Genome assembly ASM2234798v1

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NCBI RefSeq assembly
GCF_022347985.1
Submitted GenBank assembly
GCA_022347985.1
Taxon
Photobacterium sp. OFAV2-7
Strain
OFAV2-7
WGS project
JAKRFQ01
Submitter
Meyer Microbes Lab
Date
Feb 20, 2022

Assembly statistics

RefSeqGenBank
Genome size4.9 Mb4.9 Mb
Total ungapped length4.9 Mb4.9 Mb
Number of contigs781781
Contig N507 kb7 kb
Contig L50188188
GC percent48.548.5
Genome coverage7.0x7.0x
Assembly levelContigContig
View sequencesview RefSeq sequences

Sample details

BioSample ID
SAMN25860350
Description
MIGS Cultured Bacterial/Archaeal sample from Photobacterium sp. OFAV2-7
Comment
Keywords: GSC:MIxS;MIGS:6.0
Submitter
Meyer Microbes Lab
Strain
OFAV2-7
Collection date
Jan 28, 2020
Broad-scale environmental context
marine coral reef biome [ENVO:01000049]
Local-scale environmental context
offshore reef
Environmental medium
surface mucus layer and tissue
Geographic location
USA: FL, Dry Tortugas
Host
Orbicella faveolata
Isolation and growth condition
seawater medium
Latitude and longitude
24.56 N 81.80 W
Number of replicons
not collected
Reference for biomaterial
unpublished
Isolation source
coral surface mucus layer and tissue
Sample name
OFAV2-7
Models
MIGS.ba, MIGS/MIMS/MIMARKS.host-associated
Package
MIGS.ba.host-associated.6.0
Submission date
2022-02-11T10:59:04.956
Publication date
2022-02-11T00:00:00.000
Last updated
2022-02-14T06:40:04.514

Assembly methods

Sequencing technology
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
SPAdes v. 3.15.3

Additional genomes

Browse all Photobacterium sp. OFAV2-7 genomes (1)

BioProject

PRJNA795563

Genome sequencing and assembly of coral-associated bacteria

Annotation details

RefSeqGenBank
ProviderNCBI RefSeqNCBI
NameGCF_022347985.1-RS_2024_08_18NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
DateAug 18, 2024Feb 15, 2022
Genes4,9224,896
Protein-coding4,6374,790
Software version6.86.0

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 (v1.2.3)

Completeness: 77.37% (100th Percentile)

Contamination: 5.05%

Calculated on the Prokaryotic Genome Annotation Pipeline (PGAP) gene set with the Photobacterium CheckM marker set. For more information on CheckM, see Parks, et al. Genome Res (2015).

Taxonomy check

Taxonomy check status
OK
Best match status
genus_match
Submitted organism name
Photobacterium sp. OFAV2_7
Submitted species name
Photobacterium sp. OFAV2_7

Average Nucleotide Identity (ANI) match details

Best match type-strain for submitted organismBest match type-strain
Type assembly

n/a

GCA_001939735.1
Organism name

n/a

Photobacterium proteolyticum
Type category

n/a

type
ANI

n/a

93%
Assembly coverage

n/a

76.26%
Type assembly coverage

n/a

58.14%

Chromosomes

Note: This contig-level genome assembly includes 781 contigs and no assembled chromosomes.

Revision history

This record has not been revised

GenBank
RefSeq
Name
Level
Date
Action
GCA_022347985.1GCF_022347985.1ASM2234798v1ContigFeb 20, 2022