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Phosphoribacter hodrii

Citation

Formal styling
Phosphoribacter hodrii Singleton et al., 2022 (valid 2024)
Effective publication
Singleton et al., 2022
SeqCode status
Valid (SeqCode)
Register List
seqco.de/r:km1jc405 (validated)
Canonical URL
https://seqco.de/i:42133

Nomenclature

Rank
Species
Syllabication
ho.dri'i
Etymology
N.L. gen. n. hodrii, of Hodr, Norse god twin of Baldr, indicating the close relationship of the 16S rRNA gene sequence for Phosphoribacter hodrii and Phosphoribacter baldrii
Nomenclatural type
NCBI Assembly: GCA_016707175.1
Nomenclatural status
Validly published under the SeqCode

Taxonomy

Description
Rod shaped bacterial species from sludge. Likely utilizes a range of substrates including sugars and amino acids, is capable of polyphosphate accumulation and cycling.
Classification
Bacteria » Actinomycetota » Actinomycetes » Micrococcales » Dermatophilaceae » Phosphoribacter » Phosphoribacter hodrii
Parent
Phosphoribacter gtdb assigned in Singleton et al., 2022

Genomics

Accession
NCBI Assembly:GCA_016707175.1
Type
Metagenome-Assembled Genome (MAG)
Estimated Quality Metrics
  • Completeness: 97.52%
  • Contamination: 1.35%
  • Quality: 90.77
Ribosomal and transfer RNA genes
  • 1 16S rRNA (up to 100.0%)
  • 1 23S rRNA (up to 100.0%)
  • tRNAs for 18 amino acids
Sequencing depth
15.604284 ×
Source
Other features
  • G+C Content: 69.48%
  • Coding Density: 90.13%
  • Codon Table: 11
  • N50: 622,782 bp
  • Contigs: 21
  • Largest Contig: 973,092 bp
  • Assembly Length: 3,909,549 bp
  • Ambiguous Assembly Fraction: 0.0%
Submitter comments
The binning in this project followed the mmlong v0.1.2 hybrid-metaflowpipeline after the assembly step. Metagenome contigs were translated into proteins using FragGeneScan v1.31, annotated taxonomically using Kaiju v1.6.0 against the proGenomes database (2017-05-16). DASTool v1.1.1 --search_engine diamond was used to dereplicate and select for the best representative bin. The dereplicated bins in the analysis were checked for completeness and contamination using CheckM --lineage_wf v1.0.11. 
Automated checks
Complete
See additional details
Last modified about 1 month ago

Metadata

Outside links and data sources
Search sequences
Local history
Registered by
Nielsen, Per H. 3 months ago
Submitted by
Nielsen, Per H. 2 months ago
Curators
Endorsed by
St. John, Emily 2 months ago
Validated by
Rodriguez-R, Luis M 2 months ago
Date of priority
2024-10-22 06:38 AM (UTC)

Publications
1

Citation Title
Singleton et al., 2022, The ISME Journal The novel genus, ‘Candidatus Phosphoribacter’, previously identified as Tetrasphaera, is the dominant polyphosphate accumulating lineage in EBPR wastewater treatment plants worldwide
Effective publication
Assigned this taxon


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