Strain identifier
BacDive ID: 8556
Type strain: 
Species: Mycobacterium senuense
Strain Designation: 05-832
Strain history: <- BJ Kim, Seoul Natl. Univ.
NCBI tax ID(s): 386913 (species)
version 8.1 (current version)
General
@ref: 12231
BacDive-ID: 8556
DSM-Number: 44999
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, rod-shaped, human pathogen
description: Mycobacterium senuense 05-832 is an aerobe, mesophilic, rod-shaped human pathogen that was isolated from sputum.
NCBI tax id
- NCBI tax id: 386913
- Matching level: species
strain history
| @ref | history |
|---|---|
| 12231 | <- H.-J. Kim; 05-832 |
| 67770 | KCTC 19147 <-- B.-J. Kim 05-832. |
| 67771 | <- BJ Kim, Seoul Natl. Univ. |
doi: 10.13145/bacdive8556.20230509.8.1
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 senuense
- full scientific name: Mycobacterium senuense Mun et al. 2008
synonyms
- @ref: 20215
- synonym: Mycolicibacter senuensis
@ref: 12231
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Mycobacteriaceae
genus: Mycobacterium
species: Mycobacterium senuense
full scientific name: Mycobacterium senuense Mun et al. 2008 emend. Nouioui et al. 2018
strain designation: 05-832
type strain: yes
Morphology
cell morphology
| @ref | cell shape | gram stain | motility | confidence |
|---|---|---|---|---|
| 32358 | rod-shaped | |||
| 67771 | positive | |||
| 69480 | no | 94.368 | ||
| 69480 | positive | 100 |
pigmentation
- @ref: 32358
- production: no
Culture and growth conditions
culture medium
- @ref: 12231
- 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 |
|---|---|---|---|---|
| 12231 | positive | growth | 37 | mesophilic |
| 32358 | positive | growth | 25-37 | mesophilic |
| 32358 | positive | optimum | 37 | mesophilic |
| 67770 | positive | growth | 37 | mesophilic |
| 67771 | positive | growth | 37 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 67771
- oxygen tolerance: aerobe
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 32358 | no | |
| 69481 | no | 100 |
| 69480 | no | 98.807 |
metabolite utilization
- @ref: 32358
- Chebi-ID: 17632
- metabolite: nitrate
- utilization activity: +
- kind of utilization tested: reduction
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 32358 | catalase | + | 1.11.1.6 |
| 32358 | pyrazinamidase | + | 3.5.1.B15 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 12231 | sputum | Seoul | Republic of Korea | KOR | Asia |
| 67770 | Human sputum | Seoul | Republic of Korea | KOR | Asia |
| 67771 | From sputum | Republic of Korea | KOR | Asia |
isolation source categories
- Cat1: #Host Body Product
- Cat2: #Fluids
- Cat3: #Sputum
Safety information
risk assessment
- @ref: 12231
- pathogenicity human: yes, in single cases
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Mycobacterium senuense strain DSM 44999 16S ribosomal RNA gene, partial sequence | FJ268583 | 512 | ena | 386913 |
| 20218 | Mycobacterium senuense strain DSM44999 16S ribosomal RNA gene, partial sequence | JN571174 | 479 | ena | 386913 |
| 12231 | Mycobacterium senuense strain 05-832 16S ribosomal RNA gene, partial sequence | DQ536408 | 1527 | ena | 386913 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Mycolicibacter senuensis JCM 16017 | GCA_010723225 | contig | ncbi | 386913 |
| 66792 | Mycobacterium senuense strain DSM 44999 | 386913.3 | wgs | patric | 386913 |
| 66792 | Mycolicibacter senuensis strain JCM 16017 | 386913.12 | wgs | patric | 386913 |
| 66792 | Mycolicibacter senuensis DSM 44999 | 2865435581 | draft | img | 386913 |
| 67770 | Mycolicibacter senuensis DSM 44999 | GCA_002101885 | contig | ncbi | 386913 |
GC content
- @ref: 67770
- GC-content: 68.7
- method: genome sequence analysis
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| gram-positive | yes | 93.971 | no |
| anaerobic | no | 99.263 | yes |
| halophile | no | 90.345 | no |
| spore-forming | no | 83.909 | yes |
| glucose-util | yes | 55.066 | no |
| aerobic | yes | 90.346 | no |
| motile | no | 95.18 | no |
| flagellated | no | 98.726 | no |
| thermophile | no | 96 | yes |
| glucose-ferment | no | 92.118 | no |
External links
@ref: 12231
culture collection no.: DSM 44999, KCTC 19147, JCM 16017
straininfo link
- @ref: 77939
- straininfo: 402300
literature
- topic: Phylogeny
- Pubmed-ID: 18319471
- title: Mycobacterium senuense sp. nov., a slowly growing, non-chromogenic species closely related to the Mycobacterium terrae complex.
- authors: Mun HS, Park JH, Kim H, Yu HK, Park YG, Cha CY, Kook YH, Kim BJ
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.65374-0
- year: 2008
- mesh: Aged, Bacterial Proteins/genetics, Base Sequence, Chaperonin 60, Chaperonins/genetics, DNA, Bacterial/analysis, DNA-Directed RNA Polymerases/genetics, Humans, Lung Diseases/*microbiology, Male, Molecular Sequence Data, Mycobacterium/*classification/genetics/*growth & development/isolation & purification, Mycobacterium Infections/*microbiology, Mycolic Acids/analysis, Nontuberculous Mycobacteria/classification/genetics, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sputum/microbiology
- topic2: Pathogenicity
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed | ID_cross_reference |
|---|---|---|---|---|---|---|---|
| 12231 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44999) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-44999 | ||||
| 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 | ||
| 32358 | 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 | 28587 | ||
| 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/ | |||||
| 67771 | Curators of the KCTC | https://kctc.kribb.re.kr/En/Kctc | |||||
| 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 | ||||
| 77939 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID402300.1 | StrainInfo: A central database for resolving microbial strain identifiers |