Genome assembly ASM3579767v1

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NCBI RefSeq assembly
GCF_035797675.1
Submitted GenBank assembly
GCA_035797675.1
Taxon
Klebsiella aerogenes
Strain
Gar NS 16
WGS project
JAMWTI01
Submitter
NEOSTAR_Indo-UK Project on AMR
Date
Jan 17, 2024

Assembly statistics

RefSeqGenBank
Genome size4.9 Mb4.9 Mb
Total ungapped length4.9 Mb4.9 Mb
Number of contigs5151
Contig N50500.7 kb500.7 kb
Contig L5033
GC percent5555
Genome coverage30.0x30.0x
Assembly levelContigContig
View sequencesview RefSeq sequences

Sample details

BioSample ID
SAMN29057980
Description
Microbe sample from Klebsiella aerogenes
Submitter
ICAR-National Institute of Veterinary Epidemiology and Disease Informatics
Strain
Gar NS 16
Host
Sus scrofa cristatus
Collection date
Feb 20, 2020
Geographic location
India: Guwahati, Garchuk Assam
Sample type
Whole organism
Isolation source
swine
Biomaterial provider
ICAR-NIVEDI
Collected by
Dr. Rakshit & Dr. Suresh
Identified by
Dr. Rakshit & Dr. Suresh
Sample name
2481
Models
Microbe, viral or environmental
Package
Microbe.1.0
Submission date
2022-06-15T06:23:05.423
Publication date
2022-11-19T00:50:12.727
Last updated
2022-11-19T00:50:12.727

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. 3.14.1

BioProject

PRJNA636233

Drug resistant Gram positive and Gram Negative Bacteria leading to antimicrobial resistance across the sectors in One Health perspective Genome sequencing and assembly

Annotation details

RefSeqGenBank
ProviderNCBI RefSeqNCBI
NameNCBI Prokaryotic Genome Annotation Pipeline (PGAP)NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
DateJan 18, 2024Jun 17, 2022
Genes4,7244,714
Protein-coding4,5344,530
Software version6.66.1

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: 96.15% (49th Percentile, dark blue bar)

Contamination: 1.52%

Completeness of Klebsiella aerogenes RefSeq assemblies

Calculated on the Prokaryotic Genome Annotation Pipeline (PGAP) gene set with the Enterobacter aerogenes 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
Klebsiella aerogenes
Submitted species name
Klebsiella aerogenes

Average Nucleotide Identity (ANI) match details

Best match type-strain for submitted organismBest match type-strain
Type assemblyGCA_000215745.1GCA_000215745.1
Organism nameKlebsiella aerogenes KCTC 2190Klebsiella aerogenes
Type categorytypetype
ANI98.83%98.83%
Assembly coverage95.4%95.4%
Type assembly coverage89.39%89.39%

Chromosomes

Note: This contig-level genome assembly includes 51 contigs and no assembled chromosomes.

Revision history

This record has not been revised

GenBank
RefSeq
Name
Level
Date
Action
GCA_035797675.1GCF_035797675.1ASM3579767v1ContigJan 17, 2024