Strain identifier
BacDive ID: 131477
Type strain: 
Species: Microbacterium nanhaiense
Strain Designation: OAcT-400
Strain history: <- Jing Li
NCBI tax ID(s): 1301026 (species)
version 8.1 (current version)
General
@ref: 22704
BacDive-ID: 131477
DSM-Number: 26811
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-positive
description: Microbacterium nanhaiense OAcT-400 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from sea sediment.
NCBI tax id
- NCBI tax id: 1301026
- Matching level: species
strain history
| @ref | history |
|---|---|
| 22704 | <- J. Li, Ocean Univ. China, Qingdao, P. R. China; OAcT-400 <- L. Yan |
| 67771 | <- Jing Li |
doi: 10.13145/bacdive131477.20230509.8.1
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 nanhaiense
- full scientific name: Microbacterium nanhaiense Yan et al. 2015
@ref: 22704
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Microbacteriaceae
genus: Microbacterium
species: Microbacterium nanhaiense
full scientific name: Microbacterium nanhaiense Yan et al. 2015
strain designation: OAcT-400
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: positive
- confidence: 100
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 22704 | R2A MEDIUM (DSMZ Medium 830) | yes | https://mediadive.dsmz.de/medium/830 | Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water |
| 22704 | OXOID NUTRIENT BROTH (DSMZ Medium 948) | yes | https://mediadive.dsmz.de/medium/948 | Name: OXOID NUTRIENT BROTH (DSMZ Medium 948) Composition: Nutrient broth 13.0 g/l Distilled water |
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 22704 | positive | growth | 28 | mesophilic |
| 67771 | positive | growth | 28 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 67771
- oxygen tolerance: aerobe
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.999 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 22704 | sea sediment | South China Sea, site N42-5 at a depth of 2093 m | China | CHN | Asia |
| 67771 | From sediment in South China sea(depth 2093m) | China | CHN | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Marine |
| #Environmental | #Aquatic | #Sediment |
taxonmaps
- @ref: 69479
- File name: preview.99_31908.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9;96_1340;97_1590;98_23679;99_31908&stattab=map
- Last taxonomy: Microbacterium
- 16S sequence: KC505174
- Sequence Identity:
- Total samples: 655
- soil counts: 83
- aquatic counts: 62
- animal counts: 474
- plant counts: 36
Safety information
risk assessment
- @ref: 22704
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 22704
- description: Microbacterium nanhaiense strain OAct400 16S ribosomal RNA gene, partial sequence
- accession: KC505174
- length: 1446
- database: ena
- NCBI tax ID: 1301026
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Microbacterium nanhaiense CGMCC 4.7181 | GCA_014646015 | contig | ncbi | 1301026 |
| 66792 | Microbacterium nanhaiense strain CGMCC 4.7181 | 1301026.3 | wgs | patric | 1301026 |
GC content
- @ref: 22704
- GC-content: 73.8
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | no | 93.989 | no |
| gram-positive | yes | 94.643 | no |
| anaerobic | no | 99.524 | no |
| halophile | no | 76.774 | no |
| spore-forming | no | 93.299 | no |
| thermophile | no | 99.385 | yes |
| glucose-util | yes | 85.696 | no |
| flagellated | no | 96.982 | no |
| aerobic | yes | 88.189 | yes |
| glucose-ferment | no | 74.032 | no |
External links
@ref: 22704
culture collection no.: DSM 26811, CGMCC 4.7181, KCTC 29185
straininfo link
- @ref: 89894
- straininfo: 407069
literature
- topic: Phylogeny
- Pubmed-ID: 26220793
- title: Microbacterium nanhaiense sp. nov., an actinobacterium isolated from sea sediment.
- authors: Yan L, Wang J, Chen Z, Guan Y, Li J
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.000480
- year: 2015
- mesh: Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Ornithine/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/chemistry
- topic2: Genetics
Reference
| @id | authors | title | doi/url | catalogue |
|---|---|---|---|---|
| 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 | |
| 22704 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-26811 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26811) | |
| 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 | |
| 67771 | Curators of the KCTC | https://kctc.kribb.re.kr/En/Kctc | ||
| 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 | |
| 89894 | 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-ID407069.1 |