Strain identifier
BacDive ID: 133792
Type strain: 
Species: Herbidospora mongoliensis
Strain Designation: MN08-A0118
NCBI tax ID(s): 688067 (species)
version 8.1 (current version)
General
@ref: 30517
BacDive-ID: 133792
keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, mesophilic, Gram-positive
description: Herbidospora mongoliensis MN08-A0118 is an aerobe, spore-forming, mesophilic bacterium that was isolated from soil.
NCBI tax id
- NCBI tax id: 688067
- Matching level: species
doi: 10.13145/bacdive133792.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Streptosporangiales
- family: Streptosporangiaceae
- genus: Herbidospora
- species: Herbidospora mongoliensis
- full scientific name: Herbidospora mongoliensis Ara et al. 2012
@ref: 30517
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Streptosporangiales
family: Streptosporangiaceae
genus: Herbidospora
species: Herbidospora mongoliensis
strain designation: MN08-A0118
type strain: yes
Morphology
cell morphology
- @ref: 30517
- gram stain: positive
pigmentation
- @ref: 30517
- production: no
Culture and growth conditions
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 30517 | positive | growth | 25-30 | mesophilic |
| 30517 | positive | optimum | 27.5 | mesophilic |
culture pH
- @ref: 30517
- ability: positive
- type: growth
- pH: 06-09
- PH range: alkaliphile
Physiology and metabolism
oxygen tolerance
- @ref: 30517
- oxygen tolerance: aerobe
spore formation
- @ref: 30517
- spore formation: yes
halophily
- @ref: 30517
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: <1 %
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 30517 | 17234 | glucose | + | carbon source |
| 30517 | 28087 | glycogen | + | carbon source |
| 30517 | 17716 | lactose | + | carbon source |
| 30517 | 17306 | maltose | + | carbon source |
| 30517 | 29864 | mannitol | + | carbon source |
| 30517 | 17992 | sucrose | + | carbon source |
| 30517 | 18222 | xylose | + | carbon source |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 30517 | acid phosphatase | + | 3.1.3.2 |
| 30517 | alkaline phosphatase | + | 3.1.3.1 |
| 30517 | catalase | + | 1.11.1.6 |
Isolation, sampling and environmental information
isolation
- @ref: 30517
- sample type: soil
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
taxonmaps
- @ref: 69479
- File name: preview.99_3159.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_239;96_910;97_1196;98_2423;99_3159&stattab=map
- Last taxonomy: Herbidospora mongoliensis subclade
- 16S sequence: AB530492
- Sequence Identity:
- Total samples: 152
- soil counts: 106
- aquatic counts: 8
- animal counts: 5
- plant counts: 33
Sequence information
16S sequences
- @ref: 30517
- description: Herbidospora mongoliensis gene for 16S rRNA, partial sequence
- accession: AB530492
- length: 1463
- database: nuccore
- NCBI tax ID: 688067
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Herbidospora mongoliensis NBRC 105882 | GCA_001570545 | scaffold | ncbi | 688067 |
| 66792 | Herbidospora mongoliensis strain NBRC 105882 | 688067.3 | wgs | patric | 688067 |
| 66792 | Herbidospora mongoliensis NBRC 105882 | 2724679241 | draft | img | 688067 |
GC content
- @ref: 30517
- GC-content: 69.5
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| flagellated | no | 98.158 | no |
| gram-positive | yes | 89.971 | yes |
| anaerobic | no | 99.127 | yes |
| aerobic | yes | 93.571 | no |
| halophile | no | 94.031 | no |
| spore-forming | yes | 95.498 | yes |
| thermophile | no | 99.118 | yes |
| glucose-util | yes | 88.527 | yes |
| motile | no | 92.25 | no |
| glucose-ferment | no | 92.44 | no |
External links
@ref: 30517
culture collection no.: NBRC 105882, VTCC D9-22
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 22140157 | Herbidospora mongoliensis sp. nov., isolated from soil, and reclassification of Herbidospora osyris and Streptosporangium claviforme as synonyms of Herbidospora cretacea. | Ara I, Tsetseg B, Daram D, Suto M, Ando K | Int J Syst Evol Microbiol | 10.1099/ijs.0.037861-0 | 2011 | Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology | Genetics |
| Phylogeny | 26452464 | Genome-based analysis of non-ribosomal peptide synthetase and type-I polyketide synthase gene clusters in all type strains of the genus Herbidospora. | Komaki H, Ichikawa N, Oguchi A, Hamada M, Tamura T, Fujita N | BMC Res Notes | 10.1186/s13104-015-1526-9 | 2015 | Base Sequence, Conserved Sequence/genetics, Evolution, Molecular, *Genome, Bacterial, *Multigene Family, Open Reading Frames/genetics, Peptide Synthases/*genetics, Phylogeny, Polyketide Synthases/*genetics, Polyketides/chemistry, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species Specificity, Streptomyces/*enzymology/*genetics | Genetics |
Reference
| @id | authors | title | doi/url | ID_cross_reference | pubmed |
|---|---|---|---|---|---|
| 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 | ||
| 30517 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 10.1128/mSphere.00237-17 | 26849 | 28776041 |
| 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 | ||
| 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/ |