Strain identifier
BacDive ID: 8034
Type strain: 
Species: Micromonospora trujilloniae
Strain Designation: 234402
Strain history: DSM 45674 <-- Q. Xie; Inst. of Trop. Biosci. & Biotechnol., China; 234402.
NCBI tax ID(s): 1287068 (species)
version 9.3 (current version)
General
@ref: 18037
BacDive-ID: 8034
DSM-Number: 45674
keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, mesophilic, Gram-positive
description: Micromonospora trujilloniae 234402 is an aerobe, spore-forming, mesophilic bacterium that was isolated from mangrove soil.
NCBI tax id
- NCBI tax id: 1287068
- Matching level: species
strain history
| @ref | history |
|---|---|
| 18037 | <- Q. Xie, Inst. Tropical Bioscience and Biotechnol., Haikou, China; 234402 |
| 67770 | DSM 45674 <-- Q. Xie; Inst. of Trop. Biosci. & Biotechnol., China; 234402. |
doi: 10.13145/bacdive8034.20250331.9.3
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 trujilloniae
- full scientific name: Micromonospora trujilloniae Nouioui et al. 2018
synonyms
- @ref: 20215
- synonym: Verrucosispora wenchangensis
@ref: 18037
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Micromonosporaceae
genus: Micromonospora
species: Micromonospora trujilloniae
full scientific name: Micromonospora trujilloniae Nouioui et al. 2018
strain designation: 234402
type strain: yes
Morphology
cell morphology
| @ref | gram stain | confidence | motility |
|---|---|---|---|
| 125439 | positive | 99.8 | |
| 125439 | 91.1 | no | |
| 125438 | 90 | no | |
| 125438 | positive | 90.93 |
multimedia
- @ref: 18037
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_45674.jpg
- caption: Medium 65 28°C
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 18037 | 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 |
| 18037 | GPHF-MEDIUM (DSMZ Medium 553) | yes | https://mediadive.dsmz.de/medium/553 | Name: GPHF-MEDIUM (DSMZ Medium 553) Composition: Agar 20.0 g/l Glucose 10.0 g/l Beef extract 5.0 g/l Yeast extract 5.0 g/l Casein peptone 5.0 g/l CaCl2 x 2 H2O 0.74 g/l Distilled water |
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 18037 | positive | growth | 28 |
| 67770 | positive | growth | 28 |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 125438 | aerobe | 90.973 |
| 125439 | obligate aerobe | 99.3 |
spore formation
- @ref: 125438
- spore formation: yes
- confidence: 90.402
observation
- @ref: 67770
- observation: quinones: MK-9(H4), MK-9(H6), MK-9(H8)
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent | latitude | longitude |
|---|---|---|---|---|---|---|---|
| 18037 | mangrove soil | Hainan, Wenchang (N19°36.506', E110°47.746') | China | CHN | Asia | 19.6084 | 110.796 |
| 67770 | Mangrove soil in Wenchang | Hainan Province | China | CHN | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Mangrove |
| #Environmental | #Terrestrial | #Soil |
taxonmaps
- @ref: 69479
- File name: preview.99_4596.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_94;96_404;97_2781;98_3452;99_4596&stattab=map
- Last taxonomy: Micromonospora
- 16S sequence: HQ123435
- Sequence Identity:
- Total samples: 449
- soil counts: 308
- aquatic counts: 47
- animal counts: 71
- plant counts: 23
Safety information
risk assessment
- @ref: 18037
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 18037
- description: Verrucosispora wenchangensis strain 234402 16S ribosomal RNA gene, partial sequence
- accession: HQ123435
- length: 1475
- database: nuccore
- NCBI tax ID: 879618
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Micromonospora andamanensis NBRC 110790 | GCA_016863595 | contig | ncbi | 1287068 |
| 66792 | Micromonospora trujilloniae strain NBRC 110790 | 879618.3 | wgs | patric | 879618 |
GC content
- @ref: 18037
- GC-content: 69.2
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 90.93 | no |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 95.319 | no |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 90.973 | no |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 90.402 | no |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 91.478 | no |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | no | 90 | no |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | yes | 89.6 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | no | 91.1 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | positive | 99.8 | |
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | obligate aerobe | 99.3 |
External links
@ref: 18037
culture collection no.: DSM 45674, CCTCC AA 2011018, JCM 31041, NBRC 110790
straininfo link
- @ref: 77464
- straininfo: 403745
literature
- topic: Phylogeny
- Pubmed-ID: 22331447
- title: Verrucosispora wenchangensis sp. nov., isolated from mangrove soil.
- authors: Xie QY, Lin HP, Li L, Brown R, Goodfellow M, Deng Z, Hong K
- journal: Antonie Van Leeuwenhoek
- DOI: 10.1007/s10482-012-9707-1
- year: 2012
- mesh: Base Composition, Carbohydrates/analysis, Cell Wall/chemistry, China, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Micromonosporaceae/chemistry/*classification/genetics/*isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analysis
- topic2: Genetics
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 18037 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45674) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-45674 | |
| 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 | |
| 77464 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID403745.1 | StrainInfo: A central database for resolving microbial strain identifiers | |
| 125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann | 10.1101/2024.08.12.607695 | Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets | |
| 125439 | Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy | https://github.com/GenomeNet/deepG | deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 |