Pernthalerella lacunae


Citation

Formal styling
Pernthalerella lacunae Salcher et al., 2025
Effective publication
Salcher et al., 2025
SeqCode status
Valid (SeqCode)
Register List
seqco.de/r:o5wsiwof (validated)
Canonical URL
https://seqco.de/i:49111

Nomenclature

Rank
Species
Syllabication
la.cu'na.e
Etymology
L. fem. gen. n. lacunae, of a ditch, pit, hole, pool, or pond, referring to the isolation source of the type from a freshwater lake.
Nomenclatural type
NCBI Assembly: GCA_965194545.1
Reference strain
Strain sc|0038789: MaE-M21 Lookup StrainInfo
Nomenclatural status
Validly published under the SeqCode

Taxonomy

Description
Type species is Pernthalerella lacuna MaE-M21 (GCA_965194545.1), isolated from 5 m depth from Lake Maggiore, Italy (date: 2019-11-04), via high-throughput dilution to extinction cultivation. MaE-M21 has a genome size of 2.8 Mbp with a genomic GC content of 54.9%, contains 3 rRNA genes and 45 tRNAs. The genome is a high-quality draft consisting of 7 contigs. The genome contains genes encoding anoxygenic aerobic phototrophy (pufABLM). Genes for flagellar and pilus assembly were annotated. Pathways for benzene degradation, glycolate oxidation and the biosynthesis of all amino acids were predicted. Further, pathways for thiamine, riboflavin, NAD, pantothenate, coenzyme A, biotin, THF, and heme biosynthesis were identified. The closest cultivated relative is Paucimonas lemoignei DSM 7445 (GCF_004342585.1) with an average amino acid identity of 64.16% and average nucleotide identity of 70.49% and two other newly proposed species, Pernthalerella aquatica GE-M3 (GCA_965194445.1 ) and Pernthalerella communis MsE-6 (GCA_965194595.1 ), with AAI of 72.1-73.1% and ANI of 71.9-72.5%. Current GTDB classification (R220): d__Bacteria; p__Pseudomonadota; c__Gammaproteobacteria; o__Burkholderiales; f__Burkholderiaceae; g__SYFN01; s__SYFN01 sp021299035.

Classification
Bacteria » Pseudomonadota » Betaproteobacteria » Burkholderiales » Burkholderiaceae » Pernthalerella » Pernthalerella lacunae
Parent
Pernthalerella

Genomics

Accession
NCBI Assembly:GCA_965194545.1
Cultures
Strain sc|0038789
Type
Isolate Genome
Estimated Quality Metrics
  • Completeness: 100.0%
  • Contamination: 0.84%
  • Quality: 95.8
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
394.8 ×
Source
Other features
  • G+C Content: 54.9%
  • Coding Density: 90.88%
  • Codon Table: 11
  • N50: 754,786 bp
  • Contigs: 7
  • Largest Contig: 1,003,687 bp
  • Assembly Length: 2,804,680 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
About 1 year ago by Salcher, Michaela M
Submitted
8 months ago by Salcher, Michaela M
Curators
Endorsed
6 months ago by Rodriguez-R, Luis M
Validated
3 months ago by Rodriguez-R, Luis M
Date of priority
2025-08-28 03:23 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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