Acidimicrobilacustris thunensis


Citation

Formal styling
Acidimicrobilacustris thunensis 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:48740

Nomenclature

Rank
Species
Syllabication
thu.nen'sis
Etymology
N.L. masc. adj. thunensis, of Thun, referring to Lake Thun, the isolation source of the type strain.
Nomenclatural type
NCBI Assembly: GCA_965194345.1
Reference strain
Strain sc|0040411: TE-7 Lookup StrainInfo
Nomenclatural status
Validly published under the SeqCode

Taxonomy

Description
Type strain is Acidimicrobilacustris thunensis TE-7 (GCA_965194345.1), isolated from 5 m depth from Lake Thun, Switzerland (date: 2019-11-11), via high-throughput dilution to extinction cultivation. TE-7 has a genome size of 2.38 Mbp with a genomic GC content of 60.6%, contains 3 rRNA genes and 46 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 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 66.55% and an average nucleotide identity of 71.1% and another newly proposed species, Acidimicrobilacustris europaeus KE-4 (GCA_965194515.1), with an AAI of 73.1% and an ANI of 72%. Current GTDB (R220) classification: d__Bacteria; p__Actinomycetota; c__Acidimicrobiia; o__Acidimicrobiales; f__UBA8139; g__F1-20-MAGs160; s__F1-20-MAGs160 sp945878725. 
Classification
Bacteria » Actinomycetota » Acidimicrobiia » Acidimicrobiales » Acidimicrobilacustridaceae » Acidimicrobilacustris » Acidimicrobilacustris thunensis
Parent
Acidimicrobilacustris

Genomics

Accession
NCBI Assembly:GCA_965194345.1
Cultures
Strain sc|0040411
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
430.6 ×
Source
Other features
  • G+C Content: 60.6%
  • Coding Density: 94.35%
  • Codon Table: 11
  • N50: 2,384,561 bp
  • Contigs: 1
  • Largest Contig: 2,384,561 bp
  • Assembly Length: 2,384,561 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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