JSON

Genome sc|0005537

Name

Not registered

Database

NCBI Assembly

Accession

NZ_LR216287.1

Marked for deletion

This genome is currently not registered as the nomenclatural type or the reference genome of any names in the Registry, and it will be purged from the database soon unless it is linked to a name

Genomics

Accession
NCBI Assembly:NZ_LR216287.1
Cultures
Strain sc|0040750
Type
Isolate Genome
Estimated Quality Metrics
  • Completeness: 100.0%
  • Contamination: 0.0%
  • Quality: 100.0
Ribosomal and transfer RNA genes
  • 2 16S rRNAs (up to 100.0%)
  • 2 23S rRNAs (up to 100.0%)
  • tRNAs for 19 amino acids
Sequencing depth
100.0 ×
Source
Submitter comments
Described in  https://doi.org/10.1128/MRA.00435-19.
The genome was assembled using SPAdes and Canu, using default settings for both MinION and Illumina data. For the MinION data, Nanopolish
was used to improve the consensus sequence. The assembly resulted in three large contigs which were aligned against the closest reference genomes (those of “Ca. Nitrosocosmicus oleophilus” and “Ca. Nitrosocosmicus exaquare” using Mauve. This allowed a prediction of the orientation of the three contigs, and gaps were subsequently closed by long-range PCR using the MasterAmp extra-long PCR kit and Sanger sequencing. The closed genome was annotated using the MaGe platform.
Automated checks
Failed: Cannot find ncbi:assembly:NZ_LR216287.1
Edit genome data
Last modified 22 days ago


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