Strain identifier
BacDive ID: 24235
Type strain: 
Species: Mycobacterium heraklionense
Strain Designation: GN01
Strain history: LMG 24735 <-- Z. Gitti; Univ. Hosp. of Heraklion, Greece; GN-1.
NCBI tax ID(s): 512402 (species)
version 9.1 (current version)
General
@ref: 20670
BacDive-ID: 24235
DSM-Number: 46753
keywords: genome sequence, 16S sequence, Bacteria, coccus-shaped
description: Mycobacterium heraklionense GN01 is a coccus-shaped bacterium that was isolated from clinical isolate.
NCBI tax id
- NCBI tax id: 512402
- Matching level: species
strain history
| @ref | history |
|---|---|
| 20670 | <- E. Tortoli, Milano,Italy; GN01 <- Z. Gitti |
| 67770 | LMG 24735 <-- Z. Gitti; Univ. Hosp. of Heraklion, Greece; GN-1. |
doi: 10.13145/bacdive24235.20240916.9.1
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 heraklionense
- full scientific name: Mycobacterium heraklionense Tortoli et al. 2013
synonyms
- @ref: 20215
- synonym: Mycolicibacter heraklionensis
@ref: 20670
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Mycobacteriaceae
genus: Mycobacterium
species: Mycobacterium heraklionense
full scientific name: Mycobacterium heraklionense Tortoli et al. 2013
strain designation: GN01
type strain: yes
Morphology
cell morphology
| @ref | cell shape | motility | confidence |
|---|---|---|---|
| 30561 | coccus-shaped | ||
| 69480 | no | 90 |
pigmentation
- @ref: 30561
- production: no
multimedia
- @ref: 20670
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_46753.jpg
- caption: Medium 645 37°C
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 20670 | MIDDLEBROOK MEDIUM (DSMZ Medium 645) | yes | https://mediadive.dsmz.de/medium/645 | Name: MIDDLEBROOK MEDIUM (DSMZ Medium 645) Composition: Bacto Middlebrook 7H10 agar 20.9945 g/l Glycerol Distilled water |
| 20670 | COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) | yes | https://mediadive.dsmz.de/medium/693 | Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base |
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 20670 | positive | growth | 37 |
| 30561 | positive | growth | 25-37 |
| 30561 | positive | optimum | 31 |
| 67770 | positive | growth | 28 |
Physiology and metabolism
spore formation
- @ref: 30561
- spore formation: no
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 30561 | 53426 | tween 80 | + | carbon source |
| 30561 | 17632 | nitrate | + | reduction |
enzymes
- @ref: 30561
- value: catalase
- activity: +
- ec: 1.11.1.6
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent | latitude | longitude |
|---|---|---|---|---|---|---|---|
| 20670 | clinical isolate | Heraklion | Greece | GRC | Europe | 35.3418 | 25.1483 |
| 67770 | Male patient suffering with renal and heart failure | Heraklion | Greece | GRC | Europe |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Infection | #Medical environment | #Clinic |
| #Infection | #Patient | |
| #Infection | #Patient | #Specimen |
taxonmaps
- @ref: 69479
- File name: preview.99_473.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_312;97_346;98_391;99_473&stattab=map
- Last taxonomy: Mycolicibacter
- 16S sequence: GU084182
- Sequence Identity:
- Total samples: 3339
- soil counts: 1370
- aquatic counts: 1264
- animal counts: 528
- plant counts: 177
Safety information
risk assessment
- @ref: 20670
- biosafety level: 2
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 20670
- description: Mycobacterium heraklionense strain NCTC 13432 16S ribosomal RNA gene, partial sequence
- accession: GU084182
- length: 1427
- database: nuccore
- NCBI tax ID: 512402
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Mycolicibacter heraklionensis JCM 30995 | GCA_019645815 | complete | ncbi | 512402 |
| 66792 | Mycolicibacter heraklionensis strain JCM 30995 | 512402.22 | complete | patric | 512402 |
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69481 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 86 | no |
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 89.189 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 93.535 | no |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 82.423 | no |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 64.537 | yes |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 96.822 | no |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | no | 90 | no |
External links
@ref: 20670
culture collection no.: DSM 46753, CECT 7509, LMG 24735, NCTC 13432, JCM 30995
straininfo link
- @ref: 88178
- straininfo: 387343
literature
- topic: Phylogeny
- Pubmed-ID: 22447702
- title: Survey of 150 strains belonging to the Mycobacterium terrae complex and description of Mycobacterium engbaekii sp. nov., Mycobacterium heraklionense sp. nov. and Mycobacterium longobardum sp. nov.
- authors: Tortoli E, Gitti Z, Klenk HP, Lauria S, Mannino R, Mantegani P, Mariottini A, Neonakis I
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.038737-0
- year: 2012
- mesh: Bacterial Typing Techniques, DNA, Bacterial/genetics, Genes, Bacterial, Molecular Sequence Data, Mycolic Acids/analysis, Nontuberculous Mycobacteria/*classification/genetics, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
- topic2: Genetics
Reference
| @id | authors | title | doi/url | catalogue | ID_cross_reference | pubmed |
|---|---|---|---|---|---|---|
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | 10.1099/ijsem.0.004332 | |||
| 20670 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-46753 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 46753) | |||
| 30561 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 10.1128/mSphere.00237-17 | 26892 | 28776041 | |
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |||
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
| 69479 | João 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. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ | |||
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |||
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 | |||
| 88178 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | StrainInfo: A central database for resolving microbial strain identifiers | 10.60712/SI-ID387343.1 |