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Poseidonia alphaeTs

Citation

Formal styling
Poseidonia alphaeTs Rinke et al., 2019 (valid 2024)
Effective publication
Rinke et al., 2019
SeqCode status
Valid (SeqCode)
Register List
seqco.de/r:ejqyx6s9 (validated)
Canonical URL
https://seqco.de/i:41495

Nomenclature

Rank
Species
Syllabication
alphae
Etymology
N.L. gen. n. alphae, alpha, the first letter of Greek alphabet; to honour the original description of this group as II-∝
Nomenclatural type
NCBI Assembly: GCA_002505405.1
Nomenclatural status
Validly published under the SeqCode

Taxonomy

Description
Poseidonia named after Poseidon, the Greek god of the sea). Inferred to be of marine origin, a motile, aerobic, photoheterotroph, and able to ferment a wide range of carbohydrates with a focus on peptides. Highest abundances were recorded for surface waters (0-10m). 
Classification
Archaea » “Poseidoniota” » Poseidoniia » Poseidoniales » Poseidoniaceae » Poseidonia » Poseidonia alphaeTs
Parent
Poseidonia gtdb assigned in Rinke et al., 2019

Genomics

Accession
NCBI Assembly:GCA_002505405.1
Type
Metagenome-Assembled Genome (MAG)
Estimated Quality Metrics
  • Completeness: 90.9%
  • Contamination: 0.0%
  • Quality: 90.9
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
54.6 ×
Source
Other features
  • G+C Content: 50.0%
  • Coding Density: 94.34%
  • Codon Table: 11
  • N50: 72,244 bp
  • Contigs: 50
  • Largest Contig: 249,938 bp
  • Assembly Length: 1,936,638 bp
  • Ambiguous Assembly Fraction: 0.17%
Submitter comments
The completeness and contamination estimates provided by CheckM are based on the presence of predefined lineage-specific marker sets [17]. These marker sets can be further refined using checkm qa --out_format 4 (list of marker genes and their counts), which allows screening a lineage, in our case Candidatus Poseidoniales (MG II), to identify markers which are absent from all MAGs in the lineage. Based on this workflow we excluded 11 marker genes (TIGR00537, TIGR02237, TIGR00422, PF01287.15, TIGR03677, PF09249.6, PF13685.1, TIGR00162, PF02649.9, PF03684.8, PF01849.13) that were absent across all 270 Ca. Poseidoniales MAGs, resulting in 177 marker genes being used for completeness and contamination estimates. 
Automated checks
Complete
See additional details

Metadata

Outside links and data sources
Search sequences
Local history
Registered by
Rinke, Chris 5 months ago
Submitted by
Rodriguez-R, Luis M 4 months ago
Curators
Validated by
Rodriguez-R, Luis M 3 months ago
Date of priority
2024-06-15 12:45 PM (UTC)

Publications
1

Citation Title
Rinke et al., 2019, The ISME Journal A phylogenomic and ecological analysis of the globally abundant Marine Group II archaea (Ca. Poseidoniales ord. nov.)
Effective publication
Assigned this taxon


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