Genome assembly NSPWATreference
- NCBI RefSeq assembly
- GCF_946900835.1
- Submitted GenBank assembly
- GCA_946900835.1
- Taxon
- Nitrospina watsonii
- Strain
- 347
- Isolate
- Nitrospina watsonii
- Relation to type material
- assembly from type material
- Submitter
- RADBOUD UNIVERSITY, Department Microbiology
- Date
- Jan 14, 2023
Assembly statistics
RefSeq | GenBank | |
---|---|---|
Genome size | 3 Mb | 3 Mb |
Total ungapped length | 3 Mb | 3 Mb |
Number of chromosomes | 1 | 1 |
Number of scaffolds | 1 | 1 |
Scaffold N50 | 3 Mb | 3 Mb |
Scaffold L50 | 1 | 1 |
Number of contigs | 1 | 1 |
Contig N50 | 3 Mb | 3 Mb |
Contig L50 | 1 | 1 |
GC percent | 57 | 57 |
Genome coverage | 54.0x | 54.0x |
Assembly level | Complete Genome | Complete Genome |
View sequences | view RefSeq sequences | view GenBank sequences |
Sample details
- BioSample ID
- SAMEA111355068
- Description
- Nitrospina watsonii 347 genome
- Comment
- Complete genome of Nitrospina watsonii, isolated by Spieck et al. 2014 (doi: 10.1016/j.syapm.2013.12.005)
- Submitter
- EBI
- ENA-CHECKLIST
- ERC000011
- ENA-FIRST-PUBLIC
- Jan 12, 2023
- ENA-LAST-UPDATE
- Jan 12, 2023
- External Id
- SAMEA111355068
- INSDC center alias
- RADBOUD UNIVERSITY, Department Microbiology
- INSDC center name
- RADBOUD UNIVERSITY, Department Microbiology
- INSDC first public
- 2023-01-12T12:20:58Z
- INSDC last update
- 2023-01-12T12:20:58Z
- INSDC status
- public
- Submitter Id
- NSPWAT
- Isolate
- Nitrospina watsonii
- Sample name
- NSPWAT
- Scientific name
- Nitrospina watsonii
- Strain
- 347
- Type-material
- type strain of Nitrospina watsonii
- SRA
- ERS13452602
- Models
- Generic
- Package
- Generic.1.0
- Submission date
- 2023-01-15T17:05:46.910
- Publication date
- 2023-01-12T00:00:00.000
- Last updated
- 2023-04-12T16:03:01.000
Assembly methods
- Sequencing technology
- Illumina MiSeq, Nanopore
- Assembly method
- canu v.1.8, unicycler v0.4.4
Additional genomes
Browse all Nitrospina watsonii genomes (1)BioProject
PRJEB56043Complete genome sequence of Nitrospina watsonii Nb-347 isolated from the Black Sea
Publications
RefSeq microbial genomes database: new representation and annotation strategy
T Tatusova, et al.
Annotation details
RefSeq | GenBank | |
---|---|---|
Provider | NCBI RefSeq | RADBOUD UNIVERSITY, Department Microbiology |
Name | GCF_946900835.1-RS_2024_08_25 | Annotation submitted by RADBOUD UNIVERSITY, Department Microbiology |
Date | Aug 25, 2024 | Jan 14, 2023 |
Genes | 2,819 | 2,950 |
Protein-coding | 2,763 | 2,893 |
Software version | 6.8 |
About PGAP
The NCBI Prokaryotic Genome Annotation Pipeline (PGAP) uses multiple approaches to predict protein-coding and RNA genes and other functional elements directly from sequence.
Continue readingQuality analysis
CheckM analysis (v1.2.3)
Completeness: 98.28% (100th Percentile)
Contamination: 1.72%
Calculated on the Prokaryotic Genome Annotation Pipeline (PGAP) gene set with the Bacteria CheckM marker set. For more information on CheckM, see Parks, et al. Genome Res (2015).
Taxonomy check
- Taxonomy check status
- OK
- Best match status
- below_threshold_mismatch
- Submitted organism name
- Nitrospina watsonii
- Submitted species name
- Nitrospina watsonii
- Category
- type
- Comment
- Assembly is the type_strain, mismatch is within genus and expected
Average Nucleotide Identity (ANI) match details
Best match type-strain for submitted organism | Best match type-strain | |
---|---|---|
Type assembly | n/a | GCA_000341545.2 |
Organism name | n/a | Nitrospina gracilis |
Type category | n/a | type |
ANI | n/a | 82.54% |
Assembly coverage | n/a | 57.44% |
Type assembly coverage | n/a | 56.4% |
Chromosomes
Chromosome | GenBank | RefSeq | Size (bp) | GC content (%) | Unlocalized count | Action |
---|---|---|---|---|---|---|
chromosome | OX336137.1 | NZ_OX336137.1 | 3,011,914 | 57 | 0 |
Revision history
This record has not been revised
GenBank | RefSeq | Name | Level | Date | Action |
---|---|---|---|---|---|
GCA_946900835.1 | GCF_946900835.1 | NSPWAT | Complete Genome | Jan 14, 2023 |