Polynucleobacter hoetzingerianus


Citation

Formal styling
Polynucleobacter hoetzingerianus 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:48717

Nomenclature

Rank
Species
Syllabication
hoet.zin.ge.ri.a'nus
Etymology
N.L. masc. adj. hoetzingerianus, named after the Austrian scientist Mattias Hoetzinger, who characterized several species of the genus Polynucleobacter
Nomenclatural type
NCBI Assembly: GCA_965234555.1
Reference strain
Strain sc|0038960: RE-M21 Lookup StrainInfo
Nomenclatural status
Validly published under the SeqCode

Taxonomy

Description
Type strain is Polynucleobacter hoetzingeranus RE-M21 (GCA_965234555.1), isolated from 0.5 m depth from the Římov Reservoir, Czechia (date: 2019-08-05), via high-throughput dilution to extinction cultivation. RE-M21 has a genome size of 1.8 Mbp with a genomic GC content of 46.6%, contains 3 rRNA genes and 40 tRNAs. The genome is complete, consisting of a circular chromosome. The genome contains genes encoding anoxygenic aerobic phototrophy (pufABLM). No genes for flagellar assembly and chemotaxis were annotated. Pathways for cyanate degradation, thiosulfate oxidation (Sox pathway), glycolate oxidation and the biosynthesis of all amino acids except for aspartate were predicted. Further, pathways for thiamine, riboflavin, NAD, pantothenate, coenzyme A, biotin, THF, ubiquinone, and heme biosynthesis were identified. The closest cultivated relative is Polynucleobacter sp. MWH-UH24A (GCF_018687475.1), with an average amino acid identity of 82.7% and average nucleotide identity of 74.9%. Current GTDB classification (R220): d__Bacteria; p__Pseudomonadota; c__Gammaproteobacteria; o__Burkholderiales; f__Burkholderiaceae; g__Polynucleobacter; s__Polynucleobacter sp027486235.
Classification
Bacteria » Pseudomonadota » Betaproteobacteria » Burkholderiales » Burkholderiaceae » Polynucleobacter » Polynucleobacter hoetzingerianus
Parent
Polynucleobacter

Genomics

Accession
NCBI Assembly:GCA_965234555.1
Cultures
Strain sc|0038960
Type
Isolate Genome
Estimated Quality Metrics
  • Completeness: 99.16%
  • Contamination: 0.0%
  • Quality: 99.16
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
480.2 ×
Source
Other features
  • G+C Content: 46.6%
  • Coding Density: 94.35%
  • Codon Table: 11
  • N50: 1,761,411 bp
  • Contigs: 1
  • Largest Contig: 1,761,411 bp
  • Assembly Length: 1,761,411 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 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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