Zwartia planktonica


Citation

Formal styling
Zwartia planktonica 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:48732

Nomenclature

Rank
Species
Syllabication
plan.kto.ni'ca
Etymology
N.L. fem. adj. planktonica, living in the plankton of lakes, planktonic; from Gr. masc. adj. planktos, wandering.
Nomenclatural type
NCBI Assembly: GCA_965234315.1
Reference strain
Strain sc|0038969: RE-10 Lookup StrainInfo
Nomenclatural status
Validly published under the SeqCode

Taxonomy

Description
Type strain is Zwartia planktonica RE-10 (GCA_965234315.1), isolated from 0.5 m depth from the Římov Reservoir, Czechia (date: 2019-04-23), via high-throughput dilution to extinction cultivation. RE-10 has a genome size of 4.5 Mbp with a genomic GC content of 52%, contains 6 rRNA genes and 44 tRNAs. The genome is complete, consisting of a circular chromosome. No genes for flagellar or pilus assembly and chemotaxis were annotated. Pathways for cyanate, urea and taurine degradation, thiosulfate oxidation (Sox pathway), glycolate oxidation, and the biosynthesis of all amino acids were predicted. Further, pathways for thiamine, riboflavin, NAD, pantothenate, coenzyme A, THF, ubiquinone, and heme biosynthesis were identified. The closest cultivated relative is Zwartia hollandica LF4-65 (GCF_019923725.1), with an average amino acid identity of 71.2% and average nucleotide identity of 71.6%. Current GTDB classification (R220): d__Bacteria; p__Pseudomonadota; c__Gammaproteobacteria; o__Burkholderiales; f__Burkholderiaceae; g__Zwartia; s__Zwartia sp030832095. 
Classification
Bacteria » Pseudomonadota » Betaproteobacteria » Burkholderiales » Alcaligenaceae » Zwartia » Zwartia planktonica
Parent
Zwartia

Genomics

Accession
NCBI Assembly:GCA_965234315.1
Cultures
Strain sc|0038969
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
362.0 ×
Source
Other features
  • G+C Content: 52.0%
  • Coding Density: 91.69%
  • Codon Table: 11
  • N50: 4,506,656 bp
  • Contigs: 1
  • Largest Contig: 4,506,656 bp
  • Assembly Length: 4,506,656 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.
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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