Genome assembly ASM2074018v1

FTP
Actions
NCBI RefSeq assembly
GCF_020740185.1
Submitted GenBank assembly
GCA_020740185.1
Taxon
Rouxiella badensis
Strain
20GA0366
WGS project
JAJGAT01
Submitter
University of Georgia
Date
Nov 3, 2021

Assembly statistics

RefSeqGenBank
Genome size5.3 Mb5.3 Mb
Total ungapped length5.3 Mb5.3 Mb
Number of contigs5959
Contig N50271.5 kb271.5 kb
Contig L5077
GC percent52.552.5
Genome coverage257.0x257.0x
Assembly levelContigContig
View sequencesview RefSeq sequencesview GenBank sequences

Sample details

BioSample ID
SAMN22725816
Description
Microbe sample from Rouxiella badensis
Submitter
University of Georgia
Strain
20GA0366
Host
Onion
Collection date
2020
Geographic location
USA: Georgia
Sample type
Monoisolate
Sample name
20GA0366
Models
Microbe, viral or environmental
Package
Microbe.1.0
Submission date
2021-10-29T00:03:52.933
Publication date
2021-10-29T00:00:00.000
Last updated
2021-10-29T01:01:04.970

Assembly methods

Sequencing technology
Illumina NovaSeq
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. 3.14.1

Additional genomes

Browse all Rouxiella badensis genomes (15)

BioProject

PRJNA776088

Rouxiella badensis, a new pathogen causing bacterial decay of onion bulb

Annotation details

RefSeqGenBank
ProviderNCBI RefSeqNCBI
NameNCBI Prokaryotic Genome Annotation Pipeline (PGAP)NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
DateFeb 25, 2024Oct 29, 2021
Genes4,8774,884
Protein-coding4,7194,736
Software version6.65.3

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 reading

Quality analysis

CheckM analysis (v1.2.2)

Completeness: 99.17% (88th Percentile)

Contamination: 0%

Calculated on the Prokaryotic Genome Annotation Pipeline (PGAP) gene set with the Enterobacteriales 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
Rouxiella badensis
Submitted species name
Rouxiella badensis

Average Nucleotide Identity (ANI) match details

Best match type-strain for submitted organismBest match type-strain
Type assemblyGCA_002093665.1GCA_002093665.1
Organism nameRouxiella badensisRouxiella badensis
Type categorytypetype
ANI99.71%99.71%
Assembly coverage87.74%87.74%
Type assembly coverage96.96%96.96%

Chromosomes

Note: This contig-level genome assembly includes 59 contigs and no assembled chromosomes.

Revision history

This record has not been revised

GenBank
RefSeq
Name
Level
Date
Action
GCA_020740185.1GCF_020740185.1ASM2074018v1ContigNov 3, 2021