Genome assembly ASM1714240v1

Actions
NCBI RefSeq assembly
GCF_017142405.1 (suppressed)
Submitted GenBank assembly
GCA_017142405.1
Taxon
Serratia marcescens
Strain
MRSN696556
Submitter
Walter Reed Army Institute of Research
Date
Feb 25, 2021

Genome notes

NCBI has noted the following for this genome assembly. View definitions

  • contaminated

Assembly statistics

RefSeqGenBank
Genome size5.8 Mb5.8 Mb
Total ungapped length5.8 Mb5.8 Mb
Number of chromosomes99
Number of scaffolds1313
Scaffold N505.2 Mb5.2 Mb
Scaffold L5011
Number of contigs1313
Contig N505.2 Mb5.2 Mb
Contig L5011
GC percent5858
Genome coverage100.0x100.0x
Assembly levelChromosomeChromosome

Sample details

BioSample ID
SAMN17317342
Description
Pathogen: clinical or host-associated sample from Serratia marcescens
Submitter
Walter Reed Army Institute of Research
Strain
MRSN696556
Collected by
Brooke Army Medical Center
Collection date
Oct 17, 2019
Geographic location
USA: Texas
Host
Homo sapiens
Host disease
bacteremia
Isolation source
blood
Latitude and longitude
29.46 N 98.41 W
Sample name
MRSN696556
Models
Pathogen.cl
Package
Pathogen.cl.1.0
Submission date
2021-01-14T16:39:06.346
Publication date
2021-01-25T00:00:00.000
Last updated
2021-02-24T11:50:13.628

Assembly methods

Sequencing technology
Oxford Nanopore Minion/Illumina Miseq
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
Unicycler v. V0.4.8

Additional genomes

Browse all Serratia marcescens genomes (3125)

BioProject

PRJNA692233

Identification of a novel blaKPC variant in C.koseri

Annotation details

RefSeqGenBank
ProviderNCBI RefSeqNCBI
NameNCBI Prokaryotic Genome Annotation Pipeline (PGAP)NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
DateMar 30, 2023Jan 21, 2021
Genes5,6465,633
Protein-coding5,4105,342
Software version6.45.0

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: 94.83% (9th Percentile)

Contamination: 8.07%

Calculated on the Prokaryotic Genome Annotation Pipeline (PGAP) gene set with the Serratia marcescens 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
Serratia marcescens
Submitted species name
Serratia marcescens

Average Nucleotide Identity (ANI) match details

Best match type-strain for submitted organismBest match type-strain
Type assemblyGCA_017654245.1GCA_017654245.1
Organism nameSerratia marcescens subsp. marcescens ATCC 13880Serratia marcescens
Type categorytypetype
ANI95.32%95.32%
Assembly coverage73.91%73.91%
Type assembly coverage83.97%83.97%

Chromosomes

Chromosome
GenBank
RefSeq
Size (bp)
GC content (%)
Unlocalized count
Action
chromosomeCP068395.1NZ_CP068395.15,235,63259.50
unnamed1CP068396.1NZ_CP068396.1369,008480
unnamed2CP068397.1NZ_CP068397.176,335540
unnamed3CP068398.1NZ_CP068398.162,41447.50
unnamed4CP068399.1NZ_CP068399.159,22350.50
unnamed5CP068400.1NZ_CP068400.119,65054.50
unnamed7CP068406.1NZ_CP068406.13,22356.50
unnamed8CP068407.1NZ_CP068407.11,240460

Revision history

This record has not been revised

GenBank
RefSeq
Name
Level
Date
Action
GCA_017142405.1GCF_017142405.1ASM1714240v1ChromosomeFeb 25, 2021