Bradyrhizobium spitzkopense


Citation

Formal styling
Bradyrhizobium spitzkopense Maake et al., 2026
Effective publication
Maake et al., 2026
SeqCode status
Valid (SeqCode)
Register List
seqco.de/r:btxzyjob (validated)
Canonical URL
https://seqco.de/i:46768

Nomenclature

Rank
Species
Syllabication
spitz.ko.pen'se
Etymology
N.L. neut. adj. spitzkopense, pertaining to Spitzkop, the location where the reference strain was isolated
Nomenclatural type
NCBI Assembly: GCA_029989365.1
Reference strain
Strain sc|0038862: Arg816 Lookup StrainInfo
Nomenclatural status
Validly published under the SeqCode

Taxonomy

Description
Cells are gram-negative motile rods ranging from 0.577 to 0.603 µm (in length) to 0.166 to 0.177 µm (in width). Colonies were medium in size, ranging between 1mm and 2mm at 7 days, are circular, opaque, pulvinate, smooth, opaque, and slimy. Colonies also produced an alkaline reaction in YMA with bromothymol blue as an indicator. The reference strain grows at a pH range of 5 to 10, temperature range of 25 to 30 °C, with optimum growth at 25 and 28 °C and tolerates up to 0.5% (wv) NaCl. It is resistant to ampicillin (10 μg), chloramphenicol (50 μg), penicillin (10 μg), and tetracycline (30 μg), and sensitive to kanamycin (30 μg), streptomycin (10 μg), erythromycin (30 μg), gentamicin (10 μg), and neomycin (10 μg). It assimilates L-arginine, Urease, esculin ferric citrate, β-galactosidase, L-arabinose, D-maltose, potassium gluconate, Capric acid, adipic acid, Malic acid, Trisodium citrate, and Phenylacetic acid, but does not assimilate indole, D-glucose, gelatin, D-mannose, D-mannitol, and N-acetyl-glucosamine. It can reduce nitrates to nitrite and nitrogen. In terms of the biology tests, Arg816 was reported negative for Dextrin, D-Maltose, D-Trehalose, D-Cellobiose, Gentiobiose, Sucrose, D-Turanose, Stachyose, D-Raffinose, α-D-Lactose, D-Melibiose, β-Methyl-D-Glucoside, D-Salicin, N-Acetyl-D-Glucosamine, N-Acetyl-β-D-Mannosamine, N-Acetyl-D-Galactosamine, N-Acetyl Neuraminic Acid, D-Fructose, D-Galactose, 3-Methyl Glucose, L-Rhamnose, Inosine, 1% Sodium Lactate, D-Sorbitol, D-Mannitol, D-Arabitol, myo-Inositol, Glycerol, D-Glucose6-PO4, D-Aspartic Acid, D-Serine, Gelatin, Glycyl-L-Proline, L-Alanine, L-Arginine, L-Aspartic Acid, L-Glutamic Acid, L-Pyroglutamic Acid, L-Serine, Niaproof 4, Pectin, D-Gluconic Acid, Quinic Acid, Methyl Pyruvate, D-Lactic Acid Methyl Ester, Citric Acid, Bromo-Succinic Acid, Tween 40, γ-Amino-Butryric Acid, α-Hydroxy-Butyric Acid, α-Keto-Butyric Acid, Propionic Acid, and Sodium Bromate, weakly  positive for α-D-Glucose, D-Mannose, D-Fucose, L-Fucose, Fusidic Acid, D-Serine, D-Fructose6-PO4, Troleandomycin, L-Histidine, Lincomycin, Guanidine HCl, D-Galacturonic Acid, L-Galactonic Acid Lactone, D-Glucuronic Acid, Glucuronamide, Mucic Acid, D-Saccharic Acid, Vancomycin, L-Lactic Acid, α-Keto-Glutaric Acid, L-Malic Acid, Nalidixic Acid, Lithium Chloride, Potassium Tellurite, β-Hydroxy-D, L-Butyric Acid, Acetic Acid, Aztreonam, and Sodium Butyrate, and Positive for Rifamycin SV, Minocycline, Tetrazolium Violet, Tetrazolium Blue, p-Hydroxy-Phenylacetic Acid, D-Malic Acid, Acetoacetic Acid, and Formic Acid. The GC content for Arg816T was 63.2 mol%. The reference strain possesses nodulation nodABCD1, D2, D3, D4IUSZ, noei, nopAX, nolAUWY, NfeD.
Classification
Bacteria » Pseudomonadota » Alphaproteobacteria » Hyphomicrobiales » Nitrobacteraceae » Bradyrhizobium » Bradyrhizobium spitzkopense
Parent
Bradyrhizobium

Genomics

Accession
NCBI Assembly:GCA_029989365.1
Cultures
Strain sc|0038862
Type
Isolate Genome
Estimated Quality Metrics
  • Completeness: 98.75%
  • Contamination: 0.47%
  • Quality: 96.4
Ribosomal and transfer RNA genes
  • 6 16S rRNAs (up to 100.0%)
  • 4 23S rRNAs (up to 100.0%)
  • tRNAs for 21 amino acids
Sequencing depth
82.48 ×
Source
Other features
  • G+C Content: 63.16%
  • Coding Density: 83.55%
  • Codon Table: 11
  • N50: 344,780 bp
  • Contigs: 277
  • Largest Contig: 1,094,147 bp
  • Assembly Length: 9,704,017 bp
  • Ambiguous Assembly Fraction: 0.0%
Submitter comments
Genome quality assessment obtained using QUAST and MIGA, assembly statistics and read quality with BBTools, checkm2 used for contamination and completeness checks. Number of 16S rRNA and 23rRNA gene fragments and tRNA confirmed through screening NCBI genome annotations
Automated checks
Complete

Last modified 20 days ago

Metadata

Outside links and data sources
Search sequences
Local history
Registered
About 2 years ago by Maake, Mabodiba Masutane
Submitted
Over 1 year ago by Maake, Mabodiba Masutane
Curators
Endorsed
Over 1 year ago by Chuvochina, Maria
Validated
11 days ago by St. John, Emily
Date of priority
2026-08-04 04:29 PM (UTC)

Publications
1

Citation Title
Maake et al., 2026, Molecular Phylogenetics and Evolution Argyrolobium legumes from an African centre of endemism associate with novel Bradyrhizobium species harbouring unique sets of symbiosis genes
Effective publication



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