ID(s): 761804 (species)
version 8.1 (current version)
General
@ref: 16584
BacDive-ID: 8585
DSM-Number: 45397
keywords: genome sequence, 16S sequence, Bacteria, microaerophile, mesophilic, human pathogen
description: Mycobacterium europaeum FI-95228 is a microaerophile, mesophilic human pathogen that was isolated from sputum from an Italian patient.
NCBI tax id
- NCBI tax id: 761804
- Matching level: species
strain history
| @ref | history |
|---|---|
| 16584 | <- E. Tortoli, Careggi Hospital, Florence, Italy; FI-95228 |
| 67770 | CCUG 58464 <-- E. Tortoli FI-95228. |
doi: 10.13145/bacdive8585.20230509.8.1
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 europaeum
- full scientific name: Mycobacterium europaeum Tortoli et al. 2011
@ref: 16584
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Mycobacteriaceae
genus: Mycobacterium
species: Mycobacterium europaeum
full scientific name: Mycobacterium europaeum Tortoli et al. 2011 emend. Nouioui et al. 2018
strain designation: FI-95228
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | no | 93.545 | |
| 69480 | 100 | positive |
colony morphology
- @ref: 61694
- incubation period: 6 days
Culture and growth conditions
culture medium
- @ref: 16584
- 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
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 16584 | positive | growth | 37 | mesophilic |
| 67770 | positive | growth | 37 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 61694
- oxygen tolerance: microaerophile
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 95 |
| 69480 | no | 99.965 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | country | origin.country | continent | geographic location |
|---|---|---|---|---|---|
| 16584 | sputum from an Italian patient | Italy | ITA | Europe | |
| 61694 | Human sputum | Italy | ITA | Europe | |
| 67770 | 81-Year-old male suffering from cavitary pneumopathy | Italy | ITA | Europe | Florence |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Infection | #Patient | |
| #Host Body Product | #Fluids | #Sputum |
Safety information
risk assessment
- @ref: 16584
- pathogenicity human: yes, in single cases
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 16584
- description: Mycobacterium europaeum strain DSM 45397 16S ribosomal RNA gene and 16S-23S ribosomal RNA intergenic spacer, partial sequence
- accession: HM022196
- length: 1796
- database: ena
- NCBI tax ID: 761804
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Mycobacterium europaeum strain DSM 45397 | 761804.4 | wgs | patric | 761804 |
| 67770 | Mycobacterium europaeum DSM 45397 | GCA_002102155 | contig | ncbi | 761804 |
GC content
- @ref: 67770
- GC-content: 68.5
- method: genome sequence analysis
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 95 | no |
| motile | no | 92.931 | no |
| flagellated | no | 98.817 | no |
| gram-positive | yes | 90.619 | no |
| anaerobic | no | 98.617 | no |
| aerobic | yes | 85.02 | yes |
| halophile | no | 92.862 | no |
| spore-forming | no | 88.156 | no |
| glucose-util | yes | 64.794 | no |
| thermophile | no | 97.028 | yes |
| glucose-ferment | no | 91.509 | no |
External links
@ref: 16584
culture collection no.: DSM 45397, CCUG 58464, JCM 19116
straininfo link
- @ref: 77969
- straininfo: 397542
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 20693362 | Mycobacterium europaeum sp. nov., a scotochromogenic species related to the Mycobacterium simiae complex. | Tortoli E, Bottger EC, Fabio A, Falsen E, Gitti Z, Grottola A, Klenk HP, Mannino R, Mariottini A, Messino M, Pecorari M, Rumpianesi F | Int J Syst Evol Microbiol | 10.1099/ijs.0.025601-0 | 2010 | Adult, Aged, 80 and over, Bacterial Typing Techniques, Cell Wall/chemistry, DNA, Bacterial/genetics, Europe, Female, Genotype, Humans, Male, Molecular Sequence Data, Mycobacterium Infections/microbiology, Mycolic Acids/chemistry, Nontuberculous Mycobacteria/*classification/genetics/isolation & purification, Phenotype, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA | Genetics |
| Pathogenicity | 25539638 | Respiratory tract isolation of Mycobacterium europaeum following influenza infection in an immunocompromised patient: a case report. | Phelippeau M, Delord M, Drancourt M, Brouqui P | J Med Case Rep | 10.1186/1752-1947-8-463 | 2014 | Coinfection, Female, France, HIV Infections/complications/immunology, Hepatitis C/complications/immunology, Humans, Immunocompromised Host/*immunology, *Influenza A Virus, H1N1 Subtype, Influenza, Human/complications/*diagnosis/immunology, Mass Spectrometry, Middle Aged, Mycobacterium/*isolation & purification, Respiratory System/immunology/*microbiology, Reverse Transcriptase Polymerase Chain Reaction, Sputum/microbiology | Phylogeny |
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 16584 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45397) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-45397 | |
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |
| 61694 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 58464) | https://www.ccug.se/strain?id=58464 | |
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |
| 77969 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID397542.1 | StrainInfo: A central database for resolving microbial strain identifiers |