Strain identifier
BacDive ID: 130444
Type strain: 
Species: Micromonospora taraxaci
Strain Designation: NEAU-P5
Strain history: CGMCC 4.7098 <-- C. Liu; Northeast Agric. Univ., China; NEAU-P5.
NCBI tax ID(s): 1316803 (species)
version 8.1 (current version)
General
@ref: 21677
BacDive-ID: 130444
DSM-Number: 45885
keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic, Gram-positive
description: Micromonospora taraxaci NEAU-P5 is a spore-forming, mesophilic, Gram-positive bacterium that was isolated from root of dandelion .
NCBI tax id
- NCBI tax id: 1316803
- Matching level: species
strain history
| @ref | history |
|---|---|
| 21677 | <- C. Liu, Northeast Agricultural Univ., Harbin, China; NEAU-P5 <- J.-S. Zhao, Harbin, China |
| 67770 | CGMCC 4.7098 <-- C. Liu; Northeast Agric. Univ., China; NEAU-P5. |
doi: 10.13145/bacdive130444.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Micromonosporales
- family: Micromonosporaceae
- genus: Micromonospora
- species: Micromonospora taraxaci
- full scientific name: Micromonospora taraxaci Zhao et al. 2015
@ref: 21677
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Micromonosporaceae
genus: Micromonospora
species: Micromonospora taraxaci
full scientific name: Micromonospora taraxaci Zhao et al. 2015
strain designation: NEAU-P5
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: positive
- confidence: 100
multimedia
- @ref: 21677
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_45885.jpg
- caption: Medium 65 28°C
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 21677 | TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) | yes | https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium535.pdf | |
| 21677 | 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 |
| 21677 | GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) | yes | https://mediadive.dsmz.de/medium/65 | Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water |
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 21677 | 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(H8), MK-9(H6), MK-10(H2)
Isolation, sampling and environmental information
isolation
| @ref | sample type | host species | geographic location | country | origin.country | continent | latitude | longitude |
|---|---|---|---|---|---|---|---|---|
| 21677 | root of dandelion (Taraxacum mongolicum Hand.-Mazz.) | Taraxacum mongolicum | Heilongjiang province, Harbin (45°45'N, 126°41'E) | China | CHN | Asia | 45.75 | 126.683 |
| 67770 | Root of dandelion (Taraxacum mongolicum Hand.-Mazz.) from Harbin | Taraxacum mongolicum | China | CHN | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Plants | #Herbaceous plants (Grass,Crops) |
| #Host Body-Site | #Plant | #Root (Rhizome) |
taxonmaps
- @ref: 69479
- File name: preview.99_3471.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_94;96_404;97_1111;98_1509;99_3471&stattab=map
- Last taxonomy: Micromonospora
- 16S sequence: LC278354
- Sequence Identity:
- Total samples: 1419
- soil counts: 1017
- aquatic counts: 161
- animal counts: 219
- plant counts: 22
Safety information
risk assessment
- @ref: 21677
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 21677 | Micromonospora taraxaci strain NEAU-P5 16S ribosomal RNA gene, partial sequence | KC439463 | 1509 | ena | 1316803 |
| 67770 | Micromonospora taraxaci gene for 16S ribosomal RNA, partial sequence, strain: JCM 31775 | LC278354 | 1459 | ena | 1316803 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Micromonospora taraxaci DSM 45885 | GCA_007830095 | contig | ncbi | 1316803 |
| 66792 | Micromonospora taraxaci strain DSM 45885 | 1316803.3 | wgs | patric | 1316803 |
| 66792 | Micromonospora taraxaci DSM 45885 | 2818991475 | draft | img | 1316803 |
GC content
- @ref: 67770
- GC-content: 68.05-68.55
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 100 | no |
| motile | no | 91.893 | no |
| gram-positive | yes | 91.577 | no |
| anaerobic | no | 99.266 | no |
| halophile | no | 94.618 | no |
| spore-forming | yes | 95.668 | no |
| glucose-util | yes | 89.147 | no |
| flagellated | no | 97.706 | no |
| thermophile | no | 98.628 | yes |
| aerobic | yes | 95.525 | no |
| glucose-ferment | no | 90.41 | no |
External links
@ref: 21677
culture collection no.: DSM 45885, CGMCC 4.7098, JCM 31775
straininfo link
- @ref: 88972
- straininfo: 404358
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 25082023 | Micromonospora taraxaci sp. nov., a novel endophytic actinomycete isolated from dandelion root (Taraxacum mongolicum Hand.-Mazz.). | Zhao J, Guo L, He H, Liu C, Zhang Y, Li C, Wang X, Xiang W | Antonie Van Leeuwenhoek | 10.1007/s10482-014-0237-x | 2014 | Bacterial Typing Techniques, Cell Wall/chemistry, Cluster Analysis, Cytosol/chemistry, DNA Gyrase/genetics, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Endophytes/*classification/genetics/*isolation & purification/physiology, Fatty Acids/analysis, Micromonospora/*classification/genetics/*isolation & purification/physiology, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/analysis, Phospholipids/analysis, Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Taraxacum/*microbiology, Vitamin K 2/analysis | Enzymology |
| Phylogeny | 27902235 | Micromonospora parathelypteridis sp. nov., an endophytic actinomycete with antifungal activity isolated from the root of Parathelypteris beddomei (Bak.) Ching. | Zhao S, Liu C, Zheng W, Ma Z, Cao T, Zhao J, Yan K, Xiang W, Wang X | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001614 | 2017 | Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Micromonospora/*classification/genetics/isolation & purification, Nucleic Acid Hybridization, *Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Streptophyta/*microbiology | Transcriptome |
| Phylogeny | 31630299 | Micromonospora orduensis sp. nov., isolated from deep marine sediment. | Veyisoglu A, Carro L, Cetin D, Igual JM, Klenk HP, Sahin N | Antonie Van Leeuwenhoek | 10.1007/s10482-019-01349-6 | 2019 | *Aquatic Organisms, Bacterial Typing Techniques, Fatty Acids/metabolism, Genome, Bacterial, Genomics/methods, Geologic Sediments/*microbiology, Micromonospora/*classification/genetics/*isolation & purification, Phylogeny, Seawater/microbiology, Soil Microbiology | 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 | |
| 21677 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-45885 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45885) | |
| 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 | |
| 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. | 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 | |
| 88972 | 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-ID404358.1 |