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Thalassarchaeum betaeTs

Citation

Formal styling
Thalassarchaeum betaeTs 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:44377

Nomenclature

Rank
Species
Syllabication
be'tae
Etymology
N.L. gen. n. betae, the second letter for the Greek alphabet; named to honour the original description of this group as II-β
Nomenclatural type
NCBI Assembly: GCA_003193925.1
Nomenclatural status
Validly published under the SeqCode

Taxonomy

Description
Description is the same as for Candidatus Thalassarchaeum gen. nov. Represented by the MAG (metagenome-assembled genome)  GCA_003193925.1 (former ID: PSPG00000000) with a genome size of 1.48 Mbp; obtained from metagenomic sequences retrieved from water deep sea water sample (1953 to 4946m) from the Mid-Cayman Rise, in western Caribbean Sea (18.32 N, 81.43 W).
Classification
Archaea » “Poseidoniota” » Poseidoniia » Poseidoniales » Thalassarchaeaceae » Thalassarchaeum » Thalassarchaeum betaeTs
Parent
Thalassarchaeum assigned in Rinke et al., 2019

Genomics

Accession
NCBI Assembly:GCA_003193925.1
Type
Metagenome-Assembled Genome (MAG)
Estimated Quality Metrics
  • Completeness: 92.2%
  • Contamination: 0.0%
  • Quality: 92.2
Ribosomal and transfer RNA genes
  • 1 16S rRNA (up to 100.0%)
  • 1 23S rRNA (up to 79.0%)
  • tRNAs for 19 amino acids
Sequencing depth
68.4 ×
Source
Other features
  • G+C Content: 61.0%
  • Coding Density: 93.6%
  • Codon Table: 11
  • N50: 104,796 bp
  • Contigs: 23
  • Largest Contig: 252,755 bp
  • Assembly Length: 1,479,542 bp
  • Ambiguous Assembly Fraction: 0.00047%
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 6 months ago
Submitted by
Rodriguez-R, Luis M 5 months ago
Curators
Validated by
Rodriguez-R, Luis M 4 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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