Pampinifervens florentissimum


Citation

Formal styling
Pampinifervens florentissimum Palmer et al., 2025
Effective publication
Palmer et al., 2025
SeqCode status
Valid (SeqCode)
Register List
seqco.de/r:54y7mje2 (validated)
Canonical URL
https://seqco.de/i:43941

Nomenclature

Rank
Species
Syllabication
flo.ren.tis.si'mum
Etymology
L. neut. adj. florentissimum, flourishing, referring to their high standing biomass in many springs in the Rehai Geothermal field
Nomenclatural type
INSDC Nucleotide: CP048795.1
Reference strain
Strain sc|0040510: T-8 = JCM 33569 = CGMCC 1.5214 Lookup StrainInfo
Nomenclatural status
Validly published under the SeqCode

Taxonomy

Description
In addition to characteristics described for the genus, this species is capable of chemolithoheterotrophy using glucose, yeast extract, peptone, and casamino acids. This species can also utilize nitrate as electron acceptor during anaerobic growth, and encode all genes associated with complete denitrification of nitrate to dinitrogen, and nitrification of nitrite to nitrate. This species also encodes an arsenite transporter, arsenite oxidase, and arsenate reductase, although arsenite as an electron donor has not been tested, and arsenate was not used as electron acceptor under conditions tested before (Hedlund et al., 2015). Growth occurs at 50-80 °C with an optimum at 70 °C, at pH 5.5-10.0 with an optimum at 7.0, at 0.2-10% oxygen with an optimum of 4-6%, and at sodium chloride concentrations ≤ 200 mM. Cells are 1.9-2.2 µm in length, and 0.3-0.4 µm in width, occurring singly. Colonies are 0.5 mm in diameter, round, with entire margins, and cream in color, and form after 7 days incubation under chemoautotrophic conditions. Major cellular fatty acids are C20:1ω9c, C18:0, cy-21, and C16:0; minor fatty acids include C20:0, C18:1ω9c, and C19:0. Genomic G+C content range between 44.03% and 44.45%. Genealogical concordance and ANI support the novelty of this species, and phylogenomics and AAI places this species in the genus Pampinifervens gen. nov. The strain T-8 (= CGMC 1.5214T = JCM 33569T), was isolated from a white streamer community in Qiao Quan (Bridge Spring) in the Rehai Geothermal Field, Tengchong County, China. The GenBank genome accession number for the complete genome sequence of strain T-8 is CP048795 (BioProject: PRJNA605417, BioSample: SAMN14057017).
Classification
Bacteria » Aquificota » Aquificia » Aquificales » Aquificaceae » Pampinifervens » Pampinifervens florentissimum
Parent
Pampinifervens ncbi

Genomics

Accession
INSDC Nucleotide:CP048795.1
Cultures
Strain sc|0040510
Type
Isolate Genome
Estimated Quality Metrics
  • Completeness: 100.0%
  • Contamination: 0.81%
  • Quality: 95.95
Ribosomal and transfer RNA genes
  • 1 16S rRNA (up to 100.0%)
  • 1 23S rRNA (up to 100.0%)
  • tRNAs for 21 amino acids
Sequencing depth
379.0 ×
Source
Other features
  • G+C Content: 44.0%
  • Coding Density: 96.42%
  • Codon Table: 11
  • N50: 1,805,917 bp
  • Contigs: 1
  • Largest Contig: 1,805,917 bp
  • Assembly Length: 1,805,917 bp
  • Ambiguous Assembly Fraction: 0.0055%
Submitter comments
A hybrid assembly was generated from ONT MinION sequence reads and Illumina sequence reads in Unicycler, implemented in Galaxy. The recovered genome was fully assembled to a single, closed replicon. Completeness and contamination estimates were done with CheckM v 1. The number and completeness of rRNA genes were determined with barrnap v. 0.9, and the number of tRNAs were determined with tRNAscan-SE v. 2.0. 
Automated checks
Complete

Last modified 18 days ago

Metadata

Outside links and data sources
Search sequences
Local history
Registered
Almost 2 years ago by Palmer, Marike
Submitted
Over 1 year ago by Palmer, Marike
Curators
Endorsed
Over 1 year ago by Rodriguez-R, Luis M
Validated
3 months ago by St. John, Emily
Date of priority
2025-08-26 03:49 PM (UTC)

Publications
1

Citation Title
Palmer et al., 2025, Systematic and Applied Microbiology Nitrogen fixation in Pampinifervens, a new species-rich genus of Aquificaceae that inhabits a wide pH range in terrestrial hot springs
Effective publication



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