Allotabrizicola aquaticaTs


Citation

Formal styling
Allotabrizicola aquaticaTs 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:48697

Nomenclature

Rank
Species
Syllabication
a.qua.ti'ca
Etymology
L. fem. adj. aquatica, living or found in the water.
Nomenclatural type
NCBI Assembly: GCA_965194375.1
Reference strain
Strain sc|0038957: RE-M30 Lookup StrainInfo
Nomenclatural status
Validly published under the SeqCode

Taxonomy

Description
Type strain is Allotabrizicola aquatica RE-M30 (GCA_965194375.1), isolated from 0.5 m depth from the Římov Reservoir, Czechia (date: 2019-08-05), via high-throughput dilution to extinction cultivation. RE-M30 has a genome size of 3.6 Mbp with a genomic GC content of 61.9%, contains 6 rRNA genes and 49 tRNAs. The genome is a high-quality draft consisting of 20 contigs. The genome contains genes encoding anoxygenic aerobic phototrophy (pufABLM). Genes for flagellar assembly were annotated in the genome. Pathways for urea and taurine degradation, glycolate oxidation and the biosynthesis of all amino acids were predicted. Further, pathways for riboflavin, pantothenate, coenzyme A, and heme biosynthesis were identified. The closest cultivated relative is Tabrizicola oligotrophica KMS-5 (GCF_011008935.1), with an average amino acid identity of 79.2% and average nucleotide identity of 79.5%. Current GTDB classification (R220): d__Bacteria; p__Pseudomonadota; c__Alphaproteobacteria; o__Rhodobacterales; f__Rhodobacteraceae; g__Tabrizicola_A; s__.
Classification
Bacteria » Pseudomonadota » Alphaproteobacteria » Rhodobacterales » Paracoccaceae » Allotabrizicola » Allotabrizicola aquaticaTs
Parent
Allotabrizicola

Genomics

Accession
NCBI Assembly:GCA_965194375.1
Cultures
Strain sc|0038957
Type
Isolate Genome
Estimated Quality Metrics
  • Completeness: 100.0%
  • Contamination: 0.0%
  • Quality: 100.0
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
412.4 ×
Source
Other features
  • G+C Content: 61.9%
  • Coding Density: 90.37%
  • Codon Table: 11
  • N50: 525,182 bp
  • Contigs: 20
  • Largest Contig: 844,083 bp
  • Assembly Length: 3,572,052 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 polished 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



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