Limnohabitans kasalickyi


Citation

Formal styling
Limnohabitans kasalickyi 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:48719

Nomenclature

Rank
Species
Syllabication
ka.sa.li.cky'i
Etymology
N.L. masc. gen. n. kasalickyi, named after the Czech scientist Vojtěch (Vojta) Kasalický, who isolated many strains of the genus Limnohabitans and was involved in the description of the genus.
Nomenclatural type
NCBI Assembly: GCA_965234325.1
Reference strain
Strain sc|0038965: MaE-M4 Lookup StrainInfo
Nomenclatural status
Validly published under the SeqCode

Taxonomy

Description
Type strain is Limnohabitans kasalickyi MaE-M4 (GCA_965234325.1), isolated from 5 m depth from Lake Maggiore, Italy (date: 2019-04-09), via high-throughput dilution to extinction cultivation. MaE-M4 has a genome size of 3.7 Mbp with a genomic GC content of 56.3%, contains 6 rRNA genes and 44 tRNAs. The genome is a high-quality draft consisting of 16 contigs. The genome contains genes encoding anoxygenic aerobic phototrophy (pufABLM). Genes for flagellar and pilus assembly were annotated. Pathways for cyanate, urea, and taurine degradation, thiosulfate oxidation (Sox pathway), methane/alkanesulfonate and glycolate oxidation, and the biosynthesis of all amino acids except for aspartate were predicted. Further, pathways for thiamine, riboflavin, pantothenate, coenzyme A, pimeloyl-ACP, THF, and heme biosynthesis were identified. The closest cultivated relative is Limnohabitans sp. Jir61 (GCF_003063545.1), with an average amino acid identity of 77.9% and average nucleotide identity of 80.1%. Current GTDB classification (R220): d__Bacteria; p__Pseudomonadota; c__Gammaproteobacteria; o__Burkholderiales; f__Burkholderiaceae_B; g__Limnohabitans; s__Limnohabitans sp002778325.
Classification
Bacteria » Pseudomonadota » Betaproteobacteria » Burkholderiales » Comamonadaceae » Limnohabitans » Limnohabitans kasalickyi
Parent
Limnohabitans

Genomics

Accession
NCBI Assembly:GCA_965234325.1
Cultures
Strain sc|0038965
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
338.2 ×
Source
Other features
  • G+C Content: 56.3%
  • Coding Density: 93.61%
  • Codon Table: 11
  • N50: 1,900,568 bp
  • Contigs: 16
  • Largest Contig: 1,900,568 bp
  • Assembly Length: 3,665,426 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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