Genome sc|0003620

Genomics

Accession

NCBI Assembly:GCF_002288305.1

Cultures

Strain sc|0038983

Type

Isolate Genome

Estimated Quality Metrics

• Completeness: 91.18%
• Contamination: 0.0%
• Quality: 91.18

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

800.0 ×

Source

• BioSample: SAMN05296518

Other features

• G+C Content: 40.2%
• Coding Density: 94.58%
• Codon Table: 11
• N50: 1,161,863 bp
• Contigs: 1
• Largest Contig: 1,161,863 bp
• Assembly Length: 1,161,863 bp
• Ambiguous Assembly Fraction: 0.0%

Submitter comments

Genome of a culture with growth arrest. DNA was amplified by MDA (REPLI-g single cell kit) prior to sequencing. Sequencing was done with Illuminia MiSeq (PE150), assembly was done with a5_miseq_linux_20140604. The genome was manually curated to a circular chromosome in Geneious 7.1.7 by repeated rounds of read mapping, primer design for contig ends and low-coverage regions and sanger sequencing. Completeness and contamination were assessed with CheckM, but as the genome consists of a circular chromosome, it should be complete without any contamination. 

Automated checks

Complete

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Last modified 3 months ago

Sample Metadata

BioSample entries

• BioSample: SAMN05296518

Date

Collection Date: 2013-05-23

Location

Lat Lon: 47° 18′ 36″ N, 8° 34′ 48″ E

View map of sampling locations

Toponym

Geo Loc Name: Switzerland: Lake Zurich

Environment

Sample Type: cell culture

Env Biome: Freshwater

Isolation Source: Switzerland: Lake Zurich, 5 m depth

Other

Not detected

Package

Ncbi Submission Package: Microbe.1.0

Biosamplemodel: Microbe, viral or environmental

All retrieved samples

• SAMN05296518: Microbe sample from Candidatus Nanopelagicus abundans

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Metadata retrieved 3 months ago