Strain identifier
BacDive ID: 8536
Type strain: 
Species: Mycobacterium arupense
Strain Designation: AR30097
Strain history: CCUG 58731 <-- DSM 44942 <-- J. L. Cloud; ARUP Inst. for Clin. & Exp. Pathol., USA; AR30097.
NCBI tax ID(s): 342002 (species)
version 8.1 (current version)
General
@ref: 12106
BacDive-ID: 8536
DSM-Number: 44942
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, rod-shaped
description: Mycobacterium arupense AR30097 is an aerobe, mesophilic, rod-shaped bacterium that was isolated from tendon.
NCBI tax id
- NCBI tax id: 342002
- Matching level: species
strain history
| @ref | history |
|---|---|
| 12106 | <- J. Cloud <- ARUP, Salt Lake City,Utah, USA |
| 67770 | CCUG 58731 <-- DSM 44942 <-- J. L. Cloud; ARUP Inst. for Clin. & Exp. Pathol., USA; AR30097. |
doi: 10.13145/bacdive8536.20230509.8.1
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 arupense
- full scientific name: Mycobacterium arupense Cloud et al. 2006
synonyms
- @ref: 20215
- synonym: Mycolicibacter arupensis
@ref: 12106
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Mycobacteriaceae
genus: Mycobacterium
species: Mycobacterium arupense
full scientific name: Mycobacterium arupense Cloud et al. 2006 emend. Nouioui et al. 2018
strain designation: AR30097
type strain: yes
Morphology
cell morphology
- @ref: 31755
- cell shape: rod-shaped
colony morphology
- @ref: 61749
- incubation period: 5 days
pigmentation
- @ref: 31755
- production: yes
multimedia
| @ref | multimedia content | intellectual property rights | caption |
|---|---|---|---|
| 12106 | https://www.dsmz.de/microorganisms/photos/DSM_44942-1.jpg | © Leibniz-Institut DSMZ | |
| 12106 | https://www.dsmz.de/microorganisms/photos/DSM_44942.jpg | © Leibniz-Institut DSMZ | Medium 645 37°C |
Culture and growth conditions
culture medium
- @ref: 12106
- 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 |
|---|---|---|---|---|
| 12106 | positive | growth | 37 | mesophilic |
| 31755 | positive | growth | 30-37 | mesophilic |
| 31755 | positive | optimum | 30-37 | mesophilic |
| 61749 | positive | growth | 30 | mesophilic |
| 67770 | positive | growth | 37 | mesophilic |
culture pH
| @ref | ability | type | pH |
|---|---|---|---|
| 31755 | positive | growth | 7 |
| 31755 | positive | optimum | 7 |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance |
|---|---|
| 12106 | aerobe |
| 61749 | aerobe |
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 31755 | NaCl | positive | growth | 5 % |
| 31755 | NaCl | positive | optimum | 5 % |
observation
- @ref: 31755
- observation: aggregates in chains
enzymes
- @ref: 31755
- value: catalase
- activity: +
- ec: 1.11.1.6
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 12106 | tendon | Florida | USA | USA | North America |
| 61749 | Human tendon | Florida | USA | USA | North America |
| 67770 | Human tendon | USA | USA | North America |
isolation source categories
- Cat1: #Host Body-Site
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: DQ157760
- Sequence Identity:
- Total samples: 3339
- soil counts: 1370
- aquatic counts: 1264
- animal counts: 528
- plant counts: 177
Safety information
risk assessment
- @ref: 12106
- biosafety level: 2
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Mycobacterium arupense strain DSM 44942 16S ribosomal RNA gene, partial sequence | EU191910 | 471 | ena | 342002 |
| 20218 | Mycobacterium arupense strain ATCC BAA-1242 16S ribosomal RNA gene, partial sequence | JN571167 | 479 | ena | 342002 |
| 12106 | Mycobacterium arupense strain AR30097 16S ribosomal RNA gene, partial sequence | DQ157760 | 1487 | ena | 342002 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Mycobacterium arupense strain DSM 44942 | 342002.6 | wgs | patric | 342002 |
| 67770 | Mycolicibacter arupensis DSM 44942 | GCA_002086515 | contig | ncbi | 342002 |
| 66792 | Mycolicibacter arupensis DSM 44942 | GCA_025822685 | scaffold | ncbi | 342002 |
GC content
- @ref: 67770
- GC-content: 67.4
- method: genome sequence analysis
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| gram-positive | yes | 91.739 | no |
| anaerobic | no | 99.211 | yes |
| halophile | no | 94.322 | no |
| spore-forming | no | 87.111 | no |
| glucose-util | yes | 60.218 | no |
| motile | no | 94.65 | no |
| flagellated | no | 98.674 | no |
| thermophile | no | 98.894 | yes |
| aerobic | yes | 91.484 | yes |
| glucose-ferment | no | 92.773 | no |
External links
@ref: 12106
culture collection no.: DSM 44942, ATCC BAA 1242, CCUG 58731, JCM 32216
straininfo link
- @ref: 77922
- straininfo: 297254
literature
- topic: Phylogeny
- Pubmed-ID: 16738122
- title: Mycobacterium arupense sp. nov., a non-chromogenic bacterium isolated from clinical specimens.
- authors: Cloud JL, Meyer JJ, Pounder JI, Jost KC, Sweeney A, Carroll KC, Woods GL
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.64194-0
- year: 2006
- mesh: Base Sequence, Humans, Molecular Sequence Data, Mycobacterium/*classification/*genetics/isolation & purification, Mycobacterium Infections, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Tendons/*microbiology
- topic2: Pathogenicity
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed | ID_cross_reference |
|---|---|---|---|---|---|---|---|
| 12106 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44942) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-44942 | ||||
| 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 | ||||
| 20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | ||
| 31755 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 28776041 | 28028 | ||
| 61749 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 58731) | https://www.ccug.se/strain?id=58731 | ||||
| 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/ | |||||
| 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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | ||||
| 77922 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID297254.1 | StrainInfo: A central database for resolving microbial strain identifiers |