Metagenome-assembled genome: SRR3724646_concoct_70

Identifiers: BioSample: SAMEA115380486; SRA: ERS18399852

Organism: Candidatus Pelagibacter ubique
cellular organisms; Bacteria; Pseudomonadota; Alphaproteobacteria; Candidatus Pelagibacterales; Candidatus Pelagibacteraceae; Candidatus Pelagibacter

Attributes

broad-scale environmental context	water
collection date	2010-08-11
environmental medium	fjord
geographic location	not provided
investigation type	metagenome-assembled genome
isolation source	marine metagenome
project name	Saanich Inlet is a seasonally anoxic fjord opening to the Strait of Georgia on the southeast coast of Vancouver Island, British Columbia. It is approximately 24 kilometers long with a maximal basin depth of 234 meters and receives limited freshwater input from the surrounding watershed. A shallow glacial entrance sill 75 meters deep restricts circulation within interior and basin waters for most of the year. During spring and summer months, restricted circulation combined with high levels of primary productivity in surface waters lead to oxygen loss with concomitant water column stratification indicated by accumulation of methane (CH4), Ammonia (NH3) and Hydrogen Sulfide (H2S). In late summer and fall, oxygenated nutrient-rich ocean waters upwelling through the Strait cascade into Saanich Inlet shoaling anoxic bottom waters upward and transforming the redox chemistry of the water column. This process is stable on decadal time scales exhibiting a relatively narrow deviation in the depth distribution of the oxycline at different times of year. The recurring seasonal development of water column anoxia followed by deep-water renewal enables spatiotemporal profiling of microbial community structure and function across a wide range of water column redox states.
sample name	SRR3724646_concoct_70
ENA first public	2024-03-07
ENA-CHECKLIST	ERC000047
INSDC center name	EMG
INSDC status	public
Submitter Id	SRR3724646_concoct_70
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	MGnify-genomes-generation-pipeline_v1.0.0
broker name	EBI-EMG
completeness score	57.57
completeness software	CheckM2_v1.0.1
contamination score	2.42
geographic location (latitude)	48.60000000
geographic location (longitude)	-123.50000000
local environmental context	marine
metagenomic source	marine metagenome
sample derived from	SAMN05224401
scientific_name	Candidatus Pelagibacter ubique
sequencing method	Illumina HiSeq 2000
taxonomic identity marker	multi-marker approach

Description: This sample represents a Third Party Annotation (TPA) Metagenome-assembled genome assembled from the metagenomic run SRR3724646 of study SRP043213.

BioProject: PRJEB49035
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Submission: EBI; 2024-06-04

Accession:: SAMEA115380486
ID:: 41665727

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Metagenome-assembled genome: SRR3724646_concoct_70

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