Strain identifier
BacDive ID: 7460
Type strain: 
Species: Microbacterium marinum
Strain Designation: H101
Strain history: CGMCC 4.6941 <-- L. Zhang et al. H101.
NCBI tax ID(s): 421115 (species)
version 8.1 (current version)
General
@ref: 17804
BacDive-ID: 7460
DSM-Number: 24947
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-positive
description: Microbacterium marinum H101 is a mesophilic, Gram-positive bacterium that was isolated from concentrated seawater.
NCBI tax id
- NCBI tax id: 421115
- Matching level: species
strain history
| @ref | history |
|---|---|
| 17804 | <- Y. Huang, Chinese Acad. Sci. (CAS), Beijing; CGMCC 4.6941 <- L. Xi |
| 67770 | CGMCC 4.6941 <-- L. Zhang et al. H101. |
doi: 10.13145/bacdive7460.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Micrococcales
- family: Microbacteriaceae
- genus: Microbacterium
- species: Microbacterium marinum
- full scientific name: Microbacterium marinum Zhang et al. 2012
@ref: 17804
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Microbacteriaceae
genus: Microbacterium
species: Microbacterium marinum
full scientific name: Microbacterium marinum Zhang et al. 2012
strain designation: H101
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: positive
- confidence: 100
Culture and growth conditions
culture medium
- @ref: 17804
- name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)
- growth: yes
- link: https://mediadive.dsmz.de/medium/92
- composition: Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 17804 | positive | growth | 28 | mesophilic |
| 67770 | positive | growth | 28 | mesophilic |
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.998 |
murein
- @ref: 17804
- murein short key: B03
- type: B1gamma {Gly} [L-Glu] D-Glu(Hyg)-Gly2-L-Lys
observation
- @ref: 67770
- observation: quinones: MK-12, MK-13, MK-11
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | latitude | longitude |
|---|---|---|---|---|---|
| 17804 | concentrated seawater | South-West Indian Ocean (E/S, 49°39'/37°47') at a depth of 2800 m | International waters | -37.7833 | 49.65 |
| 67770 | Deep seawater in South-West Indian Ocean |
isolation source categories
- Cat1: #Environmental
- Cat2: #Aquatic
- Cat3: #Marine
Safety information
risk assessment
- @ref: 17804
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 17804
- description: Microbacterium marinum strain H101 16S ribosomal RNA gene, partial sequence
- accession: HQ622524
- length: 1445
- database: ena
- NCBI tax ID: 421115
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Microbacterium marinum DSM 24947 | GCA_014204835 | contig | ncbi | 421115 |
| 66792 | Microbacterium marinum strain DSM 24947 | 421115.3 | wgs | patric | 421115 |
| 66792 | Microbacterium marinum DSM 24947 | 2870575989 | draft | img | 421115 |
GC content
- @ref: 17804
- GC-content: 66.5
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| gram-positive | yes | 93.721 | no |
| anaerobic | no | 99.605 | no |
| halophile | no | 89.922 | no |
| spore-forming | no | 91.976 | no |
| glucose-util | yes | 84.816 | no |
| aerobic | yes | 94.708 | no |
| flagellated | no | 97.696 | no |
| thermophile | no | 99.134 | yes |
| motile | no | 92.727 | no |
| glucose-ferment | no | 91.256 | no |
External links
@ref: 17804
culture collection no.: DSM 24947, CGMCC 4.6941, JCM 19665
straininfo link
- @ref: 76906
- straininfo: 406035
literature
- topic: Phylogeny
- Pubmed-ID: 22280899
- title: Microbacterium marinum sp. nov., isolated from deep-sea water.
- authors: Zhang L, Xi L, Ruan J, Huang Y
- journal: Syst Appl Microbiol
- DOI: 10.1016/j.syapm.2011.11.004
- year: 2012
- mesh: Actinomycetales/*classification/*genetics/isolation & purification, Aquatic Organisms/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition/genetics, Base Sequence, DNA, Bacterial/analysis/genetics, DNA, Ribosomal/analysis/genetics, Indian Ocean, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/analysis/genetics, Seawater/*microbiology, Sequence Alignment, Sequence Analysis, DNA
- topic2: Enzymology
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 17804 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 24947) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-24947 | |
| 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 | |
| 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 | |
| 76906 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID406035.1 | StrainInfo: A central database for resolving microbial strain identifiers |