Strain identifier
BacDive ID: 141148
Type strain:
Species: Bradyrhizobium namibiense
Strain Designation: 5-10
NCBI tax ID(s): 1549938 (species)
General
@ref: 44069
BacDive-ID: 141148
DSM-Number: 100300
keywords: 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, rod-shaped, colony-forming
description: Bradyrhizobium namibiense 5-10 is an aerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from effective nodule of Lablab purpureus.
NCBI tax id
- NCBI tax id: 1549938
- Matching level: species
doi: 10.13145/bacdive141148.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Hyphomicrobiales
- family: Nitrobacteraceae
- genus: Bradyrhizobium
- species: Bradyrhizobium namibiense
- full scientific name: Bradyrhizobium namibiense Grönemeyer et al. 2017
@ref: 44069
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Hyphomicrobiales
family: Bradyrhizobiaceae
genus: Bradyrhizobium
species: Bradyrhizobium namibiense
strain designation: 5-10
type strain: yes
Morphology
cell morphology
- @ref: 44069
- gram stain: negative
- cell length: 2-3 µm
- cell width: 0.7 µm
- cell shape: rod-shaped
- motility: yes
colony morphology
- @ref: 44069
- colony size: 0.2 mm
- colony color: beige-whitish
- colony shape: circular
- incubation period: 8 days
- medium used: YMA
Culture and growth conditions
culture medium
@ref | name | growth |
---|---|---|
44069 | LB (Luria-Bertani) MEDIUM | no |
44069 | MAG | yes |
44069 | YMA | yes |
44069 | YMB | yes |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
44069 | positive | growth | 35 | mesophilic |
44069 | positive | optimum | 28-32 | mesophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
44069 | positive | growth | 5.5-9 | alkaliphile |
44069 | positive | optimum | 6.6 |
Physiology and metabolism
oxygen tolerance
- @ref: 44069
- oxygen tolerance: aerobe
spore formation
- @ref: 44069
- spore formation: no
halophily
- @ref: 44069
- salt: NaCl
- growth: no
- tested relation: growth
- concentration: 1 %(w/v)
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
44069 | 62064 | 2,3-butanediol | - | growth |
44069 | 18240 | 4-hydroxy-L-proline | - | growth |
44069 | 15963 | ribitol | - | growth |
44069 | 40585 | alpha-cyclodextrin | - | growth |
44069 | 17057 | cellobiose | - | growth |
44069 | 16383 | cis-aconitate | - | growth |
44069 | 16947 | citrate | - | growth |
44069 | 18333 | D-arabitol | - | growth |
44069 | 17784 | D-glucosaminic acid | - | growth |
44069 | 14314 | D-glucose 6-phosphate | - | growth |
44069 | 15748 | D-glucuronate | - | growth |
44069 | 16899 | D-mannitol | - | growth |
44069 | 16024 | D-mannose | - | growth |
44069 | 27605 | D-psicose | - | growth |
44069 | 16523 | D-serine | - | growth |
44069 | 17924 | D-sorbitol | - | growth |
44069 | 17126 | DL-carnitine | - | growth |
44069 | 17113 | erythritol | - | growth |
44069 | 16000 | ethanolamine | - | growth |
44069 | 16865 | gamma-aminobutyric acid | - | growth |
44069 | 28066 | gentiobiose | - | growth |
44069 | 29042 | glucose 1-phosphate | - | growth |
44069 | 28087 | glycogen | - | growth |
44069 | 17596 | inosine | - | growth |
44069 | 17268 | myo-inositol | - | growth |
44069 | 73786 | L-alanylglycine | - | growth |
44069 | 17196 | L-asparagine | - | growth |
44069 | 29991 | L-aspartate | - | growth |
44069 | 15971 | L-histidine | - | growth |
44069 | 15729 | L-ornithine | - | growth |
44069 | 62345 | L-rhamnose | - | growth |
44069 | 17115 | L-serine | - | growth |
44069 | 16857 | L-threonine | - | growth |
44069 | 17716 | lactose | - | growth |
44069 | 6359 | lactulose | - | growth |
44069 | 15792 | malonate | - | growth |
44069 | 17306 | maltose | - | growth |
44069 | 28053 | melibiose | - | growth |
44069 | 37657 | methyl D-glucoside | - | growth |
44069 | 28037 | N-acetylgalactosamine | - | growth |
44069 | 506227 | N-acetylglucosamine | - | growth |
44069 | 50048 | phenylethylamine | - | growth |
44069 | 17148 | putrescine | - | growth |
44069 | 16634 | raffinose | - | growth |
44069 | 17992 | sucrose | - | growth |
44069 | 17748 | thymidine | - | growth |
44069 | 27082 | trehalose | - | growth |
44069 | 32528 | turanose | - | growth |
44069 | 16704 | uridine | - | growth |
44069 | 27248 | urocanic acid | - | growth |
44069 | 17151 | xylitol | - | growth |
44069 | 28644 | 2-oxopentanoate | + | assimilation |
44069 | 30089 | acetate | + | assimilation |
44069 | 64552 | 2-hydroxybutyrate | + | assimilation |
44069 | 8295 | beta-hydroxybutyrate | + | assimilation |
44069 | 24996 | lactate | + | assimilation |
44069 | 30849 | L-arabinose | + | assimilation |
44069 | 51850 | methyl pyruvate | + | assimilation |
44069 | 75146 | monomethyl succinate | + | assimilation |
44069 | 17272 | propionate | + | assimilation |
44069 | 41865 | sebacic acid | + | assimilation |
44069 | 53423 | tween 40 | + | assimilation |
44069 | 53426 | tween 80 | + | assimilation |
44069 | 16763 | 2-oxobutanoate | +/- | assimilation |
44069 | 30916 | 2-oxoglutarate | +/- | assimilation |
44069 | 17925 | alpha-D-glucose | +/- | assimilation |
44069 | 12936 | D-galactose | +/- | assimilation |
44069 | 8391 | D-gluconate | +/- | assimilation |
44069 | 65327 | D-xylose | +/- | assimilation |
44069 | 16449 | dl-alanine | +/- | assimilation |
44069 | 15740 | formate | +/- | assimilation |
44069 | 16724 | 4-hydroxybutyrate | +/- | assimilation |
44069 | 29985 | L-glutamate | +/- | assimilation |
44069 | 73784 | glycyl-l-glutamate | +/- | assimilation |
44069 | 143136 | succinamate | +/- | assimilation |
antibiotic resistance
@ref | ChEBI | metabolite | is antibiotic | is sensitive | sensitivity conc. | is resistant | resistance conc. |
---|---|---|---|---|---|---|---|
44069 | 27902 | tetracycline | yes | yes | 15 µg/mL | ||
44069 | 48923 | erythromycin | yes | yes | 50 µg/mL | ||
44069 | 28971 | ampicillin | yes | yes | 50 µg/mL | ||
44069 | 17698 | chloramphenicol | yes | yes | 50 µg/mL | ||
44069 | 6104 | kanamycin | yes | yes | 20 µg/mL | ||
44069 | 17076 | streptomycin | yes | yes | 5 µg/mL |
enzymes
@ref | value | activity | ec |
---|---|---|---|
44069 | alkaline phosphatase | + | 3.1.3.1 |
44069 | esterase (C 4) | + | |
44069 | esterase Lipase (C 8) | + | |
44069 | leucine arylamidase | + | 3.4.11.1 |
44069 | trypsin | + | 3.4.21.4 |
44069 | acid phosphatase | + | 3.1.3.2 |
44069 | naphthol-AS-BI-phosphohydrolase | + | |
44069 | lipase (C 14) | - | |
44069 | valine arylamidase | - | |
44069 | cystine arylamidase | - | 3.4.11.3 |
44069 | alpha-chymotrypsin | - | 3.4.21.1 |
44069 | alpha-galactosidase | - | 3.2.1.22 |
44069 | beta-galactosidase | - | 3.2.1.23 |
44069 | beta-glucuronidase | - | 3.2.1.31 |
44069 | alpha-glucosidase | - | 3.2.1.20 |
44069 | beta-glucosidase | - | 3.2.1.21 |
44069 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
44069 | alpha-mannosidase | - | 3.2.1.24 |
44069 | alpha-fucosidase | - | 3.2.1.51 |
Isolation, sampling and environmental information
isolation
- @ref: 44069
- sample type: effective nodule of Lablab purpureus
- geographic location: Mashare, Kavango region
- country: Namibia
- origin.country: NAM
- continent: Africa
- latitude: -17.8958
- longitude: 20.2124
- enrichment culture: modified arabinose gluconate (MAG) medium
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_843.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_86;96_297;97_582;98_669;99_843&stattab=map
- Last taxonomy: Bradyrhizobium
- 16S sequence: KX661401
- Sequence Identity:
- Total samples: 29181
- soil counts: 14338
- aquatic counts: 4833
- animal counts: 6732
- plant counts: 3278
Sequence information
16S sequences
- @ref: 44069
- description: 16S rRNA gene sequence
- accession: KX661401
- database: nuccore
GC content
- @ref: 44069
- GC-content: 63.3
- method: high performance liquid chromatography (HPLC)
External links
@ref: 44069
culture collection no.: LMG 28789, DSM 100300, NTCCM 0017
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 29034855 | Bradyrhizobium namibiense sp. nov., a symbiotic nitrogen-fixing bacterium from root nodules of Lablab purpureus, hyacinth bean, in Namibia. | Gronemeyer JL, Bunger W, Reinhold-Hurek B | Int J Syst Evol Microbiol | 10.1099/ijsem.0.002039 | 2017 | Bacterial Typing Techniques, Bradyrhizobium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fabaceae/*microbiology, Genes, Bacterial, Namibia, *Nitrogen Fixation, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Root Nodules, Plant/*microbiology, Sequence Analysis, DNA, Symbiosis | Transcriptome |
33584615 | Root Nodule Rhizobia From Undomesticated Shrubs of the Dry Woodlands of Southern Africa Can Nodulate Angolan Teak Pterocarpus angolensis, an Important Source of Timber. | Bunger W, Sarkar A, Gronemeyer JL, Zielinski J, Revermann R, Hurek T, Reinhold-Hurek B | Front Microbiol | 10.3389/fmicb.2021.611704 | 2021 |
Reference
@id | authors | title | doi/url | journal | pubmed |
---|---|---|---|---|---|
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 | ||
44069 | Jann Lasse Grönemeyer, Wiebke Bünger and Barbara Reinhold-Hurek | Bradyrhizobium namibiense sp. nov., a symbiotic nitrogen-fixing bacterium from root nodules of Lablab purpureus, hyacinth bean, in Namibia | 10.1099/ijsem.0.002039 | IJSEM 67: 4884-4891 2017 | 29034855 |
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/ |