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Metagenome-assembled genome: SRR12480122_binner123_Refined_1

Identifiers
BioSample: SAMEA115425341; SRA: ERS18571041
Organism
uncultured Planktomarina sp.
cellular organisms; Bacteria; Pseudomonadati; Pseudomonadota; Alphaproteobacteria; Rhodobacterales; Paracoccaceae; Planktomarina; environmental samples
Attributes
broad-scale environmental contextwater
collection date2017-01-24T16:35:00Z
environmental mediumgo-ship
geographic locationSouthern Ocean
investigation typemetagenome-assembled genome
isolation sourcemarine metagenome
project nameThe Global Ocean Shipboard Hydrographic Investigations Program (GO-SHIP) is a ship-based global survey of ocean hydrographic sections, which are repeatedly measured on a decadal time scale. The program covers a suite of physical (light, heat, currents, water column structure, etc.) and chemical (nutrients, oxygen, dissolved organic and inorganic carbon, pH, etc.) state variables over the full ocean water column, and in areas of the ocean inaccessible to other platforms. The principal scientific objectives for GO-SHIP are: (1) understanding and documenting the large-scale ocean water property distributions, their changes, and drivers of those changes, and (2) addressing questions of how a future ocean will increase in dissolved inorganic carbon, become more acidified and more stratified, and experience changes in circulation and ventilation processes due to global warming and altered water cycle.</p><p>The vision of the biological GO-SHIP initiative, or "Bio-GO-SHIP," is to develop a deep understanding of the link between the physio-chemical environment and global ocean plankton diversity, abundance, and biogeochemical roles in the context of a changing ocean. This will be achieved through systematic, high-quality, and calibrated sampling of marine 'omics products.</p><p>In this BioProject, we aim to provide a singular resource for Bio-GO-SHIP 'omics datasets. We also provide appropriate metadata such that the 'omics data may be linked to the broad range of state variables measured by GO-SHIP and associated oceanographic transects.
sample nameSRR12480122_binner123_Refined_1
ENA first public2024-03-20
ENA-CHECKLISTERC000047
INSDC center nameEMG
INSDC statuspublic
Submitter IdSRR12480122_binner123_Refined_1
assembly qualityMany fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly softwaremetaSPAdes_v3.15.2
binning parametersdefault
binning softwareMGnify-genomes-generation-pipeline_v1.0.0
broker nameEBI-EMG
completeness score66.62
completeness softwareCheckM2_v1.0.1
contamination score1.57
geographic location (latitude)-66.99733300
geographic location (longitude)-102.99802000
local environmental contextocean
metagenomic sourcemarine metagenome
sample derived fromSAMN15783160
scientific_nameuncultured Planktomarina sp.
sequencing methodIllumina NovaSeq 6000
taxonomic identity markermulti-marker approach
Description

This sample represents a Third Party Annotation (TPA) Metagenome-assembled genome assembled from the metagenomic run SRR12480122 of study SRP278138.

BioProject
PRJEB50181
Retrieve all samples from this project

Submission
EBI; 2024-06-04
Accession:
SAMEA115425341
ID:
41667611

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