Strain identifier
BacDive ID: 1817
Type strain: 
Species: Bradyrhizobium cytisi
Strain Designation: CTAW11
Strain history: <- A. Peix, IRNASA-CSIC, Salamanca, Spain; CTAW11 <- A. Peix Geldart <- R. Chahboune
NCBI tax ID(s): 515489 (species)
version 9.1 (current version)
General
@ref: 17353
BacDive-ID: 1817
DSM-Number: 23720
keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, Gram-negative, rod-shaped
description: Bradyrhizobium cytisi CTAW11 is an obligate aerobe, Gram-negative, rod-shaped bacterium that was isolated from effective nodules of Cytisus villosus.
NCBI tax id
- NCBI tax id: 515489
- Matching level: species
strain history
- @ref: 17353
- history: <- A. Peix, IRNASA-CSIC, Salamanca, Spain; CTAW11 <- A. Peix Geldart <- R. Chahboune
doi: 10.13145/bacdive1817.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Hyphomicrobiales
- family: Nitrobacteraceae
- genus: Bradyrhizobium
- species: Bradyrhizobium cytisi
- full scientific name: Bradyrhizobium cytisi Chahboune et al. 2011
@ref: 17353
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Nitrobacteraceae
genus: Bradyrhizobium
species: Bradyrhizobium cytisi
full scientific name: Bradyrhizobium cytisi Chahboune et al. 2011
strain designation: CTAW11
type strain: yes
Morphology
cell morphology
| @ref | gram stain | cell shape | confidence |
|---|---|---|---|
| 23331 | negative | rod-shaped | |
| 69480 | negative | 97.269 |
colony morphology
- @ref: 23331
- colony size: <1 mm
- incubation period: 7 days
- medium used: YMA
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 17353 | MODIFIED YMA MEDIUM (DSMZ Medium 1334) | yes | https://mediadive.dsmz.de/medium/1334 | Name: MODIFIED YMA MEDIUM (DSMZ Medium 1334) Composition: Agar 15.0 g/l Mannitol 7.0 g/l Yeast extract 0.5 g/l MgSO4 x 7 H2O 0.2 g/l K2HPO4 0.2 g/l Distilled water |
| 23331 | YMA | yes |
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 17353 | positive | growth | 25 |
| 23331 | positive | growth | 28 |
| 23331 | no | growth | 4 |
| 23331 | no | growth | 37 |
culture pH
- @ref: 23331
- ability: positive
- type: growth
- pH: 6.0-8.0
Physiology and metabolism
oxygen tolerance
- @ref: 23331
- oxygen tolerance: obligate aerobe
halophily
- @ref: 23331
- salt: NaCl
- growth: no
- tested relation: growth
- concentration: 0.25 %
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 23331 | 15963 | ribitol | - | builds acid from |
| 23331 | 12936 | D-galactose | - | builds acid from |
| 23331 | 17750 | betaine | - | builds base from |
| 23331 | 17203 | L-proline | - | builds base from |
| 23331 | 17115 | L-serine | - | builds base from |
| 23331 | 15361 | pyruvate | - | builds base from |
| 23331 | 27689 | decanoate | - | carbon source |
| 23331 | 17057 | cellobiose | - | carbon source |
| 23331 | 16813 | galactitol | - | carbon source |
| 23331 | 62345 | L-rhamnose | - | carbon source |
| 23331 | 17266 | L-sorbose | - | carbon source |
| 23331 | 17716 | lactose | - | carbon source |
| 23331 | 17306 | maltose | - | carbon source |
| 23331 | 18401 | phenylacetate | - | carbon source |
| 23331 | 16634 | raffinose | - | carbon source |
| 23331 | 17992 | sucrose | - | carbon source |
| 23331 | 27082 | trehalose | - | carbon source |
| 23331 | 15428 | glycine | - | nitrogen source |
| 23331 | 15611 | sarcosine | - | nitrogen source |
| 23331 | 17632 | nitrate | - | reduction |
| 23331 | 17108 | D-arabinose | + | builds acid from |
| 23331 | 15824 | D-fructose | + | builds acid from |
| 23331 | 17634 | D-glucose | + | builds acid from |
| 23331 | 16024 | D-mannose | + | builds acid from |
| 23331 | 16988 | D-ribose | + | builds acid from |
| 23331 | 65327 | D-xylose | + | builds acid from |
| 23331 | 29991 | L-aspartate | + | builds base from |
| 23331 | 29985 | L-glutamate | + | builds base from |
| 23331 | 17128 | adipate | + | carbon source |
| 23331 | 15963 | ribitol | + | carbon source |
| 23331 | 15824 | D-fructose | + | carbon source |
| 23331 | 12936 | D-galactose | + | carbon source |
| 23331 | 17634 | D-glucose | + | carbon source |
| 23331 | 16024 | D-mannose | + | carbon source |
| 23331 | 16988 | D-ribose | + | carbon source |
| 23331 | 65327 | D-xylose | + | carbon source |
| 23331 | 24265 | gluconate | + | carbon source |
| 23331 | 30849 | L-arabinose | + | carbon source |
| 23331 | 29864 | mannitol | + | carbon source |
| 23331 | 506227 | N-acetylglucosamine | + | carbon source |
| 23331 | 35391 | aspartate | + | nitrogen source |
| 23331 | 17750 | betaine | + | nitrogen source |
| 23331 | 29985 | L-glutamate | + | nitrogen source |
| 23331 | 17203 | L-proline | + | nitrogen source |
| 23331 | 17115 | L-serine | + | nitrogen source |
| 23331 | 29864 | mannitol | +/- | builds acid from |
| 23331 | 16947 | citrate | +/- | carbon source |
| 23331 | 25115 | malate | +/- | carbon source |
| 23331 | 15361 | pyruvate | +/- | carbon source |
| 23331 | 4853 | esculin | +/- | hydrolysis |
antibiotic resistance
| @ref | ChEBI | metabolite | is antibiotic | is resistant | resistance conc. | is sensitive | sensitivity conc. |
|---|---|---|---|---|---|---|---|
| 23331 | 17334 | penicillin | yes | yes | 10 Unit | ||
| 23331 | 8309 | polymyxin b | yes | yes | 300 Unit | ||
| 23331 | 49566 | cloxacillin | yes | yes | 1 µg | ||
| 23331 | 28971 | ampicillin | yes | yes | 2 µg | ||
| 23331 | 48923 | erythromycin | yes | yes | 2 µg | ||
| 23331 | 100241 | ciprofloxacin | yes | yes | 5 µg | ||
| 23331 | 17833 | gentamicin | yes | yes | 10 µg | ||
| 23331 | 3515 | cefuroxime | yes | yes | 30 µg | ||
| 23331 | 27902 | tetracycline | yes | yes | 30 µg | ||
| 23331 | 7507 | neomycin | yes | yes | 5 µg |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 23331 | arginine dihydrolase | - | 3.5.3.6 |
| 23331 | beta-galactosidase | - | 3.2.1.23 |
| 23331 | urease | - | 3.5.1.5 |
Isolation, sampling and environmental information
isolation
- @ref: 17353
- sample type: effective nodules of Cytisus villosus
- host species: Cytisus villosus
- geographic location: Moroquian rif, Awdal region
- country: Morocco
- origin.country: MAR
- continent: Africa
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Plants | #Shrub (Scrub) |
| #Host Body-Site | #Plant | #Root nodule |
taxonmaps
- @ref: 69479
- File name: preview.99_445.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_86;96_297;97_329;98_370;99_445&stattab=map
- Last taxonomy: Bradyrhizobium
- 16S sequence: EU561065
- Sequence Identity:
- Total samples: 12887
- soil counts: 5001
- aquatic counts: 2827
- animal counts: 4320
- plant counts: 739
Safety information
risk assessment
- @ref: 17353
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 17353
- description: Bradyrhizobium cytisi strain CTAW11 from Morocco 16S ribosomal RNA gene, partial sequence
- accession: EU561065
- length: 1516
- database: nuccore
- NCBI tax ID: 515489
Genome sequences
- @ref: 66792
- description: Bradyrhizobium cytisi CTAW11
- accession: GCA_008123515
- assembly level: contig
- database: ncbi
- NCBI tax ID: 515489
GC content
- @ref: 17353
- GC-content: 65.1
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 97.269 | yes |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 92.494 | yes |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 76.64 | no |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 87.11 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 97.488 | yes |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | yes | 75.48 | no |
External links
@ref: 17353
culture collection no.: DSM 23720, CECT 7749, LMG 25866
straininfo link
- @ref: 71463
- straininfo: 47598
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 21257682 | Bradyrhizobium cytisi sp. nov., isolated from effective nodules of Cytisus villosus. | Chahboune R, Carro L, Peix A, Barrijal S, Velazquez E, Bedmar EJ | Int J Syst Evol Microbiol | 10.1099/ijs.0.027649-0 | 2011 | Bacterial Proteins/genetics/metabolism, Bradyrhizobium/*classification/genetics/*isolation & purification/metabolism, Cytisus/*microbiology, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Root Nodules, Plant/*microbiology | Metabolism |
| Phylogeny | 22795906 | Bradyrhizobium rifense sp. nov. isolated from effective nodules of Cytisus villosus grown in the Moroccan Rif. | Chahboune R, Carro L, Peix A, Ramirez-Bahena MH, Barrijal S, Velazquez E, Bedmar EJ | Syst Appl Microbiol | 10.1016/j.syapm.2012.06.001 | 2012 | Bradyrhizobium/*classification/genetics/*isolation & purification, Cytisus/*microbiology, Genes, Bacterial, Molecular Sequence Data, Morocco, Phenotype, Phylogeny, Root Nodules, Plant/microbiology | Genetics |
| Phylogeny | 31027924 | Astragalus algarbiensis is nodulated by the genistearum symbiovar of Bradyrhizobium spp. in Morocco. | Alami S, Lamin H, Bouhnik O, El Faik S, Filali-Maltouf A, Abdelmoumen H, Bedmar EJ, Missbah El Idrissi M | Syst Appl Microbiol | 10.1016/j.syapm.2019.03.004 | 2019 | Astragalus Plant/*microbiology, Biodiversity, Bradyrhizobium/*classification/genetics, Cytisus/microbiology, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Genes, Bacterial/genetics, Genes, Essential/genetics, Morocco, *Phylogeny, Plant Root Nodulation/*genetics, Root Nodules, Plant/microbiology, Sequence Analysis, DNA, *Soil Microbiology, Symbiosis/genetics | Transcriptome |
| Phylogeny | 32897848 | Bradyrhizobium hipponense sp. nov., isolated from Lupinus angustifolius growing in the northern region of Tunisia. | Rejili M, Off K, Brachmann A, Marin M | Int J Syst Evol Microbiol | 10.1099/ijsem.0.004445 | 2020 | Bacterial Typing Techniques, Base Composition, Bradyrhizobium/*classification, DNA, Bacterial/genetics, Genes, Bacterial, Lupinus/*microbiology, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Root Nodules, Plant/*microbiology, Sequence Analysis, DNA, Symbiosis, Tunisia | Transcriptome |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 17353 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23720) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-23720 | |||
| 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 | |||
| 23331 | Rajaa Chahboune, Lorena Carro, Alvaro Peix, Said Barrijal, Encarna Velázquez, Eulogio J. Bedmar | 10.1099/ijs.0.027649-0 | Bradyrhizobium cytisi sp. nov., isolated from effective nodules of Cytisus villosus | IJSEM 61: 2922-2927 2011 | 21257682 | |
| 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) | |||
| 71463 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID47598.1 | StrainInfo: A central database for resolving microbial strain identifiers |