Strain identifier
BacDive ID: 1570
Type strain:
Species: Natribacillus halophilus
Strain Designation: HN30
Strain history: A. Echigo HN30.
NCBI tax ID(s): 549003 (species)
General
@ref: 15937
BacDive-ID: 1570
DSM-Number: 21771
keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, mesophilic, Gram-positive, motile, rod-shaped
description: Natribacillus halophilus HN30 is an aerobe, spore-forming, mesophilic bacterium that was isolated from ordinary, non-saline garden soil.
NCBI tax id
- NCBI tax id: 549003
- Matching level: species
strain history
@ref | history |
---|---|
15937 | <- A. Echigo, Toyo Univ., Bio-Nano Electronics Res. Ctr., Kawago, Saitama, Japan; HN30 |
67770 | A. Echigo HN30. |
doi: 10.13145/bacdive1570.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Bacilli
- order: Caryophanales
- family: Bacillaceae
- genus: Natribacillus
- species: Natribacillus halophilus
- full scientific name: Natribacillus halophilus Echigo et al. 2012
@ref: 15937
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Bacillales
family: Bacillaceae
genus: Natribacillus
species: Natribacillus halophilus
full scientific name: Natribacillus halophilus Echigo et al. 2012
strain designation: HN30
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell width | cell shape | motility | confidence |
---|---|---|---|---|---|---|
30028 | positive | 3.0-5.0 µm | 1.0-1.5 µm | rod-shaped | yes | |
69480 | positive | 100 |
pigmentation
- @ref: 30028
- production: yes
Culture and growth conditions
culture medium
- @ref: 15937
- name: HALOBACTERIA MEDIUM (DSMZ Medium 372)
- growth: yes
- link: https://mediadive.dsmz.de/medium/372
- composition: Name: HALOBACTERIA MEDIUM (DSMZ Medium 372; with strain-specific modifications) Composition: NaCl 100.0 g/l MgSO4 x 7 H2O 20.0 g/l Agar 20.0 g/l Yeast extract 5.0 g/l Casamino acids 5.0 g/l Na3-citrate 3.0 g/l KCl 2.0 g/l Na glutamate 1.0 g/l FeCl2 x 4 H2O 0.036 g/l MnCl2 x 4 H2O 0.00036 g/l Distilled water
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
15937 | positive | growth | 35 | mesophilic |
30028 | positive | growth | 20-40 | |
30028 | positive | optimum | 30 | mesophilic |
67770 | positive | growth | 37 | mesophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
30028 | positive | growth | 6.5-10.0 | alkaliphile |
30028 | positive | optimum | 8.0-8.5 |
Physiology and metabolism
oxygen tolerance
- @ref: 30028
- oxygen tolerance: aerobe
spore formation
@ref | spore formation | confidence |
---|---|---|
30028 | yes | |
69480 | yes | 99.714 |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
30028 | NaCl | positive | growth | 7-23 % |
30028 | NaCl | positive | optimum | 10-15 % |
observation
- @ref: 67770
- observation: quinones: MK-7
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
30028 | 29864 | mannitol | + | carbon source |
30028 | 16634 | raffinose | + | carbon source |
30028 | 30911 | sorbitol | + | carbon source |
30028 | 17992 | sucrose | + | carbon source |
30028 | 27082 | trehalose | + | carbon source |
enzymes
@ref | value | activity | ec |
---|---|---|---|
30028 | catalase | + | 1.11.1.6 |
30028 | gelatinase | + | |
30028 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
15937 | ordinary, non-saline garden soil | Saitama, Okabe City | Japan | JPN | Asia |
67770 | Garden soil in Okibe City | Saitama Pref. | Japan | JPN | Asia |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Engineered | #Agriculture | #Garden |
#Environmental | #Terrestrial | #Soil |
Safety information
risk assessment
- @ref: 15937
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 15937
- description: Natribacillus halophilus gene for 16S rRNA, partial sequence
- accession: AB449109
- length: 1557
- database: ena
- NCBI tax ID: 549003
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Natribacillus halophilus strain DSM 21771 | 549003.4 | wgs | patric | 549003 |
66792 | Natribacillus halophilus DSM 21771 | 2634166325 | draft | img | 549003 |
67770 | Natribacillus halophilus DSM 21771 | GCA_900100185 | scaffold | ncbi | 549003 |
GC content
@ref | GC-content | method |
---|---|---|
15937 | 47 | high performance liquid chromatography (HPLC) |
30028 | 47 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | yes | 61 | no |
gram-positive | yes | 90.081 | yes |
anaerobic | no | 98.435 | yes |
halophile | yes | 94.258 | yes |
spore-forming | yes | 93.275 | yes |
glucose-util | yes | 88.249 | no |
thermophile | no | 95.587 | yes |
aerobic | yes | 91.009 | yes |
motile | yes | 80.118 | no |
flagellated | no | 60.546 | no |
glucose-ferment | no | 90.002 | no |
External links
@ref: 15937
culture collection no.: DSM 21771, JCM 15649
straininfo link
- @ref: 71215
- straininfo: 407591
literature
- topic: Phylogeny
- Pubmed-ID: 21398507
- title: Natribacillus halophilus gen. nov., sp. nov., a moderately halophilic and alkalitolerant bacterium isolated from soil.
- authors: Echigo A, Minegishi H, Shimane Y, Kamekura M, Usami R
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.028506-0
- year: 2011
- mesh: Bacillaceae/*classification/genetics/isolation & purification/*physiology, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Genes, rRNA, Hydrogen-Ion Concentration, Lipids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Sodium Chloride/pharmacology, *Soil Microbiology, Species Specificity
- topic2: Genetics
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed | journal |
---|---|---|---|---|---|---|---|
15937 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21771) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-21771 | ||||
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 | ||||
30028 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 26392 | 28776041 | ||
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) | ||||
66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 33211880 | Nucleic Acids Res. 49: D498-D508 2020 | ||
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) | ||||
71215 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID407591.1 | StrainInfo: A central database for resolving microbial strain identifiers |