Genome assembly ASM1977872v1
- NCBI RefSeq assembly
- GCF_019778725.1
- Submitted GenBank assembly
- GCA_019778725.1
- Taxon
- Rhizobium laguerreae
- Strain
- KalkanB
- WGS project
- JABCNS01
- Submitter
- UNIVERSITY OF CALIFORNIA DAVIS
- Date
- Aug 26, 2021
Assembly statistics
RefSeq | GenBank | |
---|---|---|
Genome size | 7.5 Mb | 7.5 Mb |
Total ungapped length | 7.5 Mb | 7.5 Mb |
Number of contigs | 43 | 43 |
Contig N50 | 354.9 kb | 354.9 kb |
Contig L50 | 9 | 9 |
GC percent | 61 | 61 |
Genome coverage | 102.3x | 102.3x |
Assembly level | Contig | Contig |
View sequences | view RefSeq sequences |
Sample details
- BioSample ID
- SAMN14539367
- Description
- Genome sequencing and assembly of Rhizobium leguminosarum KalkanB
- Submitter
- UNIVERSITY OF CALIFORNIA DAVIS
- Strain
- KalkanB
- Host
- Lens culinaris
- Isolation source
- nodule
- Geographic location
- Turkey
- Sample type
- cell culture
- Biomaterial provider
- Cook Lab of UC Davis
- Sample name
- KalkanB
- Models
- Microbe, viral or environmental
- Package
- Microbe.1.0
- Submission date
- 2020-04-04T15:25:07.870
- Publication date
- 2021-05-01T00:50:53.810
- Last updated
- 2021-05-01T00:50:53.810
Assembly methods
- Sequencing technology
- Illumina HiSeq
- Comment
- The annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (PGAP). Information about PGAP can be found here: https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
- Assembly method
- SPAdes v. 3.13.1
Additional genomes
Browse all Rhizobium laguerreae genomes (105)BioProject
PRJNA623125Rhizobium leguminosarum GsC GsD GsE GsF GsG Genome sequencing and assembly
Annotation details
RefSeq | GenBank | |
---|---|---|
Provider | NCBI RefSeq | NCBI |
Name | GCF_019778725.1-RS_2024_10_12 | NCBI Prokaryotic Genome Annotation Pipeline (PGAP) |
Date | Oct 12, 2024 | Apr 29, 2020 |
Genes | 7,303 | 7,296 |
Protein-coding | 6,994 | 6,948 |
Software version | 6.8 | 4.11 |
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: 99.94% (100th Percentile)
Contamination: 0.42%
Calculated on the Prokaryotic Genome Annotation Pipeline (PGAP) gene set with the Rhizobium 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
- Rhizobium laguerreae
- Submitted species name
- Rhizobium laguerreae
Average Nucleotide Identity (ANI) match details
Best match type-strain for submitted organism | Best match type-strain | |
---|---|---|
Type assembly | GCA_002008165.1 | GCA_002008165.1 |
Organism name | Rhizobium laguerreae | Rhizobium laguerreae |
Type category | type | type |
ANI | 96.63% | 96.63% |
Assembly coverage | 83.88% | 83.88% |
Type assembly coverage | 85.58% | 85.58% |
Chromosomes
Note: This contig-level genome assembly includes 43 contigs and no assembled chromosomes.
Revision history
This record has not been revised
GenBank | RefSeq | Name | Level | Date | Action |
---|---|---|---|---|---|
GCA_019778725.1 | GCF_019778725.1 | ASM1977872v1 | Contig | Aug 26, 2021 |