Fontibacterium scandinaviense


Citation

Formal styling
Fontibacterium scandinaviense Fernandes et al., 2025
Effective publication
Fernandes et al., 2025
SeqCode status
Valid (SeqCode)
Register List
seqco.de/r:gnukuc44 (validated)
Canonical URL
https://seqco.de/i:49875

Nomenclature

Rank
Species
Syllabication
scan.di.na.vi.en'se
Etymology
N.L. neut. adj. scandinaviense, pertaining to the Scandinavian region, the isolation source of the MAG and a main occurrence in Scandinavian lakes
Nomenclatural type
NCBI Assembly: GCA_903869725.1
Nomenclatural status
Validly published under the SeqCode

Taxonomy

Description
Type genome is Fontibacterium scandinaviense AM1_bin-0028 (GCA_903869725.1), a metagenome-assembled genome (MAG) assembled from 0.5 m depth from Lake Alinen Mustajärvi, Finland (date: 2015-08-8). AM1_bin-0028 has a genome size of 1.1 Mbp with a genomic GC content of 28.9%, contains 3 rRNA genes and 31 tRNAs. The genome is of high quality, consisting of 55 contigs, with a completeness of 100%, contamination of 0% and strain heterogeneity of 0% as assessed with checkM. The metagenome was assembled with Megahit (version 1.1.13) from short-read sequencing (Illumina MiSeq). Metagenomic fragment recruitment of >600 samples from five continents indicate that the species is mainly present in boreal lakes in Scandinavia. The closest cultivated relatives are Fontibacterium commune, syn. ‘Candidatus Fonsibacter ubiquis’ LSUCC0530 (GCF_002688585.1; later reclassified to ‘Ca. Allofontibacter communis’), with an average amino acid identity of 72.71 % and average nucleotide identity of 75.18 % and another newly proposed species, Fontibacterium abundans MiE-29 (GCA_965235095.1), with an AAI of 73.3 % and an ANI of 75.56 %. Current GTDB classification (R220): d__Bacteria; p__Pseudomonadota; c__Alphaproteobacteria; o__Pelagibacterales; f__Pelagibacteraceae; g__Fonsibacter; s__Fonsibacter sp903869725.
Classification
Bacteria » Pseudomonadota » Alphaproteobacteria » Pelagibacterales » Pelagibacteraceae » Fontibacterium » Fontibacterium scandinaviense
Parent
Fontibacterium

Genomics

Accession
NCBI Assembly:GCA_903869725.1
Type
Metagenome-Assembled Genome (MAG)
Estimated Quality Metrics
  • Completeness: 99.9%
  • Contamination: 0.0%
  • Quality: 99.9
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
1.0 ×
Source
Other features
  • G+C Content: 28.9%
  • Coding Density: 95.16%
  • Codon Table: 11
  • N50: 44,720 bp
  • Contigs: 55
  • Largest Contig: 122,032 bp
  • Assembly Length: 1,083,437 bp
  • Ambiguous Assembly Fraction: 0.0%
Submitter comments
This is a metagenome-assembled genome (MAG) that was assembled with megahit (version 1.1.13) from short-read sequencing (Illumina MiSeq) and binned with metabat (binning parameters: min_len:1500,min_bin_size:10000,maxP:93,minS:50). The sequencing depth is unknown and was thus set to 1x. Completeness and contamination were assessed with CheckM. rRNA genes were predicted with barrnap v0.9, tRNA genes were predicted with tRNAscan v1.4.
Automated checks
Complete

Last modified 7 months ago

Metadata

Outside links and data sources
Search sequences
Local history
Registered
8 months ago by Salcher, Michaela M
Submitted
3 months ago by Salcher, Michaela M
Curators
Validated
2 months ago by Rodriguez-R, Luis M
Date of priority
2025-08-28 03:13 PM (UTC)

Publications
1

Citation Title
Fernandes et al., 2025, Nature Microbiology Ecophysiology and global dispersal of the freshwater SAR11-IIIb genus Fontibacterium
Effective publication



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