Strain identifier
BacDive ID: 130258
Type strain:
Species: Diaphorobacter ruginosibacter
Strain Designation: BN30
Strain history: <- G. H. Wei, Northwest A&F Univ., Yangling, Shaanxi, China; BN30 <- X. L. Wei
NCBI tax ID(s): 1715720 (species)
General
@ref: 21575
BacDive-ID: 130258
DSM-Number: 27467
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Diaphorobacter ruginosibacter BN30 is a mesophilic, Gram-negative bacterium that was isolated from root nodule of soybean.
NCBI tax id
- NCBI tax id: 1715720
- Matching level: species
strain history
- @ref: 21575
- history: <- G. H. Wei, Northwest A&F Univ., Yangling, Shaanxi, China; BN30 <- X. L. Wei
doi: 10.13145/bacdive130258.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Burkholderiales
- family: Comamonadaceae
- genus: Diaphorobacter
- species: Diaphorobacter ruginosibacter
- full scientific name: Diaphorobacter ruginosibacter Wei et al. 2015
@ref: 21575
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Burkholderiales
family: Comamonadaceae
genus: Diaphorobacter
species: Diaphorobacter ruginosibacter
full scientific name: Diaphorobacter ruginosibacter Wei et al. 2015
strain designation: BN30
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 100
multimedia
- @ref: 21575
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_27467.jpg
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
- @ref: 21575
- name: REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1a
- composition: Name: REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
culture temp
- @ref: 21575
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Physiology and metabolism
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.998 |
Isolation, sampling and environmental information
isolation
- @ref: 21575
- sample type: root nodule of soybean
- geographic location: Shaanxi province, suburb of Baoji City (107°9'38.3''E, 34°22'30.3''N)
- country: China
- origin.country: CHN
- continent: Asia
- latitude: 34.3751
- longitude: 107.161
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host | #Plants | #Herbaceous plants (Grass,Crops) |
#Host Body-Site | #Plant | #Root nodule |
taxonmaps
- @ref: 69479
- File name: preview.99_48649.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_1;96_3532;97_16370;98_35035;99_48649&stattab=map
- Last taxonomy: Comamonadaceae
- 16S sequence: KC825337
- Sequence Identity:
- Total samples: 235
- soil counts: 57
- aquatic counts: 110
- animal counts: 35
- plant counts: 33
Sequence information
16S sequences
- @ref: 21575
- description: Comamonadaceae bacterium BN30 16S ribosomal RNA gene, partial sequence
- accession: KC825337
- length: 1349
- database: ena
- NCBI tax ID: 1352536
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Diaphorobacter ruginosibacter DSM 27467 | GCA_014395975 | complete | ncbi | 1715720 |
66792 | Diaphorobacter ruginosibacter strain DSM 27467 | 1715720.3 | complete | patric | 1715720 |
66792 | Diaphorobacter ruginosibacter DSM 27467 | 2894023352 | complete | img | 1715720 |
GC content
- @ref: 21575
- GC-content: 65.2
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
flagellated | no | 79.618 | no |
gram-positive | no | 98.69 | no |
anaerobic | no | 99.08 | no |
aerobic | yes | 96.176 | no |
halophile | no | 94.94 | no |
spore-forming | no | 93.994 | no |
thermophile | no | 98.884 | no |
glucose-util | no | 69.893 | no |
motile | no | 62.512 | no |
glucose-ferment | no | 90.69 | no |
External links
@ref: 21575
culture collection no.: DSM 27467, ACCC 06116
literature
- topic: Phylogeny
- Pubmed-ID: 25763990
- title: Diaphorobacter ruginosibacter sp. nov., isolated from soybean root nodule, and emended description of the genus Diaphorobacter.
- authors: Wei XL, Han MS, Xia CC, Ding SL, Xu L, Lin YB, Wang L, Wei GH
- journal: Arch Microbiol
- DOI: 10.1007/s00203-015-1102-7
- year: 2015
- mesh: Bacterial Typing Techniques, Base Composition, Comamonadaceae/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/analysis, Phylogeny, Quinones, RNA, Ribosomal, 16S/genetics, Root Nodules, Plant/*microbiology, Sequence Analysis, DNA, Sodium Chloride, Soybeans/*microbiology
- topic2: Transcriptome
Reference
@id | authors | title | doi/url | catalogue |
---|---|---|---|---|
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 | |
21575 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-27467 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 27467) | |
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/ | |
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 |