Lacustribacter communisTs


Citation

Formal styling
Lacustribacter communisTs 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:48709

Nomenclature

Rank
Species
Syllabication
com.mu'nis
Etymology
L. masc. adj. communis, common; referring to a wide distribution in freshwater lakes.
Nomenclatural type
NCBI Assembly: GCA_965194335.1
Reference strain
Strain sc|0038962: MsE-M52 Lookup StrainInfo
Nomenclatural status
Validly published under the SeqCode

Taxonomy

Description
Type strain is Lacustribacter communis MsE-M52 (GCA_965194335.1), isolated from 5 m depth from Lake Most, Czechia (date: 2019-10-01), via high-throughput dilution to extinction cultivation. MsE-M52 has a genome size of 2.1 Mbp with a genomic GC content of 53.3%, contains 3 rRNA genes and 42 tRNAs. The genome is complete, consisting of a circular chromosome. The genome contains genes encoding anoxygenic aerobic phototrophy (pufABLM). Genes for flagellar assembly were annotated. Pathways for urea and taurine 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, THF, and heme biosynthesis were identified. The closest cultivated relatives are the undescribed Burkholderiales bacterium LSUCC0115 (GCA_009646425.1), with an average amino acid identity of 61.9% and average nucleotide identity of 67.9% and the newly established genus Hahnella, with 60.4-61.7% AAI and 67.2-67.9% ANI. The closest validly described relative is Limnobacter thiooxidans CS-K2 (GCF_036323495.1) with an AAI of 53.95% and an ANI of 66.33%. Current GTDB classification (R220): d__Bacteria; p__Pseudomonadota; c__Gammaproteobacteria; o__Burkholderiales; f__Burkholderiaceae; g__UBA954; s__UBA954 sp002293155.
Classification
Bacteria » Pseudomonadota » Betaproteobacteria » Burkholderiales » Burkholderiaceae » Lacustribacter » Lacustribacter communisTs
Parent
Lacustribacter

Genomics

Accession
NCBI Assembly:GCA_965194335.1
Cultures
Strain sc|0038962
Type
Isolate Genome
Estimated Quality Metrics
  • Completeness: 100.0%
  • Contamination: 0.0%
  • Quality: 100.0
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
558.6 ×
Source
Other features
  • G+C Content: 53.3%
  • Coding Density: 94.58%
  • Codon Table: 11
  • N50: 2,052,603 bp
  • Contigs: 1
  • Largest Contig: 2,052,603 bp
  • Assembly Length: 2,052,603 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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