Genome assembly ASM233233v1
- NCBI RefSeq assembly
- GCF_002332335.1
- Submitted GenBank assembly
- GCA_002332335.1
- Taxon
- Brevibacterium aurantiacum
- Strain
- 900_6
- WGS project
- NRGO01
- Submitter
- Dutton Lab, UCSD
- Date
- Sep 21, 2017
Assembly statistics
RefSeq | GenBank | |
---|---|---|
Genome size | 4 Mb | 4 Mb |
Total ungapped length | 4 Mb | 4 Mb |
Number of scaffolds | 58 | 58 |
Scaffold N50 | 246 kb | 246 kb |
Scaffold L50 | 5 | 5 |
Number of contigs | 65 | 65 |
Contig N50 | 232.5 kb | 232.5 kb |
Contig L50 | 5 | 5 |
GC percent | 63 | 63 |
Genome coverage | 50.0x | 50.0x |
Assembly level | Scaffold | Scaffold |
View sequences | view RefSeq sequences | view GenBank sequences |
Sample details
- BioSample ID
- SAMN07141153
- Description
- Microbe sample from Brevibacterium aurantiacum
- Submitter
- Dutton Lab, UCSD
- Strain
- 900_6
- Geographic location
- France
- Collection date
- 2011-09
- Isolation source
- Cheese rind
- Sample type
- whole organism
- Note
- Originally submitted as Brevibacterium linens but changed in October 2018 because of ANI results to Brevibacterium aurantiacum
- Sample name
- Brevibacterium linens 900_6
- Models
- Microbe, viral or environmental
- Package
- Microbe.1.0
- Submission date
- 2017-05-18T14:24:06.836
- Publication date
- 2017-05-18T00:00:00.000
- Last updated
- 2021-02-28T04:22:05.775
Assembly methods
- Sequencing technology
- Pacbio; Illumina MiSeq
- Comment
Annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (released 2013). Information about the Pipeline can be found here: https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
The organism was changed from "Brevibacterium linens" to "Brevibacterium aurantiacum" in October 2018.
- Assembly method
- Canu v. 1.5
Additional genomes
Browse all Brevibacterium aurantiacum genomes (38)BioProject
PRJNA387187Cheese rind isolates Genome sequencing and assembly
Publications
Strain-Level Diversity Impacts Cheese Rind Microbiome Assembly and Function
BA Niccum, et al.
RefSeq microbial genomes database: new representation and annotation strategy
T Tatusova, et al.
Annotation details
RefSeq | GenBank | |
---|---|---|
Provider | NCBI RefSeq | NCBI |
Name | GCF_002332335.1-RS_2024_03_31 | NCBI Prokaryotic Genome Annotation Pipeline (PGAP) |
Date | Mar 31, 2024 | Aug 22, 2017 |
Genes | 3,688 | 3,684 |
Protein-coding | 3,586 | 3,551 |
Software version | 6.7 | 4.2 |
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 (v1.2.2)
Completeness: 97.27% (30th Percentile, dark blue bar)
Contamination: 3.61%
Completeness of Brevibacterium aurantiacum RefSeq assemblies
Calculated on the Prokaryotic Genome Annotation Pipeline (PGAP) gene set with the Brevibacterium CheckM marker set. For more information on CheckM, see Parks, et al. Genome Res (2015).
Taxonomy check
- Taxonomy check status
- OK
- Best match status
- species_match
- Submitted organism name
- Brevibacterium aurantiacum
- Submitted species name
- Brevibacterium aurantiacum
Average Nucleotide Identity (ANI) match details
Best match type-strain for submitted organism | Best match type-strain | |
---|---|---|
Type assembly | GCA_006539005.1 | GCA_006539005.1 |
Organism name | Brevibacterium aurantiacum | Brevibacterium aurantiacum |
Type category | type | type |
ANI | 97.41% | 97.41% |
Assembly coverage | 82.47% | 82.47% |
Type assembly coverage | 80.64% | 80.64% |
Chromosomes
Note: This scaffold-level genome assembly includes 58 scaffolds and no assembled chromosomes.
Revision history
This record has not been revised
GenBank | RefSeq | Name | Level | Date | Action |
---|---|---|---|---|---|
GCA_002332335.1 | GCF_002332335.1 | ASM233233v1 | Scaffold | Sep 21, 2017 |