Strain identifier
BacDive ID: 16529
Type strain: 
Species: Microbispora corallina
Strain Designation: DF-32
Strain history: V. Kitpreechavanich DF-32.
NCBI tax ID(s): 83302 (species)
version 8.1 (current version)
General
@ref: 11997
BacDive-ID: 16529
DSM-Number: 44682
keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic
description: Microbispora corallina DF-32 is a spore-forming, mesophilic bacterium that was isolated from soil from a deciduous diplerocarp.
NCBI tax id
- NCBI tax id: 83302
- Matching level: species
strain history
| @ref | history |
|---|---|
| 11997 | <- JCM <- V. Kitpreechavanich; DF-32 |
| 67770 | V. Kitpreechavanich DF-32. |
doi: 10.13145/bacdive16529.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Streptosporangiales
- family: Streptosporangiaceae
- genus: Microbispora
- species: Microbispora corallina
- full scientific name: Microbispora corallina Nakajima et al. 1999
@ref: 11997
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Streptosporangiaceae
genus: Microbispora
species: Microbispora corallina
full scientific name: Microbispora corallina Nakajima et al. 1999
strain designation: DF-32
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | no | 95.019 | |
| 69480 | 100 | positive |
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 11997 | STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252) | yes | https://mediadive.dsmz.de/medium/252 | Name: STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252; with strain-specific modifications) Composition: Agar 14.985 g/l Starch 9.99001 g/l (NH4)2SO4 1.998 g/l CaCO3 1.998 g/l Yeast 1.0 g/l K2HPO4 0.999001 g/l MgSO4 x 7 H2O 0.999001 g/l NaCl 0.999001 g/l FeSO4 x 7 H2O 0.000999001 g/l MnCl2 x 4 H2O 0.000999001 g/l ZnSO4 x 7 H2O 0.000999001 g/l Distilled water |
| 11997 | N-Z-AMINE-MEDIUM (DSMZ Medium 554) | yes | https://mediadive.dsmz.de/medium/554 | Name: N-Z-AMINE-MEDIUM (DSMZ Medium 554) Composition: Starch 20.0 g/l Agar 20.0 g/l Glucose 10.0 g/l N-Z amine 5.0 g/l Yeast extract 5.0 g/l CaCO3 1.0 g/l Distilled water |
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 11997 | positive | growth | 28 | mesophilic |
| 67770 | positive | growth | 28 | mesophilic |
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | yes | 100 |
| 69480 | yes | 100 |
observation
- @ref: 67770
- observation: quinones: MK-9(III,VIII-H4), MK-9(H2), MK-9
Isolation, sampling and environmental information
isolation
| @ref | sample type | country | origin.country | continent |
|---|---|---|---|---|
| 11997 | soil from a deciduous diplerocarp | Thailand | THA | Asia |
| 67770 | Soil at a deciduous dipterocarp forest | Thailand | THA | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Terrestrial | #Soil |
| #Host | #Plants | #Tree |
taxonmaps
- @ref: 69479
- File name: preview.99_31404.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_239;96_910;97_1060;98_1268;99_31404&stattab=map
- Last taxonomy: Microbispora corallina
- 16S sequence: AB018046
- Sequence Identity:
- Total samples: 93
- soil counts: 55
- aquatic counts: 5
- animal counts: 5
- plant counts: 28
Safety information
risk assessment
- @ref: 11997
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 11997
- description: Microbispora corallina gene for 16S rRNA, partial sequence
- accession: AB018046
- length: 1442
- database: ena
- NCBI tax ID: 83302
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Microbispora corallina NBRC 16416 | GCA_016863035 | contig | ncbi | 83302 |
| 66792 | Microbispora corallina strain NBRC 16416 | 83302.3 | wgs | patric | 83302 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 11997 | 71 | |
| 67770 | 71.5 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 100 | no |
| motile | no | 92.613 | no |
| flagellated | no | 98.231 | no |
| gram-positive | yes | 86.61 | no |
| anaerobic | no | 99.085 | no |
| halophile | no | 93.804 | no |
| spore-forming | yes | 94.135 | no |
| thermophile | no | 98.536 | yes |
| glucose-util | yes | 89.543 | no |
| aerobic | yes | 92.128 | no |
| glucose-ferment | no | 93.446 | no |
External links
@ref: 11997
culture collection no.: DSM 44682, ATCC BAA 20, IFO 16416, JCM 10267, NBRC 161416, NBRC 16416, BCRC 16341, CGMCC 4.5569
straininfo link
- @ref: 85560
- straininfo: 46268
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 10555358 | Microbispora corallina sp. nov., a new species of the genus Microbispora isolated from Thai soil. | Nakajima Y, Kitpreechavanich V, Suzuki K, Kudo T | Int J Syst Bacteriol | 10.1099/00207713-49-4-1761 | 1999 | Actinomycetales/*classification/cytology/isolation & purification/physiology, Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/analysis, Genes, rRNA, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Polymerase Chain Reaction, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Thailand, Trees | Genetics |
| Phylogeny | 22140174 | Microbispora hainanensis sp. nov., isolated from rhizosphere soil of Excoecaria agallocha in a mangrove. | Xu XX, Wang HL, Lin HP, Wang C, Qu Z, Xie QY, Ruan JS, Hong K | Int J Syst Evol Microbiol | 10.1099/ijs.0.037267-0 | 2011 | Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/analysis, Euphorbiaceae/*microbiology, Fatty Acids/analysis, Molecular Sequence Data, Phospholipids/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology | Genetics |
| Phylogeny | 30247118 | Microbispora triticiradicis sp. nov., a novel actinomycete isolated from the root of wheat (Triticum aestivum L.). | Han C, Tian Y, Zhao J, Yu Z, Jiang S, Guo X, Xiang W, Wang X | Int J Syst Evol Microbiol | 10.1099/ijsem.0.003040 | 2018 | Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Triticum/*microbiology, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
| Phylogeny | 30739286 | Microbispora tritici sp. nov., a novel actinomycete isolated from a root of wheat (Triticum aestivum L.). | Han C, Zhao J, Yu B, Shi H, Zhang C, Guo X, Xiang W, Wang X | Antonie Van Leeuwenhoek | 10.1007/s10482-019-01246-y | 2019 | Actinobacteria/*classification/genetics/*isolation & purification/physiology, Bacterial Typing Techniques, Cell Wall/chemistry, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Glycolipids/analysis, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Triticum/*microbiology, Vitamin K 2/analysis | Transcriptome |
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 11997 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44682) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-44682 | |
| 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/ | ||
| 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 | |
| 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 | |
| 85560 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID46268.1 | StrainInfo: A central database for resolving microbial strain identifiers |