Acidimicrobilacustris europaeusTs


Citation

Formal styling
Acidimicrobilacustris europaeusTs 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:48713

Nomenclature

Rank
Species
Syllabication
e.u.ro.pae'us
Etymology
N.L. masc. adj. europaeus, of/from Europe; named after the main occurrence in european lakes
Nomenclatural type
NCBI Assembly: GCA_965194515.1
Reference strain
Strain sc|0040407: KE-4 Lookup StrainInfo
Nomenclatural status
Validly published under the SeqCode

Taxonomy

Description
Type strain is Acidimicrobilacustris europaeus KE-4 (GCA_965194515.1), isolated from 5 m depth from Klíčava Reservoir, Czechia (date: 2019-04-25), via high-throughput dilution to extinction cultivation. KE-4 has a genome size of 2.35 Mbp with a genomic GC content of 58.2%, contains 3 rRNA genes and 44 tRNAs. The genome is complete, consisting of a circular chromosome. The genome contains genes encoding rhodopsins but lacks the biosynthetic pathway for retinal biosynthesis. No genes for flagella or pilus assembly and chemotaxis were annotated. Pathways for taurine degradation, assimilatory sulfate reduction and methane/alkanesulfonate oxidation and biosynthesis for all amino acids except histidine and threonine were predicted. Further, pathways for riboflavin, pyridoxal, NAD, coenzyme A, biotin and heme were identified. The closest cultivated relatives are Rhabdothermincola salaria (GCF_021246445.1) with an average amino acid identity of 64.98% and an average nucleotide identity of 69.8% and another newly proposed species, Acidimicrobilacustris thunensis TE-7 (GCA_965194345.1), with an AAI of 73.1% and an ANI of 72%. Current GTDB classification (R220): d__Bacteria; p__Actinomycetota; c__Acidimicrobiia; o__Acidimicrobiales; f__UBA8139; g__F1-20-MAGs160; s__F1-20-MAGs160 sp903827085. 
Classification
Bacteria » Actinomycetota » Acidimicrobiia » Acidimicrobiales » Acidimicrobilacustridaceae » Acidimicrobilacustris » Acidimicrobilacustris europaeusTs
Parent
Acidimicrobilacustris

Genomics

Accession
NCBI Assembly:GCA_965194515.1
Cultures
Strain sc|0040407
Type
Isolate Genome
Estimated Quality Metrics
  • Completeness: 99.16%
  • Contamination: 0.84%
  • Quality: 94.96
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
445.7 ×
Source
Other features
  • G+C Content: 58.2%
  • Coding Density: 94.42%
  • Codon Table: 11
  • N50: 2,353,483 bp
  • Contigs: 1
  • Largest Contig: 2,353,483 bp
  • Assembly Length: 2,353,483 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, but as the genome consists of a circular chromosome, it should be complete without any contamination.
Automated checks
Complete

Last modified 2 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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