Rhizobium deserti


Citation

Formal styling
Rhizobium deserti Liu et al., 2020 (priority 2025)
Effective publication
Liu et al., 2020
SeqCode status
Valid (SeqCode)
Register List
seqco.de/r:_y_dvys3 (validated)
Canonical URL
https://seqco.de/i:39270 Copy

Nomenclature

Rank
Species
Syllabication
de.ser'ti
Etymology
L. gen. n. deserti, of a desert
Nomenclatural type
NCBI Assembly: GCF_004358025.1
Reference strain
Strain sc|0038881: SPY-1 Lookup StrainInfo
Nomenclatural status
Validly published under the SeqCode

Taxonomy

Description
Cell is gram-negative, aerobic, non-motile, and rod-shaped (0.7–2.0-μm long and 0.3–0.7-μm wide). Colonies are circular with regular margins, convex, milky, and 2–3 mm in diameter after incubation for 48 h on YMA at 30 °C. Grows in the presence of 0–2% (w/v) NaCl (optimum, 0% NaCl) at pH 6.0–9.0 (optimum, 7.0–8.0) and at 15–37 °C (optimum, 30 °C). Positive for nitrate reduction, and catalase and oxidase. Eesculin is hydrolyzed and gelatin is weakly hydrolyzed. Starch and casein are not hydrolyzed. Can assimilate mannose, N-acetyl glucosamine, maltose, and citric acid. Negative for H2S, urease, and indole production and Voges–Proskauer reaction. In the API ZYM system, positive for alkaline phosphatase, esterase (C4), esterase lipase (C8), leucine arylamidase, acid phosphatase, naphthol-AS-BI-phosphohydrolase, and β-glucosidase. The following carbon sources are utilized: dextrin, N-acetyl-d-glucosamine, N-Acetyl-β-d-mannosamine, α-d-glucose, d-mannose, d-fructose, d-galactose, d-fucose, l-fucose, l-rhamnose, d-mannitol, d-arabitol, myo-inositol, glycerol, glycyl-l-proline, l-alanine, l-aspartic acid, l-glutamic acid, d-galacturonic acid, d-gluconic acid, d-glucuronic acid, glucuronamide, α-keto-glutaric acid, d-malic acid, l-malic acid, bromo-succinic acid, Tween 40, β-hydroxy-d, l-butyric acid, acetoacetic acid, and acetic acid. The major cellular fatty acids are summed feature 8 (C18:1ω7c and/or C18:1ω6c) and C16:0. The draft genome is 4.75 Mb in size and the common genes required for legume nodulation, nodACD and nifH, are absent from the genome. The G + C content is 60.0%.
Classification
Bacteria » Pseudomonadota » Alphaproteobacteria » Hyphomicrobiales » Rhizobiaceae » Rhizobium » Rhizobium deserti
Parent
Rhizobium ncbi
Alternative placements

Genomics

Accession
NCBI Assembly:GCF_004358025.1
Cultures
Strain sc|0038881
Type
Isolate Genome
Estimated Quality Metrics
  • Completeness: 98.1%
  • Contamination: 0.9%
  • Quality: 93.6
Ribosomal and transfer RNA genes
  • 1 16S rRNA (up to 100.0%)
  • 1 23S rRNA (up to 100.0%)
  • tRNAs for 20 amino acids
Sequencing depth
100.0 ×
Source
Other features
  • G+C Content: 60.0%
  • Coding Density: 88.26%
  • Codon Table: 11
  • N50: 1,157,938 bp
  • Contigs: 29
  • Largest Contig: 1,341,936 bp
  • Assembly Length: 4,747,674 bp
  • Ambiguous Assembly Fraction: 0.0%
Automated checks
Complete

Last modified about 2 months ago

Metadata

Outside links and data sources
Search sequences
Local history
Registered by
Van Lill, Melandre, created over 1 year ago and claimed about 2 months ago
Submitted by
Van Lill, Melandre about 2 months ago
Curators
Validated by
Rodriguez-R, Luis M about 1 month ago
Date of priority
2025-03-20 05:39 PM (UTC)

Publications
2

Citation Title
Ma et al., 2023, Frontiers in Microbiology Phylogenomic reappraisal of the family Rhizobiaceae at the genus and species levels, including the description of Ectorhizobium quercum gen. nov., sp. nov
Liu et al., 2020, Current Microbiology Rhizobium deserti sp. Nov Isolated from Biological Soil Crusts Collected at Mu Us Sandy Land, China
Effective publication



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