Allorhodoferax aquaticusTs


Citation

Formal styling
Allorhodoferax aquaticusTs Salcher et al., 2025
Effective publication
Salcher et al., 2025
SeqCode status
Valid (SeqCode)
Register List
seqco.de/r:opjv7zsc (validated)
Canonical URL
https://seqco.de/i:48704

Nomenclature

Rank
Species
Syllabication
a.qua'ti.cus
Etymology
L. masc. adj. aquaticus, living, growing, or found in or by the water, aquatic
Nomenclatural type
NCBI Assembly: GCA_965194715.1
Reference strain
Strain sc|0038967: MsE-M22 Lookup StrainInfo
Nomenclatural status
Validly published under the SeqCode

Taxonomy

Description
Type strain is Allorhodoferax aquaticus MsE-M22 (GCA_965194715.1), isolated from 5 m depth from Lake Most, Czechia (date: 2019-07-30), via high-throughput dilution to extinction cultivation. MsE-M22 has a genome size of 3.7 Mbp with a genomic GC content of 59.3%, contains 6 rRNA genes and 47 tRNAs. The genome is complete, consisting of a circular chromosome. Genes for flagellar and pilus assembly were annotated. Pathways for nitrate reduction, cyanate and urea degradation, glycolate oxidation and the biosynthesis of all amino acids except for aspartate were predicted. Further, pathways for thiamine, riboflavin, NAD, coenzyme A, THF, cobalamin, and heme biosynthesis were identified. The closest cultivated relative is Curvibacter sp. AEP1-3 (GCF_002163715.1), with an average amino acid identity of 90.7% and average nucleotide identity of 86.6%. Current GTDB classification (R220): d__Bacteria; p__Pseudomonadota; c__Gammaproteobacteria; o__Burkholderiales; f__Burkholderiaceae; g__Rhodoferax_C; s__Rhodoferax_C sp027488985.
Classification
Bacteria » Pseudomonadota » Betaproteobacteria » Burkholderiales » Comamonadaceae » Allorhodoferax » Allorhodoferax aquaticusTs
Parent
Allorhodoferax

Genomics

Accession
NCBI Assembly:GCA_965194715.1
Cultures
Strain sc|0038967
Type
Isolate Genome
Estimated Quality Metrics
  • Completeness: 100.0%
  • Contamination: 0.84%
  • Quality: 95.8
Ribosomal and transfer RNA genes
  • 2 16S rRNAs (up to 100.0%)
  • 2 23S rRNAs (up to 100.0%)
  • tRNAs for 20 amino acids
Sequencing depth
377.6 ×
Source
Other features
  • G+C Content: 59.2%
  • Coding Density: 92.48%
  • Codon Table: 11
  • N50: 3,748,739 bp
  • Contigs: 1
  • Largest Contig: 3,748,739 bp
  • Assembly Length: 3,748,739 bp
  • Ambiguous Assembly Fraction: 0.0%
Submitter comments
Genome of a culture that was harvested by filtration on 0.22 µm filters; DNA was extracted with the Quiagen MagAttract HMW DNA kit. Sequencing was done with Illuminia Novaseq 6000, trimming of reads with BBMap v36.x, assembly with SPAdes v3.12.0. The genome was manually curated to a circular chromosome in Geneious 10 by repeated rounds of read mapping. Completeness and contamination were assessed with CheckM.
Automated checks
Complete

Last modified 6 months ago

Metadata

Outside links and data sources
Search sequences
Local history
Registered
Over 1 year ago by Layoun, Paul
Submitted
7 months ago by Layoun, Paul
Curators
Endorsed
5 months ago by Rodriguez-R, Luis M
Validated
3 months ago by Valero Tebar, Juan
Date of priority
2025-08-28 03:27 PM (UTC)

Publications
1

Citation Title
Salcher et al., 2025, Nature Communications Bringing the uncultivated microbial majority of freshwater ecosystems into culture
Effective publication



© 2022-2025 The SeqCode Initiative
  All information contributed to the SeqCode Registry is released under the terms of the Creative Commons Attribution (CC BY) 4.0 license
seqco.de/r:opjv7zsc