Strain identifier
BacDive ID: 16993
Type strain: 
Species: Actinomadura hallensis
Strain Designation: H647-1
Strain history: IMSNU 50760 <-- S. D. Lee H647-1.
NCBI tax ID(s): 337895 (species)
version 8.1 (current version)
General
@ref: 12270
BacDive-ID: 16993
DSM-Number: 45043
keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic, Gram-positive
description: Actinomadura hallensis H647-1 is a spore-forming, mesophilic, Gram-positive bacterium that was isolated from soil of Mt. Halla.
NCBI tax id
- NCBI tax id: 337895
- Matching level: species
strain history
| @ref | history |
|---|---|
| 12270 | <- S. D. Lee; H647-1 |
| 67770 | IMSNU 50760 <-- S. D. Lee H647-1. |
doi: 10.13145/bacdive16993.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Streptosporangiales
- family: Thermomonosporaceae
- genus: Actinomadura
- species: Actinomadura hallensis
- full scientific name: Actinomadura hallensis Lee and Jeong 2006
@ref: 12270
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Thermomonosporaceae
genus: Actinomadura
species: Actinomadura hallensis
full scientific name: Actinomadura hallensis Lee and Jeong 2006
strain designation: H647-1
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: positive
- confidence: 100
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 12270 | 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 |
| 12270 | TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) | yes | https://mediadive.dsmz.de/medium/535 | Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water |
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 12270 | 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(H6), MK-9(H8)
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 12270 | soil of Mt. Halla | Jeju | Republic of Korea | KOR | Asia |
| 67770 | Soil | Mt. Halla, Jeju Island | Republic of Korea | KOR | Asia |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
Safety information
risk assessment
- @ref: 12270
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 20218
- description: Actinomadura hallensis strain H647-1 16S ribosomal RNA gene, partial sequence
- accession: DQ076484
- length: 1528
- database: ena
- NCBI tax ID: 337895
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Actinomadura hallensis strain DSM 45043 | 337895.3 | wgs | patric | 337895 |
| 66792 | Actinomadura hallensis DSM 45043 | 2818991321 | draft | img | 337895 |
| 67770 | Actinomadura hallensis DSM 45043 | GCA_006716765 | contig | ncbi | 337895 |
GC content
- @ref: 67770
- GC-content: 67.5
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 100 | no |
| gram-positive | yes | 89.95 | no |
| anaerobic | no | 97.948 | no |
| halophile | no | 78.148 | no |
| spore-forming | yes | 88.833 | no |
| glucose-util | yes | 88.207 | no |
| motile | no | 91.949 | no |
| flagellated | no | 98.211 | no |
| thermophile | no | 89.645 | yes |
| aerobic | yes | 84.541 | no |
| glucose-ferment | no | 92.727 | no |
External links
@ref: 12270
culture collection no.: DSM 45043, IMSNU 50760, KCCM 42245, NRRL B-24436, JCM 13882, DSM 44987, NBRC 102110
straininfo link
- @ref: 85995
- straininfo: 265619
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 16403895 | Actinomadura hallensis sp. nov., a novel actinomycete isolated from Mt. Halla in Korea. | Lee SD, Jeong HS | Int J Syst Evol Microbiol | 10.1099/ijs.0.63943-0 | 2006 | Actinomycetales/chemistry/*classification/isolation & purification/physiology, Base Composition, Korea, Molecular Sequence Data, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Homology, Nucleic Acid, *Soil Microbiology, Species Specificity | Genetics |
| Phylogeny | 27117880 | Actinomadura adrarensis sp. nov., an actinobacterium isolated from Saharan soil. | Lahoum A, Bouras N, Verheecke C, Mathieu F, Schumann P, Sproer C, Klenk HP, Sabaou N | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001114 | 2016 | Actinomycetales/*classification/genetics/isolation & purification, Africa, Northern, Algeria, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 12270 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45043) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-45043 | |||
| 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 | |||
| 20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
| 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/ | ||||
| 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 | |||
| 85995 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID265619.1 | StrainInfo: A central database for resolving microbial strain identifiers |