Fervidibacter sacchariTs


Citation

Formal styling
Fervidibacter sacchariTs Nou et al., 2024
Effective publication
Nou et al., 2024
SeqCode status
Valid (SeqCode)
Register List
seqco.de/r:x3m88du8 (validated)
Canonical URL
https://seqco.de/i:32165

Nomenclature

Rank
Species
Syllabication
sac'cha.ri
Etymology
N.L. gen. n. sacchari, of sugar
Nomenclatural type
NCBI Assembly: GCA_030520105.1
Reference strain
PD1 = JCM 39283 = DSM 113467
Nomenclatural status
Validly published under the SeqCode

Taxonomy

Description
Hyperthermophilic, microaerophilic, facultatively anaerobic, and grows chemoheterotrophically on monosaccharides and polysaccharides. Cells are ovoid- to rod-shaped, Gram-stain negative, and are 0.9-1.3 µm in width and 1.6-3.6 µm in length. Grows between 65 and 87.5 °C and an optimum temperature of 80 °C, and a pH range of 6.5-8.6 with an optimum pH of 7.5. Grows at an optimum O2 concentration of 5-10%. Grows on D-arabinose, D-galactose, D-glucose, D-rhamnose, D-ribose, D-xylose, chondroitin sulfate, colloidal chitin, galactan, gellan gum, guar gum, karaya gum, locust bean gum, xantham gum, xyloglucan, β-glucan, glycogen, starch, AFEX-pretreated corn stover, miscanthus, sugarcane bagasse, acetate and casamino acids. Grows weakly on xyloglucan under fermentation conditions. The major fatty acids (> 10%) are C16:0, C18:0 and/or cyclo-C17:0, and iso-C16:0. The major respiratory quinones (> 10%) are MK-8 and MK-9. The isolate and genomes of the species have been recovered from geothermal springs in the Great Basin, Nevada, USA. GC content of genomes range between 51-52%. Subunits for both the high-affinity and low-affinity terminal oxidases are encoded in the genomes. Genomes also encode a Group 3d [NiFe] hydrogenase, which produces hydrogen as an electron sink for NAD+ regeneration.
Notes
This taxon was previously known as Oct-Spa1-106.
Classification
Bacteria » Armatimonadota » Fervidibacteria » Fervidibacterales » Fervidibacteraceae » Fervidibacter » Fervidibacter sacchariTs
Parent
Fervidibacter gtdb assigned in Rinke et al., 2013

Genomics

Accession
NCBI Assembly:GCA_030520105.1
Type
Isolate Genome
Estimated Quality Metrics
  • Completeness: 93.19%
  • Contamination: 2.93%
  • Quality: 78.54
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
590.0 ×
Source
Other features
  • G+C Content: 52.0%
  • Coding Density: 91.45%
  • Codon Table: 11
  • N50: 3,952,382 bp
  • Contigs: 2
  • Largest Contig: 3,952,382 bp
  • Assembly Length: 3,988,786 bp
  • Ambiguous Assembly Fraction: 0.0%
Submitter comments
Genome was assembled to replicon level with Nanopore long-read and Illumina short-read sequencing, using  SPAdes v3.15.4 to construct a hybrid assembly. Genome quality estimates were done with both CheckM (92.59 % completeness, 0.65 % contamination) and CheckM2, with values reported here for CheckM2. The number of tRNAs were calculated with tRNAscan-SE v. 2.0.11 and rRNAs were identified with barrnap v. 0.9.
Automated checks
Complete
See additional details

Last modified 28 days ago

Metadata

Outside links and data sources
Search sequences
Local history
Registered by
Palmer, Marike 9 months ago
Submitted by
Palmer, Marike 9 months ago
Curators
Endorsed by
Rodriguez-R, Luis M 5 months ago
Validated by
St. John, Emily 26 days ago
Date of priority
2024-11-20 02:57 PM (UTC)

Publications
3

Citation Title
Nou et al., 2024, Nature Communications Genome-guided isolation of the hyperthermophilic aerobe Fervidibacter sacchari reveals conserved polysaccharide metabolism in the Armatimonadota
Effective publication
Oren et al., 2020, International Journal of Systematic and Evolutionary Microbiology Lists of names of prokaryotic Candidatus taxa
Rinke et al., 2013, Nature Insights into the phylogeny and coding potential of microbial dark matter
Assigned this taxon



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