Aquidulcibacter miladensis


Citation

Formal styling
Aquidulcibacter miladensis 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:48727

Nomenclature

Rank
Species
Syllabication
mi.la.den'sis
Etymology
N.L. masc. adj. miladensis, pertaining to Lake Milada (Czechia), the isolation source of the type strain.
Nomenclatural type
NCBI Assembly: GCA_965234355.1
Reference strain
Strain sc|0038952: MiH-15 Lookup StrainInfo
Nomenclatural status
Validly published under the SeqCode

Taxonomy

Description
Type strain is Aquidulcibacter miladensis MiH-15 (GCA_965234355.1), isolated from 15 m depth from Lake Milada, Czechia (date: 2019-07-23), via high-throughput dilution to extinction cultivation. MiH-15 has a genome size of 3.2 Mbp with a genomic GC content of 55.7%, contains 3 rRNA genes and 41 tRNAs. The genome is a high-quality draft consisting of 8 contigs. The genome contains genes encoding anoxygenic aerobic phototrophy (pufABLM). Genes for flagellar assembly and chemotaxis were annotated in the genome. Pathways for taurine degradation, assimilatory sulfate reduction and methane/alkanesulfonate oxidation and the biosynthesis of all amino acids were predicted. Further, pathways for riboflavin, NAD, coenzyme A, pimeloyl-ACP, THF, and heme biosynthesis were identified. The closest cultivated relatives are Aquidulcibacter paucihalophilus TH1-2 (GCF_002105465.1) with an average amino acid identity of 87.1% and average nucleotide identity of 80.5% and another newly proposed species, Aquidulcibacter rimovensis RH-10 (GCA_965234525.1), with an AAI of 93.2% and an ANI of 89.4%. Current GTDB classification (R220): d__Bacteria; p__Pseudomonadota; c__Alphaproteobacteria; o__Caulobacterales; f__TH1-2; g__Aquidulcibacter; s__Aquidulcibacter sp945891505.
Classification
Bacteria » Pseudomonadota » Alphaproteobacteria » Caulobacterales » Caulobacteraceae » Aquidulcibacter » Aquidulcibacter miladensis
Parent
Aquidulcibacter

Genomics

Accession
NCBI Assembly:GCA_965234355.1
Cultures
Strain sc|0038952
Type
Isolate Genome
Estimated Quality Metrics
  • Completeness: 100.0%
  • Contamination: 0.0%
  • Quality: 100.0
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
491.5 ×
Source
Other features
  • G+C Content: 55.7%
  • Coding Density: 90.13%
  • Codon Table: 11
  • N50: 864,768 bp
  • Contigs: 8
  • Largest Contig: 1,401,904 bp
  • Assembly Length: 3,239,441 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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seqco.de/r:opjv7zsc