Strain identifier
BacDive ID: 1665
Type strain: 
Species: Beijerinckia indica
Strain history: <- NCIB <- C.B. van Niel
NCBI tax ID(s): 533 (species)
version 8.1 (current version)
General
@ref: 872
BacDive-ID: 1665
DSM-Number: 1715
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Beijerinckia indica DSM 1715 is a mesophilic, Gram-negative bacterium of the family Beijerinckiaceae.
NCBI tax id
- NCBI tax id: 533
- Matching level: species
strain history
- @ref: 872
- history: <- NCIB <- C.B. van Niel
doi: 10.13145/bacdive1665.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Hyphomicrobiales
- family: Beijerinckiaceae
- genus: Beijerinckia
- species: Beijerinckia indica
- full scientific name: Beijerinckia indica (Starkey and De 1939) Derx 1950 (Approved Lists 1980)
synonyms
- @ref: 20215
- synonym: Azotobacter indicum
@ref: 872
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Beijerinckiaceae
genus: Beijerinckia
species: Beijerinckia indica
full scientific name: Beijerinckia indica (Starkey and De 1939) Derx 1950
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.996
Culture and growth conditions
culture medium
- @ref: 872
- name: BEIJERINCKIA MEDIUM (DSMZ Medium 111)
- growth: yes
- link: https://mediadive.dsmz.de/medium/111
- composition: Name: BEIJERINCKIA MEDIUM (DSMZ Medium 111) Composition: Agar 15.7895 g/l Glucose 10.5263 g/l K2HPO4 0.842105 g/l KH2PO4 0.210526 g/l MgSO4 x 7 H2O 0.105263 g/l FeSO4 x 7 H2O 0.0210526 g/l ZnSO4 x 6 H2O 0.00526316 g/l Na2MoO4 x 2 H2O 0.00526316 g/l CuSO4 x 6 H2O 0.00421053 g/l MnSO4 x 6 H2O 0.00210526 g/l Distilled water
culture temp
- @ref: 872
- growth: positive
- type: growth
- temperature: 30
- range: mesophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.995 |
Isolation, sampling and environmental information
taxonmaps
- @ref: 69479
- File name: preview.99_4233.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_86;96_841;97_2572;98_3189;99_4233&stattab=map
- Last taxonomy: Beijerinckia
- 16S sequence: AJ563930
- Sequence Identity:
- Total samples: 223
- soil counts: 101
- aquatic counts: 99
- animal counts: 14
- plant counts: 9
Safety information
risk assessment
- @ref: 872
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Beijerinckia indica ribosomal RNA small subunit | M59060 | 1436 | ena | 533 |
| 872 | Beijerinckia indica subsp. indica partial 16S rRNA gene, strain ATCC 9039 | AJ563930 | 1411 | ena | 395963 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Beijerinckia indica subsp. indica ATCC 9039 | GCA_000019845 | complete | ncbi | 395963 |
| 66792 | Beijerinckia indica subsp. indica ATCC 9039 | 395963.13 | complete | patric | 395963 |
| 66792 | Beijerinckia indica subsp. indica ATCC 9039 | 395963.24 | plasmid | patric | 395963 |
| 66792 | Beijerinckia indica subsp. indica ATCC 9039 | 395963.23 | plasmid | patric | 395963 |
| 66792 | Beijerinckia indica indica ATCC 9039 | 641522606 | complete | img | 395963 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | yes | 71.43 | no |
| flagellated | no | 82.161 | no |
| gram-positive | no | 96.691 | no |
| anaerobic | no | 98.053 | no |
| aerobic | yes | 89.606 | no |
| halophile | no | 95.113 | no |
| spore-forming | no | 89.405 | no |
| thermophile | no | 94.237 | yes |
| glucose-util | yes | 87.454 | no |
| glucose-ferment | no | 91.023 | no |
External links
@ref: 872
culture collection no.: DSM 1715, ATCC 9039, NCIB 8712
straininfo link
- @ref: 71312
- straininfo: 1222
literature
- topic: Phylogeny
- Pubmed-ID: 13130000
- title: Methylocella silvestris sp. nov., a novel methanotroph isolated from an acidic forest cambisol.
- authors: Dunfield PF, Khmelenina VN, Suzina NE, Trotsenko YA, Dedysh SN
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.02481-0
- year: 2003
- mesh: Beijerinckiaceae/classification/genetics/*isolation & purification/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/analysis, Genes, Bacterial, Germany, Methane/metabolism, Microscopy, Electron, Molecular Sequence Data, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Soil Microbiology
- topic2: Metabolism
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 872 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 1715) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-1715 | |||
| 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) | |||
| 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 | |||
| 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 | |||
| 71312 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID1222.1 | StrainInfo: A central database for resolving microbial strain identifiers |