Thalassarchaeum betae^Ts

Citation

Formal styling

Thalassarchaeum betae^Ts 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 betae^Ts

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

• BioSample: SAMN08159283
• BioSample: SAMN08159211

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

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Last modified about 1 month ago

Metadata

Outside links and data sources

• GTDB Genome: GCA_003193925.1
• Global Biodiversity Information Facility (GBIF)
• Wikispecies: Thalassarchaeum betae (see reference source)

Search sequences

• Seach in NCBI Nucleotide

Local history

• This name was last modified 6 months ago
• Submission process status
• Quality checks before valid publication

Registered by

Rinke, Chris 8 months ago

Submitted by

Rodriguez-R, Luis M 6 months ago

Curators

• Rodriguez-R, Luis M (genomics)
• Palmer, Marike (nomenclature)

Validated by

Rodriguez-R, Luis M 6 months ago

Date of priority

2024-06-15 12:45 PM (UTC)