Title

Whole genome sequencing of Vibrio bathopelagicus clones isolated from Paramoeba atlantica, 2023

Date (Publication)

2025-03-13

Date (Creation)

2022-05-24

Citation identifier

https://sextant.ifremer.fr/record/03ca55a9-ca3d-4074-9545-91c4d9e1a552/

Abstract

This study investigates the diversity of Vibrio bathopelagicus associated with marine amoebae Paramoeba atlantica. Five Vibrio bathopelagicus strains were isolated and subjected to whole genome sequencing (WGS) using the Illumina NextSeq 550 platform. Additionally, one strain underwent sequencing with the Oxford Nanopore MinION platform. The resulting raw reads were assembled to analyze the genomic characteristics and potential functional roles of these bacteria in the marine environment

Credit

Projet Vinseq

Point of contact

Organisation name	Individual name	Electronic mail address	Role
IFREMER	Onillon Laura	Laura.Onillon@ifremer.fr	Author
Université Montpellier	Charrière Guillaume	guillaume.charriere@umontpellier.fr	Author
Université Poitiers	Delafont Vincent	vincent.delafont@univ-poitiers.fr	Author
IFREMER	Travers Marie-Agnes	Marie.Agnes.Travers@ifremer.fr	Author
IFREMER		sismer@ifremer.fr	Publisher

Thèmes Sextant

• /Biological Environment/Bioinformatics

GEMET - INSPIRE themes, version 1.0

• Habitats and biotopes

Use limitation

CC-BY (Creative Commons - Attribution)

Access constraints

Restricted

Use constraints

Restricted

Spatial representation type

Vector

Language

Français

Character set

UTF8

Topic category

• Oceans

Distribution format

Name	Version

OnLine resource

Protocol	Linkage	Name
NETWORK:LINK	/home/ref-bioinfo-public/ifremer/ihpe/WGS_Vinseq

OnLine resource

Protocol	Linkage	Name
DOI	https://doi.org/10.12770/03ca55a9-ca3d-4074-9545-91c4d9e1a552	Digital Object Identifier (DOI)

Hierarchy level

Dataset

Statement

This study aimed to explore the diversity of 5 Vibrio bathopelagicus strains from Paramoeba atlantica isolated using ChromAgar medium incubated at 20°C. Each strain underwent whole genome sequencing (WGS) on the Illumina NextSeq 550 platform to obtain high-quality genomic data. The raw sequencing reads were assembled separately, resulting in multiple genomic assemblies. To enhance assembly quality and provide comprehensive genomic insights, one strain was additionally sequenced using the Oxford Nanopore MinION platform. For this particular strain, a hybrid assembly approach was employed, integrating both Illumina and Nanopore reads to produce a more accurate and complete genome assembly.

Metadata

File identifier

03ca55a9-ca3d-4074-9545-91c4d9e1a552

Metadata language

English

Character set

UTF8

Hierarchy level

Non geographic dataset

Date stamp

2025-04-03T07:57:44.314575Z

Metadata standard name

ISO 19115:2003/19139 - SEXTANT

Metadata standard version

1.0

Metadata author

Organisation name	Individual name	Electronic mail address	Role
IFREMER	Travers Marie-Agnes	Marie.Agnes.Travers@ifremer.fr	Local service desk