Metagenome-assembled genome: SRR3401483_bin.89_CON... - BioSample

Metagenome-assembled genome: SRR3401483_bin.89_CONCOCT_v1.1_MAG

Identifiers: BioSample: SAMEA14075443; SRA: ERS11678672

Organism: uncultured Pleurocapsa sp.
cellular organisms; Bacteria; Terrabacteria group; Cyanobacteriota/Melainabacteria group; Cyanobacteriota; Cyanophyceae; Pleurocapsales; Hyellaceae; Pleurocapsa; environmental samples

Attributes

collection date	2008-08-28
broad-scale environmental context	Environmental
local-scale environmental context	Aquatic
environmental medium	Marine
geographic location	Pacific Ocean
investigation type	metagenome-assembled genome
isolation source	marine metagenome
project name	Marine plastic debris has become a significant concern in ocean ecosystems worldwide. Little is known however, about its influence on microbial community structure and function. In 2008, we surveyed microbial communities and metabolic activities in seawater and on plastic on an oceanographic expedition through the ‘Great Pacific garbage patch’. The concentration of plastic particles in surface seawater within different size classes (2-5 mm and > 5 mm) ranged from 0.35-3.7 particles m-3 across sampling stations. These densities and the particle size distribution were consistent with previous values reported in the North Pacific Ocean. Net community oxygen production (NCP = gross primary production - community respiration) on plastic debris was positive and so net autotrophic, whereas NCP in bulk seawater was close to zero. Scanning electron microscopy and metagenomic sequencing of plastic-attached communities revealed the dominance of a few metazoan taxa, and a diverse assemblage of photoautotrophic and heterotrophic protists and bacteria. Bryozoa, Cyanobacteria, Alphaproteobacteria and Bacteroidetes dominated all plastic particles, regardless of particle size. Bacteria inhabiting plastic were taxonomically distinct from surrounding picoplankton, and appeared well adapted to a surface-associated lifestyle. Genes with significantly higher abundances among plastic-attached bacteria included che genes, secretion system genes and nifH genes, suggesting enrichment for chemotaxis, frequent cell-to-cell interactions and nitrogen fixation. In aggregate, our findings suggest that plastic debris forms a habitat for complex microbial assemblages that have lifestyles, metabolic pathways and biogeochemical activities that are distinct from free-living planktonic microbial communities.
sample name	SRR3401483_bin.89_CONCOCT_v1.1_MAG
ENA-CHECKLIST	ERC000047
ENA-FIRST-PUBLIC	2023-01-03
ENA-LAST-UPDATE	2023-01-03
External Id	SAMEA14075443
INSDC center alias	EBI
INSDC center name	European Bioinformatics Institute
INSDC first public	2023-01-03T00:32:39Z
INSDC last update	2023-01-03T00:32:39Z
INSDC status	public
Submitter Id	SRR3401483_bin.89_CONCOCT_v1.1_MAG
assembly quality	Many fragments with little to no review of assembly other than reporting of standard assembly statistics
assembly software	metaSPAdes v3.14.1
binning parameters	Default
binning software	CONCOCT v1.1
broker name	EMG broker account, EMBL-EBI
completeness score	90.99
completeness software	CheckM
contamination score	1.19
geographic location (latitude)	31.990833
geographic location (longitude)	-153.05754
metagenomic source	marine metagenome
sample derived from	SAMN04849738
scientific_name	uncultured Pleurocapsa sp.
sequencing method	NextSeq 500
taxonomic identity marker	multi-marker approach

Description: This sample represents a Third Party Annotation (TPA) Metagenome-Assembled Genome (MAG) assembled from the metagenomic run SRR3401483 of study SRP073479.

BioProject: PRJEB51078 Large-scale analysis of novel cellular microbes from the marine biome
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Submission: EBI; 2023-01-04

Accession:: SAMEA14075443
ID:: 32557358

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Metagenome-assembled genome: SRR3401483_bin.89_CONCOCT_v1.1_MAG

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